From 792697dc73c384761c01817c337a91d8ff498dc8 Mon Sep 17 00:00:00 2001 From: Lionel Henry Date: Fri, 29 May 2020 13:29:11 +0200 Subject: [PATCH] Update dplyr revdeps with CRAN vctrs --- revdep/dplyr/README.md | 396 +- revdep/dplyr/failures.md | 17255 +++++++++++-------------------------- revdep/dplyr/problems.md | Bin 124362 -> 128519 bytes 3 files changed, 5137 insertions(+), 12514 deletions(-) diff --git a/revdep/dplyr/README.md b/revdep/dplyr/README.md index 0b0d11a9c..ffd7adfde 100644 --- a/revdep/dplyr/README.md +++ b/revdep/dplyr/README.md @@ -1,245 +1,163 @@ -# Platform - -|field |value | -|:--------|:----------------------------| -|version |R version 4.0.0 (2020-04-24) | -|os |macOS Mojave 10.14.6 | -|system |x86_64, darwin17.0 | -|ui |X11 | -|language |(EN) | -|collate |en_US.UTF-8 | -|ctype |en_US.UTF-8 | -|tz |Europe/Paris | -|date |2020-05-28 | - -# Dependencies - -|package |old |new |Δ | -|:----------|:--------|:-----------|:--| -|dplyr |0.8.5 |0.8.99.9003 |* | -|assertthat |0.2.1 |0.2.1 | | -|BH |1.72.0-3 |NA |* | -|cli |2.0.2 |2.0.2 | | -|crayon |1.3.4 |1.3.4 | | -|digest |0.6.25 |0.6.25 | | -|ellipsis |0.3.1 |0.3.1 | | -|fansi |0.4.1 |0.4.1 | | -|generics |NA |0.0.2 |* | -|glue |1.4.1 |1.4.1 | | -|lifecycle |0.2.0 |0.2.0 | | -|magrittr |1.5 |1.5 | | -|pillar |1.4.4 |1.4.4 | | -|pkgconfig |2.0.3 |2.0.3 | | -|plogr |0.2.0 |NA |* | -|purrr |0.3.4 |0.3.4 | | -|R6 |2.4.1 |2.4.1 | | -|Rcpp |1.0.4.6 |NA |* | -|rlang |0.4.6 |0.4.6 | | -|tibble |3.0.1 |3.0.1 | | -|tidyselect |1.1.0 |1.1.0 | | -|utf8 |1.1.4 |1.1.4 | | -|vctrs |0.3.0 |0.3.0 | | - # Revdeps -## Failed to check (127) +## Failed to check (72) -|package |version |error |warning |note | -|:--------------------------------------------------|:--------|:---------|:-------|:------| -|ACDm |1.0.4 |1 | | | -|ADMMsigma |2.1 |1 | | | -|airGR |1.4.3.65 |1 | | | -|arrow |0.17.0 |1 | | | -|BAS |1.5.5 |1 | | | -|bayesammi |0.1.0 |1 | | | -|BayesPostEst |0.2.0 |1 | | | -|BgeeDB |2.14.0 |1 | | | -|bigsnpr |1.3.0 |1 | | | -|bioCancer |? | | | | -|BivRec |1.2.0 |1 | | | -|bkmr |0.2.0 |1 | | | -|BMTME |1.0.12 |1 | | | -|BradleyTerryScalable |0.1.0 |1 | | | -|brunnermunzel |1.4.1 |1 | | | -|bsam |1.1.2 |1 | | | -|BUSpaRse |1.1.5 |1 | |1 | -|carat |1.0 |1 | | | -|CaseBasedReasoning |0.1 |1 | | | -|CB2 |1.3.1 |1 | | | -|ChIPseeker |? | | | | -|CINdex |? | | | | -|circumplex |0.3.6 |1 | | | -|clustermq |0.8.9 |1 | |1 | -|clusterProfiler |? | | | | -|CNPBayes |1.13.5 |1 | | | -|colorednoise |1.0.5 |1 | | | -|COMPASS |1.26.0 |1 | |1 | -|concurve |2.5.0 |1 | | | -|corrcoverage |1.2.1 |1 | | | -|Countr |3.5.4 |1 | | | -|cpr |0.2.3 |1 | | | -|crawl |2.2.1 |1 | | | -|CytoML |2.0.0 |1 | | | -|dann |0.2.0 |1 | | | -|DAPAR |1.20.1 |1 | | | -|DataVisualizations |1.1.11 |1 | |1 | -|DEP |1.10.0 |1 | | | -|DepthProc |2.1.3 |1 | | | -|dexter |1.0.7 |1 | | | -|DiffBind |2.16.0 |1 | |5 | -|dodgr |0.2.7 |1 | | | -|downscaledl |1.0 |1 | | | -|dscore |1.2.0 |1 | | | -|dtwclust |5.5.6 |1 | | | -|[DuoClustering2018](failures.md#duoclustering2018) |1.6.0 |-1 __+1__ | |__+1__ | -|dynfrail |0.5.2 |1 | | | -|ENCODExplorer |2.14.0 |1 | |1 | -|exuber |0.4.0 |1 | |1 | -|fable |0.2.0 |1 | | | -|fastLink |0.6.0 |1 | | | -|flowWorkspace |4.0.0 |1 | | | -|fourierin |0.2.4 |1 | | | -|gap |1.2.2 |1 | |1 | -|GAPGOM |? | | | | -|gastempt |0.5.0 |1 | | | -|GenomicMating |2.0 |1 | | | -|geodiv |0.1.1 |1 | | | -|GEOquery |2.56.0 |1 | |4 | -|gespeR |1.20.0 |1 | | | -|goldi |1.0.1 |1 | | | -|graphicalVAR |0.2.3 |1 | | | -|grasp2db |1.1.0 |1 |3 |4 | -|heatwaveR |0.4.2 |1 | |1 | -|ideal |1.12.0 |1 | |1 | -|idefix |0.4.3 |1 | | | -|infercnv |1.4.0 |1 | | | -|iRF |2.0.0 |1 | | | -|joineRML |0.4.4 |1 | | | -|lpirfs |0.1.7 |1 | |1 | -|maEndToEnd |? | | | | -|metagene2 |1.4.0 |1 | | | -|mfbvar |0.5.3 |1 | | | -|miceFast |0.5.1 |1 | | | -|MixMatrix |0.2.4 |1 | | | -|momentuHMM |1.5.1 |1 | | | -|MonetDBLite |0.6.0 |1 | |1 | -|morse |3.2.5 |1 | | | -|mrgsolve |0.10.1 |1 | | | -|NobBS |0.1.0 |1 | | | -|NoRCE |? | | | | -|openair |2.7-2 |1 | | | -|partition |0.1.1 |1 | | | -|pccc |1.0.3 |1 | | | -|phase1PRMD |1.0.2 |1 | | | -|phenofit |0.2.7 |1 | | | -|phyr |1.0.2 |1 | |1 | -|PLNmodels |0.9.5 |1 | | | -|pomp |2.8 |1 | | | -|PPforest |0.1.1 |1 | | | -|pRoloc |1.28.0 |1 | | | -|psychmeta |2.3.8 |1 | | | -|psychonetrics |0.7.1 |1 | | | -|qgraph |1.6.5 |1 | |1 | -|quanteda |2.0.1 |1 | | | -|quokar |0.1.0 |1 | | | -|qwraps2 |0.4.2 |1 | | | -|[Rariant](failures.md#rariant) |1.24.0 |__+1__ |-1 |-3 | -|rbridge |1.0.2 |1 | | | -|registr |1.0.0 |1 | | | -|resautonet |1.0 |1 | | | -|rnaseqGene |1.12.0 |1 | |1 | -|RSSL |0.9.1 |1 | | | -|RxODE |0.9.2-0 |1 | |1 | -|sarima |0.8.2 |1 | | | -|scanstatistics |1.0.1 |1 | | | -|scfind |1.9.0 |1 | | | -|scGPS |? | | | | -|scmap |1.10.0 |1 | | | -|[SCORPIUS](failures.md#scorpius) |1.0.6 |__+1__ | | | -|SCPME |1.0 |1 | | | -|selectKSigs |1.0.0 |1 | | | -|SimBIID |0.1.4 |1 | | | -|simts |0.1.1 |1 | | | -|SpaCCr |0.1.0 |1 | | | -|stcos |0.2.1 |1 | | | -|TCGAbiolinks |2.16.0 |1 | | | -|TCGAbiolinksGUI |1.14.0 |1 | | | -|telefit |1.0.3 |1 | | | -|TestDimorph |0.3.1 |1 | | | -|tidybulk |? | | | | -|ToxicoGx |0.1.1 |1 | | | -|VarSelLCM |2.1.3 |1 | | | -|vlad |0.2.0 |1 | | | -|walker |0.3.1-1 |1 | | | -|weibulltools |1.0.1 |1 | | | -|XBSeq |1.20.0 |1 | |3 | +|package |version |error |warning |note | +|:----------------------------------|:-------|:------|:-------|:----| +|accept |? | | | | +|afmToolkit |? | | | | +|anomaly |? | | | | +|ANOVAShiny |? | | | | +|archivist |? | | | | +|arena2r |? | | | | +|arkdb |? | | | | +|asremlPlus |? | | | | +|auctestr |? | | | | +|bayesplot |? | | | | +|beats |? | | | | +|bestSDP |? | | | | +|bfw |? | | | | +|bggum |? | | | | +|BGPhazard |? | | | | +|bioinactivation |? | | | | +|butcher |? | | | | +|CB2 |? | | | | +|cbar |? | | | | +|[CCAMLRGIS](failures.md#ccamlrgis) |3.0.3 |__+1__ | | | +|CLUSTShiny |? | | | | +|CollapsABEL |? | | | | +|DemografixeR |? | | | | +|DepthProc |? | | | | +|diceR |? | | | | +|Distance |1.0.0 |1 | | | +|DiversityOccupancy |? | | | | +|ESTER |? | | | | +|EstimateGroupNetwork |? | | | | +|EventStudy |0.36 |1 | | | +|FedData |? | | | | +|fingertipscharts |0.0.10 |1 | | | +|gastempt |0.5.0 |1 | | | +|GeneBook |1.0 |1 | | | +|GenomicMating |? | | | | +|GetLattesData |? | | | | +|GetQuandlData |? | | | | +|GPSCDF |? | | | | +|HURDAT |? | | | | +|IETD |? | | | | +|IncucyteDRC |? | | | | +|JacobiEigen |? | | | | +|jstor |? | | | | +|MarketMatching |? | | | | +|MazamaSpatialUtils |? | | | | +|MBNMAtime |? | | | | +|MetaboList |? | | | | +|MixMatrix |? | | | | +|MLRShiny |? | | | | +|nesRdata |0.3.1 |1 | | | +|NetworkExtinction |? | | | | +|OncoBayes2 |? | | | | +|PAutilities |? | | | | +|PKNCA |? | | | | +|PKPDmisc |? | | | | +|PML |? | | | | +|PupilPre |? | | | | +|R2019nCoV |? | | | | +|RClickhouse |? | | | | +|RCzechia |? | | | | +|rdflib |0.2.3 |1 | | | +|RDML |1.0 |1 | | | +|SDLfilter |2.0.0 |1 | | | +|SimDesign |? | | | | +|SupMZ |? | | | | +|Tcomp |? | | | | +|trackdf |? | | | | +|trackr |? | | | | +|TrafficBDE |? | | | | +|UniprotR |? | | | | +|VarSelLCM |? | | | | +|wrswoR |? | | | | -## New problems (64) +## New problems (79) -|package |version |error |warning |note | -|:------------------------------------------------|:-------|:--------|:-------|:----| -|[AlphaBeta](problems.md#alphabeta) |1.2.0 |__+1__ | |2 | -|[amt](problems.md#amt) |0.1.1 |__+1__ | | | -|[BMSC](problems.md#bmsc) |0.2.0 |__+1__ | |1 | -|[cattonum](problems.md#cattonum) |0.0.4 |__+1__ | | | -|[circRNAprofiler](problems.md#circrnaprofiler) |1.2.0 |1 __+1__ | |1 | -|[CollapseLevels](problems.md#collapselevels) |0.2.0 |__+1__ | | | -|[cvms](problems.md#cvms) |1.0.1 |__+1__ | | | -|[ddpcr](problems.md#ddpcr) |1.14 | |__+1__ | | -|[DEGreport](problems.md#degreport) |1.24.0 |__+2__ | |3 | -|[disk.frame](problems.md#diskframe) |0.3.5 |__+1__ |__+1__ | | -|[DLMtool](problems.md#dlmtool) |5.4.3 |__+1__ | |1 | -|[docxtools](problems.md#docxtools) |0.2.1 |__+2__ | | | -|[driftR](problems.md#driftr) |1.1.0 |__+1__ | | | -|[easyr](problems.md#easyr) |0.3-1 |__+1__ | | | -|[eda4treeR](problems.md#eda4treer) |0.2.0 |__+1__ | |1 | -|[egor](problems.md#egor) |0.20.03 | |__+1__ | | -|[episheet](problems.md#episheet) |0.4.0 |__+2__ | | | -|[expstudies](problems.md#expstudies) |0.0.5 |__+1__ | | | -|[fabletools](problems.md#fabletools) |0.1.3 |__+2__ | | | -|[fingertipscharts](problems.md#fingertipscharts) |0.0.10 |__+2__ | |1 | -|[foieGras](problems.md#foiegras) |0.4.0 |__+2__ | |1 | -|[geometr](problems.md#geometr) |0.2.4 |__+1__ | |1 | -|[geomnet](problems.md#geomnet) |0.2.0 |__+1__ | | | -|[getTBinR](problems.md#gettbinr) |0.7.0 |__+1__ | | | -|[ggedit](problems.md#ggedit) |0.3.0 |__+1__ | |1 | -|[gratia](problems.md#gratia) |0.3.1 |__+1__ | | | -|[HaDeX](problems.md#hadex) |1.1 |__+2__ | |1 | -|[healthcareai](problems.md#healthcareai) |2.4.0 |__+1__ | | | -|[idmodelr](problems.md#idmodelr) |0.3.1 |__+1__ | | | -|[isomiRs](problems.md#isomirs) |1.16.1 |1 __+1__ | |3 | -|[lans2r](problems.md#lans2r) |1.0.5 |__+1__ | | | -|[LexisNexisTools](problems.md#lexisnexistools) |0.3.0 |__+1__ | | | -|[mmetrics](problems.md#mmetrics) |0.3.0 |__+1__ | |1 | -|[MSstatsTMT](problems.md#msstatstmt) |1.6.1 |__+2__ | | | -|[neuropsychology](problems.md#neuropsychology) |0.5.0 |__+1__ | |1 | -|[ngsReports](problems.md#ngsreports) |1.4.1 |__+1__ | |1 | -|[opentripplanner](problems.md#opentripplanner) |0.2.1.0 |__+1__ | |1 | -|[pammtools](problems.md#pammtools) |0.2.3 | |__+1__ | | -|[PAST](problems.md#past) |1.4.1 |__+1__ |2 |1 | -|[photosynthesis](problems.md#photosynthesis) |1.0.0 |__+1__ | |1 | -|[pmdplyr](problems.md#pmdplyr) |0.3.1.1 |__+2__ |__+1__ | | -|[rabhit](problems.md#rabhit) |0.1.4 |__+1__ | | | -|[ratPASTA](problems.md#ratpasta) |0.1.0 |__+1__ | |1 | -|[RCMIP5](problems.md#rcmip5) |1.2.0 |__+1__ | | | -|[rsample](problems.md#rsample) |0.0.6 |__+1__ | | | -|[saotd](problems.md#saotd) |0.2.0 |__+1__ | |1 | -|[sergeant](problems.md#sergeant) |0.5.2 | |__+1__ | | -|[sevenbridges](problems.md#sevenbridges) |1.18.0 |__+1__ | |1 | -|[simglm](problems.md#simglm) |0.7.4 |__+1__ | | | -|[SIRItoGTFS](problems.md#siritogtfs) |0.2.4 |__+1__ | | | -|[skynet](problems.md#skynet) |1.3.0 |__+1__ | |1 | -|[strapgod](problems.md#strapgod) |0.0.4 |__+1__ | | | -|[StratigrapheR](problems.md#stratigrapher) |1.0.1 |__+1__ | | | -|[tidyjson](problems.md#tidyjson) |0.3.0 |__+2__ | | | -|[tidyRSS](problems.md#tidyrss) |2.0.1 |__+1__ | | | -|[tidystats](problems.md#tidystats) |0.4 |__+1__ | |2 | -|[tidystopwords](problems.md#tidystopwords) |0.9.0 |__+1__ | |1 | -|[timeOmics](problems.md#timeomics) |1.0.0 |__+2__ | |3 | -|[TPP](problems.md#tpp) |3.16.0 |__+2__ | |3 | -|[tree.bins](problems.md#treebins) |0.1.1 |__+1__ | |1 | -|[treeplyr](problems.md#treeplyr) |0.1.7 |__+1__ | | | -|[vcfR](problems.md#vcfr) |1.10.0 |__+2__ | | | -|[vpc](problems.md#vpc) |1.2.0 |__+2__ | | | -|[yamlet](problems.md#yamlet) |0.4.7 | |__+1__ |-1 | +|package |version |error |warning |note | +|:--------------------------------------------------|:-------|:------|:-------|:----| +|[amt](problems.md#amt) |0.1.1 |__+1__ | | | +|[anomalize](problems.md#anomalize) |0.2.0 |__+2__ | | | +|[applicable](problems.md#applicable) |0.0.1 |__+1__ | | | +|[bdl](problems.md#bdl) |1.0.2 |__+1__ | | | +|[BMRSr](problems.md#bmrsr) |1.0.1 |__+1__ | | | +|[cattonum](problems.md#cattonum) |0.0.4 |__+1__ | | | +|[codebook](problems.md#codebook) |0.8.2 |__+1__ | |2 | +|[CollapseLevels](problems.md#collapselevels) |0.2.0 |__+1__ | | | +|[correlationfunnel](problems.md#correlationfunnel) |0.1.0 |__+1__ | |2 | +|[cutpointr](problems.md#cutpointr) |1.0.2 |__+1__ | | | +|[ddpcr](problems.md#ddpcr) |1.14 | |__+1__ | | +|[disk.frame](problems.md#diskframe) |0.3.5 |__+1__ |__+1__ | | +|[docxtools](problems.md#docxtools) |0.2.1 |__+2__ | | | +|[driftR](problems.md#driftr) |1.1.0 |__+1__ | | | +|[DSpoty](problems.md#dspoty) |0.1.0 | |__+1__ | | +|[easyr](problems.md#easyr) |0.3-1 |__+1__ | | | +|[eda4treeR](problems.md#eda4treer) |0.2.0 |__+1__ | |1 | +|[egor](problems.md#egor) |0.20.03 | |__+1__ | | +|[episheet](problems.md#episheet) |0.4.0 |__+2__ | | | +|[expstudies](problems.md#expstudies) |0.0.5 |__+1__ | | | +|[fable](problems.md#fable) |0.2.0 |__+2__ | | | +|[fabletools](problems.md#fabletools) |0.1.3 |__+2__ | | | +|[finalfit](problems.md#finalfit) |1.0.1 |__+1__ | | | +|[foieGras](problems.md#foiegras) |0.4.0 |__+2__ | |1 | +|[geometr](problems.md#geometr) |0.2.4 |__+1__ | |1 | +|[getTBinR](problems.md#gettbinr) |0.7.0 |__+1__ | | | +|[ggedit](problems.md#ggedit) |0.3.0 |__+1__ | |1 | +|[gratia](problems.md#gratia) |0.3.1 |__+1__ | | | +|[healthcareai](problems.md#healthcareai) |2.4.0 |__+1__ | | | +|[idmodelr](problems.md#idmodelr) |0.3.1 |__+1__ | | | +|[immunarch](problems.md#immunarch) |0.6.4 |__+1__ | |2 | +|[infer](problems.md#infer) |0.5.1 |__+1__ | |1 | +|[jpndistrict](problems.md#jpndistrict) |0.3.6 |__+1__ | |1 | +|[keyATM](problems.md#keyatm) |0.2.0 |__+1__ | |2 | +|[lpirfs](problems.md#lpirfs) |0.1.7 |__+1__ | |1 | +|[mason](problems.md#mason) |0.2.6 |__+1__ | |1 | +|[mcp](problems.md#mcp) |0.2.0 |__+1__ | |1 | +|[metamicrobiomeR](problems.md#metamicrobiomer) |1.1 |__+1__ | |1 | +|[mmetrics](problems.md#mmetrics) |0.3.0 |__+1__ | |1 | +|[neuropsychology](problems.md#neuropsychology) |0.5.0 |__+1__ | |1 | +|[opentripplanner](problems.md#opentripplanner) |0.2.1.0 |__+1__ | |1 | +|[pammtools](problems.md#pammtools) |0.2.3 | |__+1__ | | +|[panelr](problems.md#panelr) |0.7.2 |__+2__ | |1 | +|[patternize](problems.md#patternize) |0.0.2 | |__+1__ | | +|[photosynthesis](problems.md#photosynthesis) |1.0.0 |__+1__ | |1 | +|[pmdplyr](problems.md#pmdplyr) |0.3.1.1 |__+2__ |__+1__ | | +|[ptstem](problems.md#ptstem) |0.0.7 |__+1__ | |1 | +|[purrrogress](problems.md#purrrogress) |0.1.1 |__+1__ | |1 | +|[rabhit](problems.md#rabhit) |0.1.4 |__+1__ | | | +|[rainette](problems.md#rainette) |0.1.1 |__+1__ | | | +|[ratPASTA](problems.md#ratpasta) |0.1.0 |__+1__ | |1 | +|[RCMIP5](problems.md#rcmip5) |1.2.0 |__+1__ | | | +|[rcv](problems.md#rcv) |0.2.1 |__+1__ | |1 | +|[rsample](problems.md#rsample) |0.0.6 |__+1__ | | | +|[RTL](problems.md#rtl) |0.1.1 |__+1__ | |2 | +|[rules](problems.md#rules) |0.0.1 |__+1__ | | | +|[saotd](problems.md#saotd) |0.2.0 |__+1__ | |1 | +|[sergeant](problems.md#sergeant) |0.5.2 | |__+1__ | | +|[sf](problems.md#sf) |0.9-3 |__+2__ | |1 | +|[simglm](problems.md#simglm) |0.7.4 |__+1__ | | | +|[simplevis](problems.md#simplevis) |1.1.3 |__+1__ | |1 | +|[SIRItoGTFS](problems.md#siritogtfs) |0.2.4 |__+1__ | | | +|[sistec](problems.md#sistec) |0.0.2 |__+1__ | | | +|[skynet](problems.md#skynet) |1.3.0 |__+1__ | |1 | +|[strapgod](problems.md#strapgod) |0.0.4 |__+1__ | | | +|[StratigrapheR](problems.md#stratigrapher) |1.0.1 |__+1__ | | | +|[sugarbag](problems.md#sugarbag) |0.1.2 |__+1__ | |1 | +|[tidyjson](problems.md#tidyjson) |0.3.0 |__+2__ | | | +|[tidyRSS](problems.md#tidyrss) |2.0.1 |__+1__ | | | +|[tidystats](problems.md#tidystats) |0.4 |__+1__ | |2 | +|[tidystopwords](problems.md#tidystopwords) |0.9.0 |__+1__ | |1 | +|[timetk](problems.md#timetk) |1.0.0 |__+1__ | |2 | +|[tree.bins](problems.md#treebins) |0.1.1 |__+1__ | |1 | +|[treeplyr](problems.md#treeplyr) |0.1.7 |__+1__ | | | +|[tsibble](problems.md#tsibble) |0.8.6 |__+2__ | |1 | +|[TSstudio](problems.md#tsstudio) |0.1.6 |__+1__ | |1 | +|[vcfR](problems.md#vcfr) |1.10.0 |__+2__ | |1 | +|[vpc](problems.md#vpc) |1.2.0 |__+2__ | | | +|[yamlet](problems.md#yamlet) |0.4.7 | |__+1__ |-1 | diff --git a/revdep/dplyr/failures.md b/revdep/dplyr/failures.md index 06f156d39..cde810e6d 100644 --- a/revdep/dplyr/failures.md +++ b/revdep/dplyr/failures.md @@ -1,712 +1,601 @@ -# ACDm +# accept
-* Version: 1.0.4 -* Source code: https://github.com/cran/ACDm -* Date/Publication: 2016-07-16 12:19:03 -* Number of recursive dependencies: 83 +* Version: 0.7.1 +* Source code: https://github.com/cran/accept +* Date/Publication: 2020-03-18 22:00:02 UTC +* Number of recursive dependencies: 77 -Run `revdep_details(,"ACDm")` for more info +Run `cloud_details(, "accept")` for more info
-## In both - -* checking whether package ‘ACDm’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ACDm/new/ACDm.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘ACDm’ ... -** package ‘ACDm’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c computeDurations.c -o computeDurations.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c getLL.c -o getLL.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c getScore.c -o getScore.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c getdudtheta.c -o getdudtheta.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_ABACD.c -o sim_ABACD.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_ACDCALL.c -o sim_ACDCALL.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_ACDSpline.c -o sim_ACDSpline.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_AMACD.c -o sim_AMACD.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_LACD1.c -o sim_LACD1.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_LACD2.c -o sim_LACD2.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ACDm.so computeDurations.o getLL.o getScore.o getdudtheta.o sim_ABACD.o sim_ACDCALL.o sim_ACDSpline.o sim_AMACD.o sim_LACD1.o sim_LACD2.o -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [ACDm.so] Error 1 -ERROR: compilation failed for package ‘ACDm’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ACDm/new/ACDm.Rcheck/ACDm’ +* using log directory ‘/tmp/workdir/accept/new/accept.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘accept/DESCRIPTION’ ... OK +* this is package ‘accept’ version ‘0.7.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘accept’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/accept/new/accept.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR -``` -### CRAN -``` -* installing *source* package ‘ACDm’ ... -** package ‘ACDm’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c computeDurations.c -o computeDurations.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c getLL.c -o getLL.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c getScore.c -o getScore.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c getdudtheta.c -o getdudtheta.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_ABACD.c -o sim_ABACD.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_ACDCALL.c -o sim_ACDCALL.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_ACDSpline.c -o sim_ACDSpline.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_AMACD.c -o sim_AMACD.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_LACD1.c -o sim_LACD1.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sim_LACD2.c -o sim_LACD2.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ACDm.so computeDurations.o getLL.o getScore.o getdudtheta.o sim_ABACD.o sim_ACDCALL.o sim_ACDSpline.o sim_AMACD.o sim_LACD1.o sim_LACD2.o -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [ACDm.so] Error 1 -ERROR: compilation failed for package ‘ACDm’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ACDm/old/ACDm.Rcheck/ACDm’ - -``` -# ADMMsigma -
-* Version: 2.1 -* Source code: https://github.com/cran/ADMMsigma -* URL: https://github.com/MGallow/ADMMsigma -* BugReports: https://github.com/MGallow/ADMMsigma/issues -* Date/Publication: 2018-08-02 17:10:02 UTC -* Number of recursive dependencies: 83 -Run `revdep_details(,"ADMMsigma")` for more info -
+``` +### CRAN -## In both +``` +* using log directory ‘/tmp/workdir/accept/old/accept.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘accept/DESCRIPTION’ ... OK +* this is package ‘accept’ version ‘0.7.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘accept’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/accept/old/accept.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR -* checking whether package ‘ADMMsigma’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ADMMsigma/new/ADMMsigma.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘ADMMsigma’ ... -** package ‘ADMMsigma’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CV.cpp -o CV.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CVP.cpp -o CVP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c Sigma.cpp -o Sigma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c soft.cpp -o soft.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ADMMsigma.so CV.o CVP.o RcppExports.o Sigma.o soft.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [ADMMsigma.so] Error 1 -ERROR: compilation failed for package ‘ADMMsigma’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ADMMsigma/new/ADMMsigma.Rcheck/ADMMsigma’ -``` -### CRAN ``` -* installing *source* package ‘ADMMsigma’ ... -** package ‘ADMMsigma’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CV.cpp -o CV.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CVP.cpp -o CVP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c Sigma.cpp -o Sigma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/ADMMsigma/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c soft.cpp -o soft.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ADMMsigma.so CV.o CVP.o RcppExports.o Sigma.o soft.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [ADMMsigma.so] Error 1 -ERROR: compilation failed for package ‘ADMMsigma’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ADMMsigma/old/ADMMsigma.Rcheck/ADMMsigma’ - -``` -# airGR +# afmToolkit
-* Version: 1.4.3.65 -* Source code: https://github.com/cran/airGR -* URL: https://hydrogr.github.io/airGR/ -* BugReports: https://gitlab.irstea.fr/HYCAR-Hydro/airgr/issues -* Date/Publication: 2020-02-28 16:20:06 UTC -* Number of recursive dependencies: 79 +* Version: 0.0.1 +* Source code: https://github.com/cran/afmToolkit +* Date/Publication: 2017-04-03 15:30:48 UTC +* Number of recursive dependencies: 54 -Run `revdep_details(,"airGR")` for more info +Run `cloud_details(, "afmToolkit")` for more info
-## In both - -* checking whether package ‘airGR’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/airGR/new/airGR.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘airGR’ ... -** package ‘airGR’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c airGR.c -o airGR.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_CEMANEIGE.f90 -o frun_CEMANEIGE.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR1A.f90 -o frun_GR1A.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR2M.f90 -o frun_GR2M.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR4H.f90 -o frun_GR4H.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR4J.f90 -o frun_GR4J.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR5H.f90 -o frun_GR5H.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR5J.f90 -o frun_GR5J.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR6J.f90 -o frun_GR6J.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c utils_D.f90 -o utils_D.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c utils_H.f90 -o utils_H.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o airGR.so airGR.o frun_CEMANEIGE.o frun_GR1A.o frun_GR2M.o frun_GR4H.o frun_GR4J.o frun_GR5H.o frun_GR5J.o frun_GR6J.o utils_D.o utils_H.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [airGR.so] Error 1 -ERROR: compilation failed for package ‘airGR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/airGR/new/airGR.Rcheck/airGR’ +* using log directory ‘/tmp/workdir/afmToolkit/new/afmToolkit.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘afmToolkit/DESCRIPTION’ ... OK +* this is package ‘afmToolkit’ version ‘0.0.1’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘airGR’ ... -** package ‘airGR’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c airGR.c -o airGR.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_CEMANEIGE.f90 -o frun_CEMANEIGE.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR1A.f90 -o frun_GR1A.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR2M.f90 -o frun_GR2M.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR4H.f90 -o frun_GR4H.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR4J.f90 -o frun_GR4J.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR5H.f90 -o frun_GR5H.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR5J.f90 -o frun_GR5J.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c frun_GR6J.f90 -o frun_GR6J.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c utils_D.f90 -o utils_D.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c utils_H.f90 -o utils_H.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o airGR.so airGR.o frun_CEMANEIGE.o frun_GR1A.o frun_GR2M.o frun_GR4H.o frun_GR4J.o frun_GR5H.o frun_GR5J.o frun_GR6J.o utils_D.o utils_H.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [airGR.so] Error 1 -ERROR: compilation failed for package ‘airGR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/airGR/old/airGR.Rcheck/airGR’ - -``` -# arrow -
-* Version: 0.17.0 -* Source code: https://github.com/cran/arrow -* URL: https://github.com/apache/arrow/, https://arrow.apache.org/docs/r -* BugReports: https://issues.apache.org/jira/projects/ARROW/issues -* Date/Publication: 2020-04-21 18:10:02 UTC -* Number of recursive dependencies: 58 -Run `revdep_details(,"arrow")` for more info -
-## In both +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/afmToolkit/old/afmToolkit.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘afmToolkit/DESCRIPTION’ ... OK +* this is package ‘afmToolkit’ version ‘0.0.1’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘arrow’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/arrow/new/arrow.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘arrow’ ... -** package ‘arrow’ successfully unpacked and MD5 sums checked -** using staged installation -*** Generating code with data-raw/codegen.R -Fatal error: cannot open file 'data-raw/codegen.R': No such file or directory -*** Arrow C++ libraries found via pkg-config -PKG_CFLAGS=-DNDEBUG -I/usr/local/Cellar/apache-arrow/HEAD-1286f7a_3/include -DARROW_R_WITH_ARROW -PKG_LIBS=-L/usr/local/Cellar/apache-arrow/HEAD-1286f7a_3/lib -larrow_dataset -lparquet -larrow -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DNDEBUG -I/usr/local/Cellar/apache-arrow/HEAD-1286f7a_3/include -DARROW_R_WITH_ARROW -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/arrow/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c array.cpp -o array.o -In file included from array.cpp:18: -././arrow_types.h:200:10: fatal error: 'arrow/c/bridge.h' file not found -#include - ^~~~~~~~~~~~~~~~~~ -1 error generated. -make: *** [array.o] Error 1 -ERROR: compilation failed for package ‘arrow’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/arrow/new/arrow.Rcheck/arrow’ -``` -### CRAN ``` -* installing *source* package ‘arrow’ ... -** package ‘arrow’ successfully unpacked and MD5 sums checked -** using staged installation -*** Generating code with data-raw/codegen.R -Fatal error: cannot open file 'data-raw/codegen.R': No such file or directory -*** Arrow C++ libraries found via pkg-config -PKG_CFLAGS=-DNDEBUG -I/usr/local/Cellar/apache-arrow/HEAD-1286f7a_3/include -DARROW_R_WITH_ARROW -PKG_LIBS=-L/usr/local/Cellar/apache-arrow/HEAD-1286f7a_3/lib -larrow_dataset -lparquet -larrow -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DNDEBUG -I/usr/local/Cellar/apache-arrow/HEAD-1286f7a_3/include -DARROW_R_WITH_ARROW -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c array.cpp -o array.o -In file included from array.cpp:18: -././arrow_types.h:200:10: fatal error: 'arrow/c/bridge.h' file not found -#include - ^~~~~~~~~~~~~~~~~~ -1 error generated. -make: *** [array.o] Error 1 -ERROR: compilation failed for package ‘arrow’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/arrow/old/arrow.Rcheck/arrow’ - -``` -# BAS +# anomaly
-* Version: 1.5.5 -* Source code: https://github.com/cran/BAS -* URL: https://www.r-project.org, https://github.com/merliseclyde/BAS -* BugReports: https://github.com/merliseclyde/BAS/issues -* Date/Publication: 2020-01-24 22:50:14 UTC -* Number of recursive dependencies: 88 +* Version: 3.0.1 +* Source code: https://github.com/cran/anomaly +* Date/Publication: 2020-04-06 12:42:07 UTC +* Number of recursive dependencies: 84 -Run `revdep_details(,"BAS")` for more info +Run `cloud_details(, "anomaly")` for more info
-## In both - -* checking whether package ‘BAS’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BAS/new/BAS.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BAS’ ... -** package ‘BAS’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c E_ZS.c -o E_ZS.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ZS_approx_full_np.c -o ZS_approx_full_np.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ZS_approx_null_np.c -o ZS_approx_null_np.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c bayesglm.c -o bayesglm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c bayesreg.c -o bayesreg.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c betapriorfamily.c -o betapriorfamily.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c cch.c -o cch.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c const.c -o const.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c family.c -o family.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gamma.c -o gamma.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_deterministic.c -o glm_deterministic.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_fit.c -o glm_fit.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_lpy.c -o glm_lpy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_mcmc.c -o glm_mcmc.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_mcmcbas.c -o glm_mcmcbas.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_sampleworep.c -o glm_sampleworep.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hg_approx_null_np.c -o hg_approx_null_np.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hyp2f1.c -o hyp2f1.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hyperg.c -o hyperg.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hypergeoF.c -o hypergeoF.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hypergeometric1F1.c -o hypergeometric1F1.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_deterministic.c -o lm_deterministic.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_mcmc.c -o lm_mcmc.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_mcmcbas.c -o lm_mcmcbas.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_sampleworep.c -o lm_sampleworep.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mem.c -o mem.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c model_probabilities.c -o model_probabilities.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mtherr.c -o mtherr.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c polevl.c -o polevl.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c psi.c -o psi.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c tree_structures.c -o tree_structures.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BAS.so E_ZS.o ZS_approx_full_np.o ZS_approx_null_np.o bayesglm.o bayesreg.o betapriorfamily.o cch.o const.o family.o gamma.o glm_deterministic.o glm_fit.o glm_lpy.o glm_mcmc.o glm_mcmcbas.o glm_sampleworep.o hg_approx_null_np.o hyp2f1.o hyperg.o hypergeoF.o hypergeometric1F1.o init.o lm_deterministic.o lm_mcmc.o lm_mcmcbas.o lm_sampleworep.o mem.o model_probabilities.o mtherr.o polevl.o psi.o tree_structures.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BAS.so] Error 1 -ERROR: compilation failed for package ‘BAS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BAS/new/BAS.Rcheck/BAS’ +* using log directory ‘/tmp/workdir/anomaly/new/anomaly.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘anomaly/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘anomaly’ version ‘3.0.1’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘anomaly’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 8.1Mb + sub-directories of 1Mb or more: + data 4.1Mb + libs 3.6Mb +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + + ``` ### CRAN ``` -* installing *source* package ‘BAS’ ... -** package ‘BAS’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c E_ZS.c -o E_ZS.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ZS_approx_full_np.c -o ZS_approx_full_np.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ZS_approx_null_np.c -o ZS_approx_null_np.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c bayesglm.c -o bayesglm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c bayesreg.c -o bayesreg.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c betapriorfamily.c -o betapriorfamily.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c cch.c -o cch.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c const.c -o const.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c family.c -o family.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gamma.c -o gamma.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_deterministic.c -o glm_deterministic.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_fit.c -o glm_fit.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_lpy.c -o glm_lpy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_mcmc.c -o glm_mcmc.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_mcmcbas.c -o glm_mcmcbas.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c glm_sampleworep.c -o glm_sampleworep.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hg_approx_null_np.c -o hg_approx_null_np.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hyp2f1.c -o hyp2f1.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hyperg.c -o hyperg.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hypergeoF.c -o hypergeoF.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hypergeometric1F1.c -o hypergeometric1F1.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_deterministic.c -o lm_deterministic.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_mcmc.c -o lm_mcmc.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_mcmcbas.c -o lm_mcmcbas.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lm_sampleworep.c -o lm_sampleworep.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mem.c -o mem.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c model_probabilities.c -o model_probabilities.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mtherr.c -o mtherr.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c polevl.c -o polevl.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c psi.c -o psi.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c tree_structures.c -o tree_structures.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BAS.so E_ZS.o ZS_approx_full_np.o ZS_approx_null_np.o bayesglm.o bayesreg.o betapriorfamily.o cch.o const.o family.o gamma.o glm_deterministic.o glm_fit.o glm_lpy.o glm_mcmc.o glm_mcmcbas.o glm_sampleworep.o hg_approx_null_np.o hyp2f1.o hyperg.o hypergeoF.o hypergeometric1F1.o init.o lm_deterministic.o lm_mcmc.o lm_mcmcbas.o lm_sampleworep.o mem.o model_probabilities.o mtherr.o polevl.o psi.o tree_structures.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BAS.so] Error 1 -ERROR: compilation failed for package ‘BAS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BAS/old/BAS.Rcheck/BAS’ - -``` -# bayesammi +* using log directory ‘/tmp/workdir/anomaly/old/anomaly.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘anomaly/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘anomaly’ version ‘3.0.1’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘anomaly’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 8.1Mb + sub-directories of 1Mb or more: + data 4.1Mb + libs 3.6Mb +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + + + +``` +# ANOVAShiny
* Version: 0.1.0 -* Source code: https://github.com/cran/bayesammi -* Date/Publication: 2018-04-12 09:03:23 UTC -* Number of recursive dependencies: 65 +* Source code: https://github.com/cran/ANOVAShiny +* Date/Publication: 2019-05-01 07:00:03 UTC +* Number of recursive dependencies: 107 -Run `revdep_details(,"bayesammi")` for more info +Run `cloud_details(, "ANOVAShiny")` for more info
-## In both - -* checking whether package ‘bayesammi’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bayesammi/new/bayesammi.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘bayesammi’ ... -** package ‘bayesammi’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bayesammi/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bayesammi/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bayesammi/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘bayesammi’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bayesammi/new/bayesammi.Rcheck/bayesammi’ +* using log directory ‘/tmp/workdir/ANOVAShiny/new/ANOVAShiny.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘ANOVAShiny/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘ANOVAShiny’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘ANOVAShiny’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘DescTools’ ‘HH’ ‘datasets’ ‘dplyr’ ‘rhandsontable’ ‘shiny’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + -``` -### CRAN ``` -* installing *source* package ‘bayesammi’ ... -** package ‘bayesammi’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bayesammi/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bayesammi/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bayesammi/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘bayesammi’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bayesammi/old/bayesammi.Rcheck/bayesammi’ +### CRAN ``` -# BayesPostEst +* using log directory ‘/tmp/workdir/ANOVAShiny/old/ANOVAShiny.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘ANOVAShiny/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘ANOVAShiny’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘ANOVAShiny’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘DescTools’ ‘HH’ ‘datasets’ ‘dplyr’ ‘rhandsontable’ ‘shiny’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + + + +``` +# archivist
-* Version: 0.2.0 -* Source code: https://github.com/cran/BayesPostEst -* URL: https://github.com/ShanaScogin/BayesPostEst -* BugReports: https://github.com/ShanaScogin/BayesPostEst/issues -* Date/Publication: 2019-12-14 23:10:02 UTC -* Number of recursive dependencies: 142 +* Version: 2.3.4 +* Source code: https://github.com/cran/archivist +* URL: https://pbiecek.github.io/archivist/ +* BugReports: https://github.com/pbiecek/archivist/issues +* Date/Publication: 2019-08-31 10:50:06 UTC +* Number of recursive dependencies: 108 -Run `revdep_details(,"BayesPostEst")` for more info +Run `cloud_details(, "archivist")` for more info
-## In both - -* checking whether package ‘BayesPostEst’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BayesPostEst/new/BayesPostEst.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BayesPostEst’ ... -** package ‘BayesPostEst’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive_cat’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive_cat’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_logit’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_logit’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_probit’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_probit’ -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BayesPostEst/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BayesPostEst/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BayesPostEst/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘BayesPostEst’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BayesPostEst/new/BayesPostEst.Rcheck/BayesPostEst’ +* using log directory ‘/tmp/workdir/archivist/new/archivist.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘archivist/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘archivist’ version ‘2.3.4’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘BayesPostEst’ ... -** package ‘BayesPostEst’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive_cat’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_interactive_cat’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_logit’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_logit’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_probit’ -Warning: namespace ‘rjags’ is not available and has been replaced -by .GlobalEnv when processing object ‘jags_probit’ -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BayesPostEst/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BayesPostEst/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BayesPostEst/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘BayesPostEst’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BayesPostEst/old/BayesPostEst.Rcheck/BayesPostEst’ +* using log directory ‘/tmp/workdir/archivist/old/archivist.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘archivist/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘archivist’ version ‘2.3.4’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ -``` -# BgeeDB +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* Version: 2.14.0 -* Source code: https://github.com/cran/BgeeDB -* URL: https://github.com/BgeeDB/BgeeDB_R -* BugReports: https://github.com/BgeeDB/BgeeDB_R/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 73 -Run `revdep_details(,"BgeeDB")` for more info -
-## In both -* R CMD check timed out - -# bigsnpr +``` +# arena2r
-* Version: 1.3.0 -* Source code: https://github.com/cran/bigsnpr -* URL: https://privefl.github.io/bigsnpr -* BugReports: https://github.com/privefl/bigsnpr/issues -* Date/Publication: 2020-03-09 20:00:02 UTC -* Number of recursive dependencies: 126 +* Version: 1.0.0 +* Source code: https://github.com/cran/arena2r +* URL: https://github.com/pedroliman/arena2r +* BugReports: https://github.com/pedroliman/arena2r/issues +* Date/Publication: 2018-10-19 15:30:03 UTC +* Number of recursive dependencies: 83 -Run `revdep_details(,"bigsnpr")` for more info +Run `cloud_details(, "arena2r")` for more info
-## In both - -* checking whether package ‘bigsnpr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bigsnpr/new/bigsnpr.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘bigsnpr’ ... -** package ‘bigsnpr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c assoc-bgen.cpp -o assoc-bgen.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c bed-acc-xptr.cpp -o bed-acc-xptr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c bed-fun.cpp -o bed-fun.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c bed-prod-vec.cpp -o bed-prod-vec.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c clumping-bed.cpp -o clumping-bed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c clumping-cached.cpp -o clumping-cached.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c clumping.cpp -o clumping.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c colstats.cpp -o colstats.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c copy-subset.cpp -o copy-subset.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c corr.cpp -o corr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c impute-simple.cpp -o impute-simple.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c multLinReg.cpp -o multLinReg.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c read-bgen.cpp -o read-bgen.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c read-plink.cpp -o read-plink.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c write-plink.cpp -o write-plink.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o bigsnpr.so RcppExports.o assoc-bgen.o bed-acc-xptr.o bed-fun.o bed-prod-vec.o clumping-bed.o clumping-cached.o clumping.o colstats.o copy-subset.o corr.o impute-simple.o multLinReg.o read-bgen.o read-plink.o write-plink.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [bigsnpr.so] Error 1 -ERROR: compilation failed for package ‘bigsnpr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bigsnpr/new/bigsnpr.Rcheck/bigsnpr’ +* using log directory ‘/tmp/workdir/arena2r/new/arena2r.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘arena2r/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘arena2r’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'shiny', 'ggplot2' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘bigsnpr’ ... -** package ‘bigsnpr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c assoc-bgen.cpp -o assoc-bgen.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c bed-acc-xptr.cpp -o bed-acc-xptr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c bed-fun.cpp -o bed-fun.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c bed-prod-vec.cpp -o bed-prod-vec.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c clumping-bed.cpp -o clumping-bed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c clumping-cached.cpp -o clumping-cached.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c clumping.cpp -o clumping.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c colstats.cpp -o colstats.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c copy-subset.cpp -o copy-subset.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c corr.cpp -o corr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c impute-simple.cpp -o impute-simple.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c multLinReg.cpp -o multLinReg.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c read-bgen.cpp -o read-bgen.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c read-plink.cpp -o read-plink.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/bigstatsr/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bigsnpr/rmio/include' -I/usr/local/include -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c write-plink.cpp -o write-plink.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o bigsnpr.so RcppExports.o assoc-bgen.o bed-acc-xptr.o bed-fun.o bed-prod-vec.o clumping-bed.o clumping-cached.o clumping.o colstats.o copy-subset.o corr.o impute-simple.o multLinReg.o read-bgen.o read-plink.o write-plink.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [bigsnpr.so] Error 1 -ERROR: compilation failed for package ‘bigsnpr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bigsnpr/old/bigsnpr.Rcheck/bigsnpr’ - -``` -# bioCancer +* using log directory ‘/tmp/workdir/arena2r/old/arena2r.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘arena2r/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘arena2r’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'shiny', 'ggplot2' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + + +``` +# arkdb
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 0.0.5 +* Source code: https://github.com/cran/arkdb +* URL: https://github.com/ropensci/arkdb +* BugReports: https://github.com/ropensci/arkdb/issues +* Date/Publication: 2018-10-31 21:10:03 UTC +* Number of recursive dependencies: 75 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "arkdb")` for more info
@@ -715,17 +604,32 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/arkdb/new/arkdb.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘arkdb/DESCRIPTION’ ... OK +* this is package ‘arkdb’ version ‘0.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘DBI’ + +Packages suggested but not available: + 'dbplyr', 'fs', 'RSQLite', 'MonetDBLite' + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. - There are binary versions available but the source versions are later: - binary source needs_compilation -openxlsx 4.1.4 4.1.5 TRUE -tidyr 1.0.2 1.0.3 TRUE -writexl 1.2 1.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source package ‘reactome.db’ @@ -733,1006 +637,770 @@ installing the source package ‘reactome.db’ ### CRAN ``` +* using log directory ‘/tmp/workdir/arkdb/old/arkdb.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘arkdb/DESCRIPTION’ ... OK +* this is package ‘arkdb’ version ‘0.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘DBI’ - There are binary versions available but the source versions are later: - binary source needs_compilation -openxlsx 4.1.4 4.1.5 TRUE -tidyr 1.0.2 1.0.3 TRUE -writexl 1.2 1.3 TRUE +Packages suggested but not available: + 'dbplyr', 'fs', 'RSQLite', 'MonetDBLite' + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source package ‘reactome.db’ ``` -# BivRec +# asremlPlus
-* Version: 1.2.0 -* Source code: https://github.com/cran/BivRec -* URL: https://github.com/SandraCastroPearson/BivRec -* BugReports: https://github.com/SandraCastroPearson/BivRec/issues -* Date/Publication: 2020-01-15 00:20:11 UTC -* Number of recursive dependencies: 53 +* Version: 4.2-18 +* Source code: https://github.com/cran/asremlPlus +* URL: http://chris.brien.name +* Date/Publication: 2020-03-16 16:50:02 UTC +* Number of recursive dependencies: 78 -Run `revdep_details(,"BivRec")` for more info +Run `cloud_details(, "asremlPlus")` for more info
-## In both - -* checking whether package ‘BivRec’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BivRec/new/BivRec.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BivRec’ ... -** package ‘BivRec’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BivRec/Rcpp/include' -I/usr/local/include -fPIC -O3 -c BivRec_init.c -o BivRec_init.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bivrecur.f -o bivrecur.o -f951: Warning: Nonconforming tab character in column 6 of line 82 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 100 [-Wtabs] -bivrecur.f:83:7: - - 83 | + (mark1(i,1).le.u1).and.(mark2(i,1).le.u2)) - | 1 -Warning: Nonconforming tab character at (1) [-Wtabs] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c mprovar.f -o mprovar.o -f951: Warning: Nonconforming tab character in column 1 of line 49 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 50 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 52 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 55 [-Wtabs] -mprovar.f:28:40: - - 28 | +gmatx, gmaty, l1, l2, expAx, expAy, subsumx, subsumy, - | 1 -Warning: Unused dummy argument 'expay' at (1) [-Wunused-dummy-argument] -mprovar.f:27:35: - - 27 | subroutine mprovar(n, nparams, xmat, ymat, - | 1 -Warning: Unused dummy argument 'nparams' at (1) [-Wunused-dummy-argument] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c onesamp.f -o onesamp.o -onesamp.f:61:0: - - 61 | if((gtime(i,1).eq.udt(k)).and.(cen(i,j).gt.0)) - | -Warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c xmproee.f -o xmproee.o -f951: Warning: Nonconforming tab character in column 1 of line 32 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 33 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 34 [-Wtabs] -xmproee.f:20:35: - - 20 | subroutine xmproee(n, nparams, di, xmati, - | 1 -Warning: Unused dummy argument 'nparams' at (1) [-Wunused-dummy-argument] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c ymproee.f -o ymproee.o -f951: Warning: Nonconforming tab character in column 1 of line 32 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 33 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 34 [-Wtabs] -ymproee.f:20:35: - - 20 | subroutine ymproee(n, nparams, di, xmati, ymati, - | 1 -Warning: Unused dummy argument 'nparams' at (1) [-Wunused-dummy-argument] -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BivRec.so BivRec_init.o bivrecur.o mprovar.o onesamp.o xmproee.o ymproee.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BivRec.so] Error 1 -ERROR: compilation failed for package ‘BivRec’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BivRec/new/BivRec.Rcheck/BivRec’ +* using log directory ‘/tmp/workdir/asremlPlus/new/asremlPlus.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘asremlPlus/DESCRIPTION’ ... OK +* this is package ‘asremlPlus’ version ‘4.2-18’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +Package which this enhances but not available for checking: ‘asreml’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘BivRec’ ... -** package ‘BivRec’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c BivRec_init.c -o BivRec_init.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bivrecur.f -o bivrecur.o -f951: Warning: Nonconforming tab character in column 6 of line 82 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 100 [-Wtabs] -bivrecur.f:83:7: - - 83 | + (mark1(i,1).le.u1).and.(mark2(i,1).le.u2)) - | 1 -Warning: Nonconforming tab character at (1) [-Wtabs] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c mprovar.f -o mprovar.o -f951: Warning: Nonconforming tab character in column 1 of line 49 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 50 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 52 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 55 [-Wtabs] -mprovar.f:28:40: - - 28 | +gmatx, gmaty, l1, l2, expAx, expAy, subsumx, subsumy, - | 1 -Warning: Unused dummy argument 'expay' at (1) [-Wunused-dummy-argument] -mprovar.f:27:35: - - 27 | subroutine mprovar(n, nparams, xmat, ymat, - | 1 -Warning: Unused dummy argument 'nparams' at (1) [-Wunused-dummy-argument] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c onesamp.f -o onesamp.o -onesamp.f:61:0: - - 61 | if((gtime(i,1).eq.udt(k)).and.(cen(i,j).gt.0)) - | -Warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c xmproee.f -o xmproee.o -f951: Warning: Nonconforming tab character in column 1 of line 32 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 33 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 34 [-Wtabs] -xmproee.f:20:35: - - 20 | subroutine xmproee(n, nparams, di, xmati, - | 1 -Warning: Unused dummy argument 'nparams' at (1) [-Wunused-dummy-argument] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c ymproee.f -o ymproee.o -f951: Warning: Nonconforming tab character in column 1 of line 32 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 33 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 34 [-Wtabs] -ymproee.f:20:35: - - 20 | subroutine ymproee(n, nparams, di, xmati, ymati, - | 1 -Warning: Unused dummy argument 'nparams' at (1) [-Wunused-dummy-argument] -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BivRec.so BivRec_init.o bivrecur.o mprovar.o onesamp.o xmproee.o ymproee.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BivRec.so] Error 1 -ERROR: compilation failed for package ‘BivRec’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BivRec/old/BivRec.Rcheck/BivRec’ - -``` -# bkmr +* using log directory ‘/tmp/workdir/asremlPlus/old/asremlPlus.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘asremlPlus/DESCRIPTION’ ... OK +* this is package ‘asremlPlus’ version ‘4.2-18’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -
+Package which this enhances but not available for checking: ‘asreml’ -* Version: 0.2.0 -* Source code: https://github.com/cran/bkmr -* URL: https://github.com/jenfb/bkmr -* BugReports: https://github.com/jenfb/bkmr/issues -* Date/Publication: 2017-03-24 19:03:01 UTC -* Number of recursive dependencies: 38 +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -Run `revdep_details(,"bkmr")` for more info -
-## In both -* checking whether package ‘bkmr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bkmr/new/bkmr.Rcheck/00install.out’ for details. - ``` -## Installation + +``` +# auctestr + +
+ +* Version: 1.0.0 +* Source code: https://github.com/cran/auctestr +* Date/Publication: 2017-11-13 09:46:18 UTC +* Number of recursive dependencies: 50 + +Run `cloud_details(, "auctestr")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘bkmr’ ... -** package ‘bkmr’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bkmr/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bkmr/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bkmr/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load +* using log directory ‘/tmp/workdir/auctestr/new/auctestr.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘auctestr/DESCRIPTION’ ... OK +* this is package ‘auctestr’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘auctestr’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... WARNING +Error: package or namespace load failed for ‘auctestr’: + .onLoad failed in loadNamespace() for 'pillar', details: + call: loadNamespace(name) + error: there is no package called ‘crayon’ Execution halted -ERROR: lazy loading failed for package ‘bkmr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bkmr/new/bkmr.Rcheck/bkmr’ + +It looks like this package has a loading problem when not on .libPaths: +see the messages for details. +* checking dependencies in R code ... NOTE +Namespace in Imports field not imported from: ‘tidyr’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘basic-auctestr-vignette.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 WARNING, 1 NOTE + + + + + ``` ### CRAN ``` -* installing *source* package ‘bkmr’ ... -** package ‘bkmr’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bkmr/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bkmr/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bkmr/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load +* using log directory ‘/tmp/workdir/auctestr/old/auctestr.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘auctestr/DESCRIPTION’ ... OK +* this is package ‘auctestr’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘auctestr’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... WARNING +Error: package or namespace load failed for ‘auctestr’: + .onLoad failed in loadNamespace() for 'pillar', details: + call: loadNamespace(name) + error: there is no package called ‘crayon’ Execution halted -ERROR: lazy loading failed for package ‘bkmr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bkmr/old/bkmr.Rcheck/bkmr’ -``` -# BMTME +It looks like this package has a loading problem when not on .libPaths: +see the messages for details. +* checking dependencies in R code ... NOTE +Namespace in Imports field not imported from: ‘tidyr’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘basic-auctestr-vignette.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 WARNING, 1 NOTE + + + + + + +``` +# bayesplot
-* Version: 1.0.12 -* Source code: https://github.com/cran/BMTME -* URL: https://github.com/frahik/BMTME -* BugReports: https://github.com/frahik/BMTME/issues/new -* Date/Publication: 2019-10-17 22:30:16 UTC -* Number of recursive dependencies: 61 +* Version: 1.7.2 +* Source code: https://github.com/cran/bayesplot +* URL: https://mc-stan.org/bayesplot +* BugReports: https://github.com/stan-dev/bayesplot/issues/ +* Date/Publication: 2020-05-28 05:20:07 UTC +* Number of recursive dependencies: 143 -Run `revdep_details(,"BMTME")` for more info +Run `cloud_details(, "bayesplot")` for more info
-## In both - -* checking whether package ‘BMTME’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BMTME/new/BMTME.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BMTME’ ... -** package ‘BMTME’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BMTME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BMTME/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BMTME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BMTME/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Sample_IW.cpp -o Sample_IW.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BMTME.so RcppExports.o Sample_IW.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BMTME.so] Error 1 -ERROR: compilation failed for package ‘BMTME’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BMTME/new/BMTME.Rcheck/BMTME’ +* using log directory ‘/tmp/workdir/bayesplot/new/bayesplot.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bayesplot/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘bayesplot’ version ‘1.7.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘bayesplot’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 5.9Mb + sub-directories of 1Mb or more: + R 1.8Mb + doc 3.5Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking R/sysdata.rda ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘graphical-ppcs.Rmd’using ‘UTF-8’... OK + ‘plotting-mcmc-draws.Rmd’using ‘UTF-8’... OK + ‘visual-mcmc-diagnostics.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 NOTE + + + + -``` -### CRAN ``` -* installing *source* package ‘BMTME’ ... -** package ‘BMTME’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BMTME/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BMTME/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Sample_IW.cpp -o Sample_IW.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BMTME.so RcppExports.o Sample_IW.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BMTME.so] Error 1 -ERROR: compilation failed for package ‘BMTME’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BMTME/old/BMTME.Rcheck/BMTME’ +### CRAN ``` -# BradleyTerryScalable +* using log directory ‘/tmp/workdir/bayesplot/old/bayesplot.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bayesplot/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘bayesplot’ version ‘1.7.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘bayesplot’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 5.9Mb + sub-directories of 1Mb or more: + R 1.8Mb + doc 3.5Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking R/sysdata.rda ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘graphical-ppcs.Rmd’using ‘UTF-8’... OK + ‘plotting-mcmc-draws.Rmd’using ‘UTF-8’... OK + ‘visual-mcmc-diagnostics.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 NOTE + + + + + + +``` +# beats
-* Version: 0.1.0 -* Source code: https://github.com/cran/BradleyTerryScalable -* URL: https://github.com/EllaKaye/BradleyTerryScalable -* BugReports: https://github.com/EllaKaye/BradleyTerryScalable/issues -* Date/Publication: 2017-06-29 22:39:23 UTC -* Number of recursive dependencies: 68 +* Version: 0.1.1 +* Source code: https://github.com/cran/beats +* URL: https://github.com/FlukeAndFeather/beats +* BugReports: https://github.com/FlukeAndFeather/beats/issues +* Date/Publication: 2020-02-28 10:40:02 UTC +* Number of recursive dependencies: 88 -Run `revdep_details(,"BradleyTerryScalable")` for more info +Run `cloud_details(, "beats")` for more info
-## In both - -* checking whether package ‘BradleyTerryScalable’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BradleyTerryScalable/new/BradleyTerryScalable.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BradleyTerryScalable’ ... -** package ‘BradleyTerryScalable’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c BT_EM_arma_SBT.cpp -o BT_EM_arma_SBT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ILSR_arma.cpp -o ILSR_arma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c btprob_vec.cpp -o btprob_vec.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BradleyTerryScalable.so BT_EM_arma_SBT.o ILSR_arma.o RcppExports.o btprob_vec.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BradleyTerryScalable.so] Error 1 -ERROR: compilation failed for package ‘BradleyTerryScalable’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BradleyTerryScalable/new/BradleyTerryScalable.Rcheck/BradleyTerryScalable’ +* using log directory ‘/tmp/workdir/beats/new/beats.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘beats/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘beats’ version ‘0.1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘BradleyTerryScalable’ ... -** package ‘BradleyTerryScalable’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c BT_EM_arma_SBT.cpp -o BT_EM_arma_SBT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ILSR_arma.cpp -o ILSR_arma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BradleyTerryScalable/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c btprob_vec.cpp -o btprob_vec.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BradleyTerryScalable.so BT_EM_arma_SBT.o ILSR_arma.o RcppExports.o btprob_vec.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BradleyTerryScalable.so] Error 1 -ERROR: compilation failed for package ‘BradleyTerryScalable’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BradleyTerryScalable/old/BradleyTerryScalable.Rcheck/BradleyTerryScalable’ - -``` -# brunnermunzel -
-* Version: 1.4.1 -* Source code: https://github.com/cran/brunnermunzel -* URL: https://github.com/toshi-ara/brunnermunzel -* BugReports: https://github.com/toshi-ara/brunnermunzel/issues/ -* Date/Publication: 2020-01-08 00:50:05 UTC -* Number of recursive dependencies: 64 -Run `revdep_details(,"brunnermunzel")` for more info -
-## In both +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/beats/old/beats.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘beats/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘beats’ version ‘0.1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘brunnermunzel’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/brunnermunzel/new/brunnermunzel.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘brunnermunzel’ ... -** package ‘brunnermunzel’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c Rf_wrapper.c -o Rf_wrapper.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bm_permutation_stat.f -o bm_permutation_stat.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bm_permutation_test.f -o bm_permutation_test.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bm_test.f -o bm_test.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c calc_statistics.f -o calc_statistics.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c combination.f -o combination.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c divide_groups.f -o divide_groups.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rank.f -o rank.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o brunnermunzel.so Rf_wrapper.o bm_permutation_stat.o bm_permutation_test.o bm_test.o calc_statistics.o combination.o divide_groups.o rank.o registerDynamicSymbol.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [brunnermunzel.so] Error 1 -ERROR: compilation failed for package ‘brunnermunzel’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/brunnermunzel/new/brunnermunzel.Rcheck/brunnermunzel’ -``` -### CRAN ``` -* installing *source* package ‘brunnermunzel’ ... -** package ‘brunnermunzel’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c Rf_wrapper.c -o Rf_wrapper.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bm_permutation_stat.f -o bm_permutation_stat.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bm_permutation_test.f -o bm_permutation_test.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c bm_test.f -o bm_test.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c calc_statistics.f -o calc_statistics.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c combination.f -o combination.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c divide_groups.f -o divide_groups.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rank.f -o rank.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o brunnermunzel.so Rf_wrapper.o bm_permutation_stat.o bm_permutation_test.o bm_test.o calc_statistics.o combination.o divide_groups.o rank.o registerDynamicSymbol.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [brunnermunzel.so] Error 1 -ERROR: compilation failed for package ‘brunnermunzel’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/brunnermunzel/old/brunnermunzel.Rcheck/brunnermunzel’ - -``` -# bsam +# bestSDP
-* Version: 1.1.2 -* Source code: https://github.com/cran/bsam -* URL: https://github.com/ianjonsen/bsam -* BugReports: https://github.com/ianjonsen/bsam/issues -* Date/Publication: 2017-07-01 02:50:50 UTC -* Number of recursive dependencies: 62 +* Version: 0.1.2 +* Source code: https://github.com/cran/bestSDP +* Date/Publication: 2019-12-13 13:10:06 UTC +* Number of recursive dependencies: 82 -Run `revdep_details(,"bsam")` for more info +Run `cloud_details(, "bestSDP")` for more info
-## In both - -* checking whether package ‘bsam’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bsam/new/bsam.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘bsam’ ... -** package ‘bsam’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: package or namespace load failed for ‘rjags’: - .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bsam/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bsam/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bsam/rjags/libs/rjags.so - Reason: image not found -Error: package ‘rjags’ could not be loaded -Execution halted -ERROR: lazy loading failed for package ‘bsam’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bsam/new/bsam.Rcheck/bsam’ +* using log directory ‘/tmp/workdir/bestSDP/new/bestSDP.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bestSDP/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘bestSDP’ version ‘0.1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘bestSDP’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/bestSDP/new/bestSDP.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘bsam’ ... -** package ‘bsam’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: package or namespace load failed for ‘rjags’: - .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bsam/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bsam/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/bsam/rjags/libs/rjags.so - Reason: image not found -Error: package ‘rjags’ could not be loaded -Execution halted -ERROR: lazy loading failed for package ‘bsam’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/bsam/old/bsam.Rcheck/bsam’ +* using log directory ‘/tmp/workdir/bestSDP/old/bestSDP.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bestSDP/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘bestSDP’ version ‘0.1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘bestSDP’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/bestSDP/old/bestSDP.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR -``` -# BUSpaRse -
-* Version: 1.1.5 -* Source code: https://github.com/cran/BUSpaRse -* URL: https://github.com/BUStools/BUSpaRse -* BugReports: https://github.com/BUStools/BUSpaRse/issues -* Date/Publication: 2020-04-26 -* Number of recursive dependencies: 137 -Run `revdep_details(,"BUSpaRse")` for more info -
-## In both +``` +# bfw -* checking whether package ‘BUSpaRse’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BUSpaRse/new/BUSpaRse.Rcheck/00install.out’ for details. - ``` +
-* checking package dependencies ... NOTE - ``` - Packages suggested but not available for checking: - 'TENxBUSData', 'TxDb.Hsapiens.UCSC.hg38.knownGene', - 'EnsDb.Hsapiens.v86' - ``` +* Version: 0.4.1 +* Source code: https://github.com/cran/bfw +* URL: https://github.com/oeysan/bfw/ +* BugReports: https://github.com/oeysan/bfw/issues/ +* Date/Publication: 2019-11-25 09:20:10 UTC +* Number of recursive dependencies: 92 -## Installation +Run `cloud_details(, "bfw")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘BUSpaRse’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c fill_cell_gene.cpp -o fill_cell_gene.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BUSpaRse.so RcppExports.o fill_cell_gene.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BUSpaRse.so] Error 1 -ERROR: compilation failed for package ‘BUSpaRse’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BUSpaRse/new/BUSpaRse.Rcheck/BUSpaRse’ +* using log directory ‘/tmp/workdir/bfw/new/bfw.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bfw/DESCRIPTION’ ... OK +* this is package ‘bfw’ version ‘0.4.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘rvg’ -``` -### CRAN +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -``` -* installing *source* package ‘BUSpaRse’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/BUSpaRse/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c fill_cell_gene.cpp -o fill_cell_gene.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BUSpaRse.so RcppExports.o fill_cell_gene.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [BUSpaRse.so] Error 1 -ERROR: compilation failed for package ‘BUSpaRse’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/BUSpaRse/old/BUSpaRse.Rcheck/BUSpaRse’ +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -# carat -
-* Version: 1.0 -* Source code: https://github.com/cran/carat -* Date/Publication: 2020-05-07 04:40:02 UTC -* Number of recursive dependencies: 55 -Run `revdep_details(,"carat")` for more info -
-## In both +``` +### CRAN -* checking whether package ‘carat’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/carat/new/carat.Rcheck/00install.out’ for details. - ``` +``` +* using log directory ‘/tmp/workdir/bfw/old/bfw.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bfw/DESCRIPTION’ ... OK +* this is package ‘bfw’ version ‘0.4.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘rvg’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -## Installation -### Devel -``` -* installing *source* package ‘carat’ ... -** package ‘carat’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/carat/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/carat/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c All.cpp -o All.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/carat/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/carat/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o carat.so All.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [carat.so] Error 1 -ERROR: compilation failed for package ‘carat’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/carat/new/carat.Rcheck/carat’ -``` -### CRAN -``` -* installing *source* package ‘carat’ ... -** package ‘carat’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/carat/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c All.cpp -o All.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/carat/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o carat.so All.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [carat.so] Error 1 -ERROR: compilation failed for package ‘carat’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/carat/old/carat.Rcheck/carat’ ``` -# CaseBasedReasoning +# bggum
-* Version: 0.1 -* Source code: https://github.com/cran/CaseBasedReasoning -* BugReports: https://github.com/sipemu/case-based-reasoning/issues -* Date/Publication: 2018-06-12 10:34:11 UTC -* Number of recursive dependencies: 128 +* Version: 1.0.2 +* Source code: https://github.com/cran/bggum +* URL: https://github.com/duckmayr/bggum +* BugReports: https://github.com/duckmayr/bggum/issues +* Date/Publication: 2020-01-19 08:40:02 UTC +* Number of recursive dependencies: 84 -Run `revdep_details(,"CaseBasedReasoning")` for more info +Run `cloud_details(, "bggum")` for more info
-## In both - -* checking whether package ‘CaseBasedReasoning’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CaseBasedReasoning/new/CaseBasedReasoning.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘CaseBasedReasoning’ ... -** package ‘CaseBasedReasoning’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c distanceAPI.cpp -o distanceAPI.o -In file included from distanceAPI.cpp:1: -./distanceAPI.h:134:16: warning: 'rfDepthXYDistanceAPI::calc' hides overloaded virtual function [-Woverloaded-virtual] - virtual void calc(arma::mat& xNodeIDs, arma::mat& yNodeIDs); - ^ -./distanceAPI.h:121:16: note: hidden overloaded virtual function 'rfDepthDistanceAPI::calc' declared here: different number of parameters (1 vs 2) - virtual void calc(arma::mat& xNodeIDs); - ^ -In file included from distanceAPI.cpp:1: -In file included from ./distanceAPI.h:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/RcppArmadillo.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/RcppArmadilloForward.h:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include/RcppCommon.h:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include/Rcpp/r/headers.h:67: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include/Rcpp/platform/compiler.h:153: -In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/unordered_map:408: -In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__hash_table:16: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:5: warning: destructor called on non-final 'weightedDistance' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3671:9: note: in instantiation of member function 'std::__1::__shared_ptr_emplace >::__on_zero_shared' requested here - __shared_ptr_emplace(_Alloc __a, _Args&& ...__args) - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4331:26: note: in instantiation of function template specialization 'std::__1::__shared_ptr_emplace >::__shared_ptr_emplace' requested here - ::new(__hold2.get()) _CntrlBlk(__a2, _VSTD::forward<_Args>(__args)...); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4710:29: note: in instantiation of function template specialization 'std::__1::shared_ptr::make_shared' requested here - return shared_ptr<_Tp>::make_shared(_VSTD::forward<_Args>(__args)...); - ^ -distanceAPI.cpp:27:16: note: in instantiation of function template specialization 'std::__1::make_shared' requested here - dist_ = std::make_shared(dist); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:23: note: qualify call to silence this warning - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:5: warning: destructor called on non-final 'rangerProximity' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3671:9: note: in instantiation of member function 'std::__1::__shared_ptr_emplace >::__on_zero_shared' requested here - __shared_ptr_emplace(_Alloc __a, _Args&& ...__args) - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4331:26: note: in instantiation of function template specialization 'std::__1::__shared_ptr_emplace >::__shared_ptr_emplace' requested here - ::new(__hold2.get()) _CntrlBlk(__a2, _VSTD::forward<_Args>(__args)...); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4710:29: note: in instantiation of function template specialization 'std::__1::shared_ptr::make_shared' requested here - return shared_ptr<_Tp>::make_shared(_VSTD::forward<_Args>(__args)...); - ^ -distanceAPI.cpp:89:16: note: in instantiation of function template specialization 'std::__1::make_shared' requested here - dist_ = std::make_shared(dist); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:23: note: qualify call to silence this warning - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:5: warning: destructor called on non-final 'rfDepthDistance' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3671:9: note: in instantiation of member function 'std::__1::__shared_ptr_emplace >::__on_zero_shared' requested here - __shared_ptr_emplace(_Alloc __a, _Args&& ...__args) - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4331:26: note: in instantiation of function template specialization 'std::__1::__shared_ptr_emplace >::__shared_ptr_emplace' requested here - ::new(__hold2.get()) _CntrlBlk(__a2, _VSTD::forward<_Args>(__args)...); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4710:29: note: in instantiation of function template specialization 'std::__1::shared_ptr::make_shared' requested here - return shared_ptr<_Tp>::make_shared(_VSTD::forward<_Args>(__args)...); - ^ -distanceAPI.cpp:124:16: note: in instantiation of function template specialization 'std::__1::make_shared' requested here - dist_ = std::make_shared(dist); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:23: note: qualify call to silence this warning - __data_.second().~_Tp(); - ^ -4 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c distances.cpp -o distances.o -In file included from distances.cpp:4: -./distanceAPI.h:134:16: warning: 'rfDepthXYDistanceAPI::calc' hides overloaded virtual function [-Woverloaded-virtual] - virtual void calc(arma::mat& xNodeIDs, arma::mat& yNodeIDs); - ^ -./distanceAPI.h:121:16: note: hidden overloaded virtual function 'rfDepthDistanceAPI::calc' declared here: different number of parameters (1 vs 2) - virtual void calc(arma::mat& xNodeIDs); - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c kNN.cpp -o kNN.o -kNN.cpp:25:19: warning: 'sort_index >' is deprecated [-Wdeprecated-declarations] - order = arma::sort_index(tmpDist, sortDirection); - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:40:1: note: 'sort_index >' has been explicitly marked deprecated here -arma_deprecated -^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:286:44: note: expanded from macro 'arma_deprecated' - #define arma_deprecated __attribute__((__deprecated__)) - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c order.cpp -o order.o -order.cpp:26:21: warning: 'sort_index >' is deprecated [-Wdeprecated-declarations] - order = arma::sort_index(x_.col(i), sortDirection_); - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:40:1: note: 'sort_index >' has been explicitly marked deprecated here -arma_deprecated -^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:286:44: note: expanded from macro 'arma_deprecated' - #define arma_deprecated __attribute__((__deprecated__)) - ^ -order.cpp:75:28: warning: 'sort_index >' is deprecated [-Wdeprecated-declarations] - arma::uvec order = arma::sort_index(x, sortDirection) + 1; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:40:1: note: 'sort_index >' has been explicitly marked deprecated here -arma_deprecated -^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:286:44: note: expanded from macro 'arma_deprecated' - #define arma_deprecated __attribute__((__deprecated__)) - ^ -2 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c parallelTerminalNodeID.cpp -o parallelTerminalNodeID.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CaseBasedReasoning.so RcppExports.o distanceAPI.o distances.o kNN.o order.o parallelTerminalNodeID.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CaseBasedReasoning.so] Error 1 -ERROR: compilation failed for package ‘CaseBasedReasoning’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CaseBasedReasoning/new/CaseBasedReasoning.Rcheck/CaseBasedReasoning’ +* using log directory ‘/tmp/workdir/bggum/new/bggum.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bggum/DESCRIPTION’ ... OK +* this is package ‘bggum’ version ‘1.0.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘tidyr’ -``` -### CRAN +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -``` -* installing *source* package ‘CaseBasedReasoning’ ... -** package ‘CaseBasedReasoning’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c distanceAPI.cpp -o distanceAPI.o -In file included from distanceAPI.cpp:1: -./distanceAPI.h:134:16: warning: 'rfDepthXYDistanceAPI::calc' hides overloaded virtual function [-Woverloaded-virtual] - virtual void calc(arma::mat& xNodeIDs, arma::mat& yNodeIDs); - ^ -./distanceAPI.h:121:16: note: hidden overloaded virtual function 'rfDepthDistanceAPI::calc' declared here: different number of parameters (1 vs 2) - virtual void calc(arma::mat& xNodeIDs); - ^ -In file included from distanceAPI.cpp:1: -In file included from ./distanceAPI.h:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/RcppArmadillo.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/RcppArmadilloForward.h:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/r/headers.h:67: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/platform/compiler.h:153: -In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/unordered_map:408: -In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__hash_table:16: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:5: warning: destructor called on non-final 'weightedDistance' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3671:9: note: in instantiation of member function 'std::__1::__shared_ptr_emplace >::__on_zero_shared' requested here - __shared_ptr_emplace(_Alloc __a, _Args&& ...__args) - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4331:26: note: in instantiation of function template specialization 'std::__1::__shared_ptr_emplace >::__shared_ptr_emplace' requested here - ::new(__hold2.get()) _CntrlBlk(__a2, _VSTD::forward<_Args>(__args)...); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4710:29: note: in instantiation of function template specialization 'std::__1::shared_ptr::make_shared' requested here - return shared_ptr<_Tp>::make_shared(_VSTD::forward<_Args>(__args)...); - ^ -distanceAPI.cpp:27:16: note: in instantiation of function template specialization 'std::__1::make_shared' requested here - dist_ = std::make_shared(dist); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:23: note: qualify call to silence this warning - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:5: warning: destructor called on non-final 'rangerProximity' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3671:9: note: in instantiation of member function 'std::__1::__shared_ptr_emplace >::__on_zero_shared' requested here - __shared_ptr_emplace(_Alloc __a, _Args&& ...__args) - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4331:26: note: in instantiation of function template specialization 'std::__1::__shared_ptr_emplace >::__shared_ptr_emplace' requested here - ::new(__hold2.get()) _CntrlBlk(__a2, _VSTD::forward<_Args>(__args)...); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4710:29: note: in instantiation of function template specialization 'std::__1::shared_ptr::make_shared' requested here - return shared_ptr<_Tp>::make_shared(_VSTD::forward<_Args>(__args)...); - ^ -distanceAPI.cpp:89:16: note: in instantiation of function template specialization 'std::__1::make_shared' requested here - dist_ = std::make_shared(dist); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:23: note: qualify call to silence this warning - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:5: warning: destructor called on non-final 'rfDepthDistance' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - __data_.second().~_Tp(); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3671:9: note: in instantiation of member function 'std::__1::__shared_ptr_emplace >::__on_zero_shared' requested here - __shared_ptr_emplace(_Alloc __a, _Args&& ...__args) - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4331:26: note: in instantiation of function template specialization 'std::__1::__shared_ptr_emplace >::__shared_ptr_emplace' requested here - ::new(__hold2.get()) _CntrlBlk(__a2, _VSTD::forward<_Args>(__args)...); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:4710:29: note: in instantiation of function template specialization 'std::__1::shared_ptr::make_shared' requested here - return shared_ptr<_Tp>::make_shared(_VSTD::forward<_Args>(__args)...); - ^ -distanceAPI.cpp:124:16: note: in instantiation of function template specialization 'std::__1::make_shared' requested here - dist_ = std::make_shared(dist); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/memory:3710:23: note: qualify call to silence this warning - __data_.second().~_Tp(); - ^ -4 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c distances.cpp -o distances.o -In file included from distances.cpp:4: -./distanceAPI.h:134:16: warning: 'rfDepthXYDistanceAPI::calc' hides overloaded virtual function [-Woverloaded-virtual] - virtual void calc(arma::mat& xNodeIDs, arma::mat& yNodeIDs); - ^ -./distanceAPI.h:121:16: note: hidden overloaded virtual function 'rfDepthDistanceAPI::calc' declared here: different number of parameters (1 vs 2) - virtual void calc(arma::mat& xNodeIDs); - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c kNN.cpp -o kNN.o -kNN.cpp:25:19: warning: 'sort_index >' is deprecated [-Wdeprecated-declarations] - order = arma::sort_index(tmpDist, sortDirection); - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:40:1: note: 'sort_index >' has been explicitly marked deprecated here -arma_deprecated -^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:286:44: note: expanded from macro 'arma_deprecated' - #define arma_deprecated __attribute__((__deprecated__)) - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c order.cpp -o order.o -order.cpp:26:21: warning: 'sort_index >' is deprecated [-Wdeprecated-declarations] - order = arma::sort_index(x_.col(i), sortDirection_); - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:40:1: note: 'sort_index >' has been explicitly marked deprecated here -arma_deprecated -^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:286:44: note: expanded from macro 'arma_deprecated' - #define arma_deprecated __attribute__((__deprecated__)) - ^ -order.cpp:75:28: warning: 'sort_index >' is deprecated [-Wdeprecated-declarations] - arma::uvec order = arma::sort_index(x, sortDirection) + 1; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:40:1: note: 'sort_index >' has been explicitly marked deprecated here -arma_deprecated -^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:286:44: note: expanded from macro 'arma_deprecated' - #define arma_deprecated __attribute__((__deprecated__)) - ^ -2 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CaseBasedReasoning/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c parallelTerminalNodeID.cpp -o parallelTerminalNodeID.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CaseBasedReasoning.so RcppExports.o distanceAPI.o distances.o kNN.o order.o parallelTerminalNodeID.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CaseBasedReasoning.so] Error 1 -ERROR: compilation failed for package ‘CaseBasedReasoning’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CaseBasedReasoning/old/CaseBasedReasoning.Rcheck/CaseBasedReasoning’ +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -# CB2 -
-* Version: 1.3.1 -* Source code: https://github.com/cran/CB2 -* Date/Publication: 2020-04-15 06:00:02 UTC -* Number of recursive dependencies: 96 -Run `revdep_details(,"CB2")` for more info -
-## In both +``` +### CRAN -* checking whether package ‘CB2’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CB2/new/CB2.Rcheck/00install.out’ for details. - ``` +``` +* using log directory ‘/tmp/workdir/bggum/old/bggum.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bggum/DESCRIPTION’ ... OK +* this is package ‘bggum’ version ‘1.0.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘tidyr’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -## Installation -### Devel -``` -* installing *source* package ‘CB2’ ... -** package ‘CB2’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CB2/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CB2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CB2.cpp -o CB2.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CB2/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CB2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CB2.so CB2.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CB2.so] Error 1 -ERROR: compilation failed for package ‘CB2’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CB2/new/CB2.Rcheck/CB2’ -``` -### CRAN -``` -* installing *source* package ‘CB2’ ... -** package ‘CB2’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CB2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CB2.cpp -o CB2.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CB2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CB2.so CB2.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CB2.so] Error 1 -ERROR: compilation failed for package ‘CB2’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CB2/old/CB2.Rcheck/CB2’ ``` -# ChIPseeker +# BGPhazard
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 2.0.0 +* Source code: https://github.com/cran/BGPhazard +* Date/Publication: 2020-01-13 09:20:22 UTC +* Number of recursive dependencies: 59 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "BGPhazard")` for more info
@@ -1741,17 +1409,25 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/BGPhazard/new/BGPhazard.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘BGPhazard/DESCRIPTION’ ... OK +* this is package ‘BGPhazard’ version ‘2.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ - There are binary versions available but the source versions are later: - binary source needs_compilation -ggupset 0.2.1 0.3.0 FALSE -rtracklayer 1.47.0 1.48.0 TRUE -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source packages ‘ggupset’, ‘reactome.db’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ @@ -1759,32 +1435,39 @@ installing the source packages ‘ggupset’, ‘reactome.db’, ‘TxDb.Hsapien ### CRAN ``` +* using log directory ‘/tmp/workdir/BGPhazard/old/BGPhazard.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘BGPhazard/DESCRIPTION’ ... OK +* this is package ‘BGPhazard’ version ‘2.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ - There are binary versions available but the source versions are later: - binary source needs_compilation -ggupset 0.2.1 0.3.0 FALSE -rtracklayer 1.47.0 1.48.0 TRUE -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source packages ‘ggupset’, ‘reactome.db’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ ``` -# CINdex +# bioinactivation
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 1.2.3 +* Source code: https://github.com/cran/bioinactivation +* Date/Publication: 2019-08-01 16:40:15 UTC +* Number of recursive dependencies: 71 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "bioinactivation")` for more info
@@ -1793,140 +1476,234 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/bioinactivation/new/bioinactivation.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bioinactivation/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘bioinactivation’ version ‘1.2.3’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘bioinactivation’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘inactivation.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: OK - There are binary versions available but the source versions are later: - binary source needs_compilation -rtracklayer 1.47.0 1.48.0 TRUE -tidyr 1.0.2 1.0.3 TRUE - Binaries will be installed -installing the source packages ‘Homo.sapiens’, ‘pd.genomewidesnp.6’, ‘reactome.db’, ‘TxDb.Hsapiens.UCSC.hg18.knownGene’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ - ``` ### CRAN ``` +* using log directory ‘/tmp/workdir/bioinactivation/old/bioinactivation.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘bioinactivation/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘bioinactivation’ version ‘1.2.3’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘bioinactivation’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘inactivation.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: OK + + + + + + +``` +# butcher - There are binary versions available but the source versions are later: - binary source needs_compilation -rtracklayer 1.47.0 1.48.0 TRUE -tidyr 1.0.2 1.0.3 TRUE +
- Binaries will be installed +* Version: 0.1.2 +* Source code: https://github.com/cran/butcher +* URL: https://tidymodels.github.io/butcher, https://github.com/tidymodels/butcher +* BugReports: https://github.com/tidymodels/butcher/issues +* Date/Publication: 2020-01-23 22:40:02 UTC +* Number of recursive dependencies: 181 +Run `cloud_details(, "butcher")` for more info -installing the source packages ‘Homo.sapiens’, ‘pd.genomewidesnp.6’, ‘reactome.db’, ‘TxDb.Hsapiens.UCSC.hg18.knownGene’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ +
+## Error before installation +### Devel ``` -# circumplex - -
- -* Version: 0.3.6 -* Source code: https://github.com/cran/circumplex -* URL: https://github.com/jmgirard/circumplex -* BugReports: https://github.com/jmgirard/circumplex/issues -* Date/Publication: 2020-04-29 22:00:03 UTC -* Number of recursive dependencies: 93 +* using log directory ‘/tmp/workdir/butcher/new/butcher.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘butcher/DESCRIPTION’ ... OK +* this is package ‘butcher’ version ‘0.1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘NMF’ -Run `revdep_details(,"circumplex")` for more info +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -## In both -* checking whether package ‘circumplex’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/circumplex/new/circumplex.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘circumplex’ ... -** package ‘circumplex’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c circular.cpp -o circular.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c parameters.cpp -o parameters.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o circumplex.so RcppExports.o circular.o parameters.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [circumplex.so] Error 1 -ERROR: compilation failed for package ‘circumplex’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/circumplex/new/circumplex.Rcheck/circumplex’ ``` ### CRAN ``` -* installing *source* package ‘circumplex’ ... -** package ‘circumplex’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c circular.cpp -o circular.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/circumplex/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c parameters.cpp -o parameters.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o circumplex.so RcppExports.o circular.o parameters.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [circumplex.so] Error 1 -ERROR: compilation failed for package ‘circumplex’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/circumplex/old/circumplex.Rcheck/circumplex’ - -``` -# clustermq +* using log directory ‘/tmp/workdir/butcher/old/butcher.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘butcher/DESCRIPTION’ ... OK +* this is package ‘butcher’ version ‘0.1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘NMF’ -
+The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -* Version: 0.8.9 -* Source code: https://github.com/cran/clustermq -* URL: https://github.com/mschubert/clustermq -* BugReports: https://github.com/mschubert/clustermq/issues -* Date/Publication: 2020-02-29 19:20:02 UTC -* Number of recursive dependencies: 85 +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -Run `revdep_details(,"clustermq")` for more info -
-## In both -* R CMD check timed out - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘R6’ ‘purrr’ - All declared Imports should be used. - ``` -# clusterProfiler +``` +# CB2
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 1.3.3 +* Source code: https://github.com/cran/CB2 +* Date/Publication: 2020-05-26 11:00:21 UTC +* Number of recursive dependencies: 96 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "CB2")` for more info
@@ -1935,15 +1712,26 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/CB2/new/CB2.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘CB2/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘CB2’ version ‘1.3.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘metap’ - There is a binary version available but the source version is later: - binary source needs_compilation -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source package ‘reactome.db’ @@ -1951,271 +1739,119 @@ installing the source package ‘reactome.db’ ### CRAN ``` +* using log directory ‘/tmp/workdir/CB2/old/CB2.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘CB2/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘CB2’ version ‘1.3.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘metap’ - There is a binary version available but the source version is later: - binary source needs_compilation -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source package ‘reactome.db’ ``` -# CNPBayes +# cbar
-* Version: 1.13.5 -* Source code: https://github.com/cran/CNPBayes -* URL: https://github.com/scristia/CNPBayes -* BugReports: https://github.com/scristia/CNPBayes/issues -* Date/Publication: 2019-01-05 -* Number of recursive dependencies: 161 +* Version: 0.1.3 +* Source code: https://github.com/cran/cbar +* URL: https://github.com/zedoul/cbar +* BugReports: https://github.com/zedoul/cbar/issues +* Date/Publication: 2017-10-24 13:20:22 UTC +* Number of recursive dependencies: 64 -Run `revdep_details(,"CNPBayes")` for more info +Run `cloud_details(, "cbar")` for more info
-## In both - -* checking whether package ‘CNPBayes’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘CNPBayes’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c miscfunctions.cpp -o miscfunctions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c multibatch.cpp -o multibatch.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c multibatch_pooledvar.cpp -o multibatch_pooledvar.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c multibatch_reduced.cpp -o multibatch_reduced.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c pooledvar_reduced.cpp -o pooledvar_reduced.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CNPBayes/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c triomodel.cpp -o triomodel.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CNPBayes.so RcppExports.o miscfunctions.o multibatch.o multibatch_pooledvar.o multibatch_reduced.o pooledvar_reduced.o triomodel.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CNPBayes.so] Error 1 -ERROR: compilation failed for package ‘CNPBayes’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/CNPBayes’ - -``` -### CRAN - -``` -* installing *source* package ‘CNPBayes’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c miscfunctions.cpp -o miscfunctions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c multibatch.cpp -o multibatch.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c multibatch_pooledvar.cpp -o multibatch_pooledvar.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c multibatch_reduced.cpp -o multibatch_reduced.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c pooledvar_reduced.cpp -o pooledvar_reduced.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c triomodel.cpp -o triomodel.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CNPBayes.so RcppExports.o miscfunctions.o multibatch.o multibatch_pooledvar.o multibatch_reduced.o pooledvar_reduced.o triomodel.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CNPBayes.so] Error 1 -ERROR: compilation failed for package ‘CNPBayes’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CNPBayes/old/CNPBayes.Rcheck/CNPBayes’ - -``` -# colorednoise - -
+* using log directory ‘/tmp/workdir/cbar/new/cbar.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘cbar/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘cbar’ version ‘0.1.3’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'Boom', 'bsts' -* Version: 1.0.5 -* Source code: https://github.com/cran/colorednoise -* BugReports: http://github.com/japilo/colorednoise/issues -* Date/Publication: 2019-09-27 13:10:02 UTC -* Number of recursive dependencies: 81 - -Run `revdep_details(,"colorednoise")` for more info - -
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -## In both -* checking whether package ‘colorednoise’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/colorednoise/new/colorednoise.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘colorednoise’ ... -** package ‘colorednoise’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c noise.cpp -o noise.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c simulation.cpp -o simulation.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o colorednoise.so RcppExports.o noise.o simulation.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [colorednoise.so] Error 1 -ERROR: compilation failed for package ‘colorednoise’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/colorednoise/new/colorednoise.Rcheck/colorednoise’ ``` ### CRAN ``` -* installing *source* package ‘colorednoise’ ... -** package ‘colorednoise’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c noise.cpp -o noise.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/colorednoise/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c simulation.cpp -o simulation.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o colorednoise.so RcppExports.o noise.o simulation.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [colorednoise.so] Error 1 -ERROR: compilation failed for package ‘colorednoise’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/colorednoise/old/colorednoise.Rcheck/colorednoise’ - -``` -# COMPASS - -
- -* Version: 1.26.0 -* Source code: https://github.com/cran/COMPASS -* BugReports: https://github.com/RGLab/COMPASS/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 132 +* using log directory ‘/tmp/workdir/cbar/old/cbar.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘cbar/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘cbar’ version ‘0.1.3’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'Boom', 'bsts' -Run `revdep_details(,"COMPASS")` for more info +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -
- -## In both - -* checking whether package ‘COMPASS’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/COMPASS/new/COMPASS.Rcheck/00install.out’ for details. - ``` - -* checking for hidden files and directories ... NOTE - ``` - Found the following hidden files and directories: - .github - These were most likely included in error. See section ‘Package - structure’ in the ‘Writing R Extensions’ manual. - ``` -## Installation -### Devel -``` -* installing *source* package ‘COMPASS’ ... -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c COMPASS_init.c -o COMPASS_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c CellCounts.cpp -o CellCounts.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c CellCounts_character.cpp -o CellCounts_character.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c digamma.c -o digamma.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c mat2vec.c -o mat2vec.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c melt_dataframe.c -o melt_dataframe.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c melt_matrix.c -o melt_matrix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c samplePuPs.cpp -o samplePuPs.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c transpose_list.c -o transpose_list.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatealphas_Exp.cpp -o updatealphas_Exp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatealphau.cpp -o updatealphau.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatealphau_noPu_Exp.cpp -o updatealphau_noPu_Exp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatebeta_RW.cpp -o updatebeta_RW.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updategammak_noPu.cpp -o updategammak_noPu.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/COMPASS/Rcpp/include' -I/usr/local/include -fPIC -O3 -c utils.c -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o COMPASS.so COMPASS_init.o CellCounts.o CellCounts_character.o RcppExports.o digamma.o mat2vec.o melt_dataframe.o melt_matrix.o samplePuPs.o transpose_list.o updatealphas_Exp.o updatealphau.o updatealphau_noPu_Exp.o updatebeta_RW.o updategammak_noPu.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [COMPASS.so] Error 1 -ERROR: compilation failed for package ‘COMPASS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/COMPASS/new/COMPASS.Rcheck/COMPASS’ -``` -### CRAN ``` -* installing *source* package ‘COMPASS’ ... -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c COMPASS_init.c -o COMPASS_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c CellCounts.cpp -o CellCounts.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c CellCounts_character.cpp -o CellCounts_character.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c digamma.c -o digamma.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c mat2vec.c -o mat2vec.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c melt_dataframe.c -o melt_dataframe.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c melt_matrix.c -o melt_matrix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c samplePuPs.cpp -o samplePuPs.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c transpose_list.c -o transpose_list.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatealphas_Exp.cpp -o updatealphas_Exp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatealphau.cpp -o updatealphau.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatealphau_noPu_Exp.cpp -o updatealphau_noPu_Exp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updatebeta_RW.cpp -o updatebeta_RW.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c updategammak_noPu.cpp -o updategammak_noPu.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c utils.c -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o COMPASS.so COMPASS_init.o CellCounts.o CellCounts_character.o RcppExports.o digamma.o mat2vec.o melt_dataframe.o melt_matrix.o samplePuPs.o transpose_list.o updatealphas_Exp.o updatealphau.o updatealphau_noPu_Exp.o updatebeta_RW.o updategammak_noPu.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [COMPASS.so] Error 1 -ERROR: compilation failed for package ‘COMPASS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/COMPASS/old/COMPASS.Rcheck/COMPASS’ - -``` -# concurve +# CCAMLRGIS
-* Version: 2.5.0 -* Source code: https://github.com/cran/concurve -* URL: https://data.lesslikely.com/concurve/, https://github.com/zadrafi/concurve, https://lesslikely.com/ -* BugReports: https://github.com/zadrafi/concurve/issues -* Date/Publication: 2020-04-20 06:00:02 UTC -* Number of recursive dependencies: 206 +* Version: 3.0.3 +* Source code: https://github.com/cran/CCAMLRGIS +* URL: https://github.com/ccamlr/CCAMLRGIS +* Date/Publication: 2020-03-23 05:20:02 UTC +* Number of recursive dependencies: 42 -Run `revdep_details(,"concurve")` for more info +Run `cloud_details(, "CCAMLRGIS")` for more info
-## In both +## Newly broken -* checking whether package ‘concurve’ can be installed ... ERROR +* checking whether package ‘CCAMLRGIS’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/concurve/new/concurve.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/CCAMLRGIS/new/CCAMLRGIS.Rcheck/00install.out’ for details. ``` ## Installation @@ -2223,684 +1859,543 @@ Run `revdep_details(,"concurve")` for more info ### Devel ``` -* installing *source* package ‘concurve’ ... -** package ‘concurve’ successfully unpacked and MD5 sums checked +* installing *source* package ‘CCAMLRGIS’ ... +** package ‘CCAMLRGIS’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘ggpubr’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Error: package or namespace load failed for ‘raster’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): + there is no package called ‘Rcpp’ +Error: package ‘raster’ could not be loaded Execution halted -ERROR: lazy loading failed for package ‘concurve’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/concurve/new/concurve.Rcheck/concurve’ +ERROR: lazy loading failed for package ‘CCAMLRGIS’ +* removing ‘/tmp/workdir/CCAMLRGIS/new/CCAMLRGIS.Rcheck/CCAMLRGIS’ ``` ### CRAN ``` -* installing *source* package ‘concurve’ ... -** package ‘concurve’ successfully unpacked and MD5 sums checked +* installing *source* package ‘CCAMLRGIS’ ... +** package ‘CCAMLRGIS’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘ggpubr’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘concurve’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/concurve/old/concurve.Rcheck/concurve’ +** help +*** installing help indices +** building package indices +** installing vignettes +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (CCAMLRGIS) ``` -# corrcoverage +# CLUSTShiny
-* Version: 1.2.1 -* Source code: https://github.com/cran/corrcoverage -* URL: https://annahutch.github.io/corrcoverage -* BugReports: https://github.com/annahutch/corrcoverage/issues -* Date/Publication: 2019-12-06 23:20:12 UTC -* Number of recursive dependencies: 69 +* Version: 0.1.0 +* Source code: https://github.com/cran/CLUSTShiny +* Date/Publication: 2019-04-28 07:10:06 UTC +* Number of recursive dependencies: 99 -Run `revdep_details(,"corrcoverage")` for more info +Run `cloud_details(, "CLUSTShiny")` for more info
-## In both - -* checking whether package ‘corrcoverage’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/corrcoverage/new/corrcoverage.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘corrcoverage’ ... -** package ‘corrcoverage’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/corrcoverage/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/corrcoverage/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/corrcoverage/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/corrcoverage/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c credsetmat.cpp -o credsetmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o corrcoverage.so RcppExports.o credsetmat.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [corrcoverage.so] Error 1 -ERROR: compilation failed for package ‘corrcoverage’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/corrcoverage/new/corrcoverage.Rcheck/corrcoverage’ +* using log directory ‘/tmp/workdir/CLUSTShiny/new/CLUSTShiny.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘CLUSTShiny/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘CLUSTShiny’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘CLUSTShiny’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘MASS’ ‘cluster’ ‘datasets’ ‘dplyr’ ‘klaR’ ‘psycho’ ‘shiny’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + -``` -### CRAN ``` -* installing *source* package ‘corrcoverage’ ... -** package ‘corrcoverage’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/corrcoverage/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/corrcoverage/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c credsetmat.cpp -o credsetmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o corrcoverage.so RcppExports.o credsetmat.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [corrcoverage.so] Error 1 -ERROR: compilation failed for package ‘corrcoverage’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/corrcoverage/old/corrcoverage.Rcheck/corrcoverage’ +### CRAN ``` -# Countr +* using log directory ‘/tmp/workdir/CLUSTShiny/old/CLUSTShiny.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘CLUSTShiny/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘CLUSTShiny’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘CLUSTShiny’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘MASS’ ‘cluster’ ‘datasets’ ‘dplyr’ ‘klaR’ ‘psycho’ ‘shiny’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + + + +``` +# CollapsABEL
-* Version: 3.5.4 -* Source code: https://github.com/cran/Countr -* URL: https://github.com/GeoBosh/Countr https://geobosh.github.io/Countr/ -* BugReports: https://github.com/GeoBosh/Countr/issues -* Date/Publication: 2019-08-21 11:30:06 UTC -* Number of recursive dependencies: 102 +* Version: 0.10.11 +* Source code: https://github.com/cran/CollapsABEL +* URL: https://bitbucket.org/kindlychung/collapsabel2/overview +* BugReports: https://bitbucket.org/kindlychung/collapsabel2/issues +* Date/Publication: 2016-12-11 20:35:07 +* Number of recursive dependencies: 108 -Run `revdep_details(,"Countr")` for more info +Run `cloud_details(, "CollapsABEL")` for more info
-## In both - -* checking whether package ‘Countr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/Countr/new/Countr.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘Countr’ ... -** package ‘Countr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c built_in_distributions.cpp -o built_in_distributions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c conv_all.cpp -o conv_all.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c conv_dePril.cpp -o conv_dePril.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c conv_naive.cpp -o conv_naive.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c modifiedRenewal.cpp -o modifiedRenewal.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c series_hetwei.cpp -o series_hetwei.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c series_weibull.cpp -o series_weibull.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o Countr.so RcppExports.o built_in_distributions.o conv_all.o conv_dePril.o conv_naive.o modifiedRenewal.o series_hetwei.o series_weibull.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [Countr.so] Error 1 -ERROR: compilation failed for package ‘Countr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/Countr/new/Countr.Rcheck/Countr’ +* using log directory ‘/tmp/workdir/CollapsABEL/new/CollapsABEL.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘CollapsABEL/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘CollapsABEL’ version ‘0.10.11’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘Countr’ ... -** package ‘Countr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c built_in_distributions.cpp -o built_in_distributions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c conv_all.cpp -o conv_all.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c conv_dePril.cpp -o conv_dePril.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c conv_naive.cpp -o conv_naive.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c modifiedRenewal.cpp -o modifiedRenewal.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c series_hetwei.cpp -o series_hetwei.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c series_weibull.cpp -o series_weibull.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/Countr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o Countr.so RcppExports.o built_in_distributions.o conv_all.o conv_dePril.o conv_naive.o modifiedRenewal.o series_hetwei.o series_weibull.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [Countr.so] Error 1 -ERROR: compilation failed for package ‘Countr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/Countr/old/Countr.Rcheck/Countr’ - -``` -# cpr -
-* Version: 0.2.3 -* Source code: https://github.com/cran/cpr -* URL: https://github.com/dewittpe/cpr/ -* Date/Publication: 2017-03-07 13:41:34 -* Number of recursive dependencies: 101 -Run `revdep_details(,"cpr")` for more info -
-## In both +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/CollapsABEL/old/CollapsABEL.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘CollapsABEL/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘CollapsABEL’ version ‘0.10.11’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘cpr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/cpr/new/cpr.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘cpr’ ... -** package ‘cpr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c boehm.cpp -o boehm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c bsplines.cpp -o bsplines.o -bsplines.cpp:24:10: warning: unused variable 'a' [-Wunused-variable] - double a = 0.0; - ^ -bsplines.cpp:25:10: warning: unused variable 'b' [-Wunused-variable] - double b = 0.0; - ^ -2 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c cpr.cpp -o cpr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c diag_only.cpp -o diag_only.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c matrix_rank.cpp -o matrix_rank.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c tensors.cpp -o tensors.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o cpr.so RcppExports.o boehm.o bsplines.o cpr.o diag_only.o matrix_rank.o registerDynamicSymbol.o tensors.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [cpr.so] Error 1 -ERROR: compilation failed for package ‘cpr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/cpr/new/cpr.Rcheck/cpr’ -``` -### CRAN ``` -* installing *source* package ‘cpr’ ... -** package ‘cpr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c boehm.cpp -o boehm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c bsplines.cpp -o bsplines.o -bsplines.cpp:24:10: warning: unused variable 'a' [-Wunused-variable] - double a = 0.0; - ^ -bsplines.cpp:25:10: warning: unused variable 'b' [-Wunused-variable] - double b = 0.0; - ^ -2 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c cpr.cpp -o cpr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c diag_only.cpp -o diag_only.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c matrix_rank.cpp -o matrix_rank.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/cpr/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c tensors.cpp -o tensors.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o cpr.so RcppExports.o boehm.o bsplines.o cpr.o diag_only.o matrix_rank.o registerDynamicSymbol.o tensors.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [cpr.so] Error 1 -ERROR: compilation failed for package ‘cpr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/cpr/old/cpr.Rcheck/cpr’ - -``` -# crawl +# DemografixeR
-* Version: 2.2.1 -* Source code: https://github.com/cran/crawl -* Date/Publication: 2018-09-14 19:20:10 UTC -* Number of recursive dependencies: 110 +* Version: 0.1.1 +* Source code: https://github.com/cran/DemografixeR +* URL: https://matbmeijer.github.io/DemografixeR, https://github.com/matbmeijer/DemografixeR +* BugReports: https://github.com/matbmeijer/DemografixeR/issues +* Date/Publication: 2020-05-06 12:50:22 UTC +* Number of recursive dependencies: 57 -Run `revdep_details(,"crawl")` for more info +Run `cloud_details(, "DemografixeR")` for more info
-## In both - -* checking whether package ‘crawl’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/crawl/new/crawl.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘crawl’ ... -** package ‘crawl’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWN2LL.cpp -o CTCRWN2LL.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWN2LL_DRIFT.cpp -o CTCRWN2LL_DRIFT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWPREDICT.cpp -o CTCRWPREDICT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWPREDICT_DRIFT.cpp -o CTCRWPREDICT_DRIFT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWSAMPLE.cpp -o CTCRWSAMPLE.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWSAMPLE_DRIFT.cpp -o CTCRWSAMPLE_DRIFT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c SMM_MATS.cpp -o SMM_MATS.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o crawl.so CTCRWN2LL.o CTCRWN2LL_DRIFT.o CTCRWPREDICT.o CTCRWPREDICT_DRIFT.o CTCRWSAMPLE.o CTCRWSAMPLE_DRIFT.o RcppExports.o SMM_MATS.o init.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [crawl.so] Error 1 -ERROR: compilation failed for package ‘crawl’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/crawl/new/crawl.Rcheck/crawl’ -``` -### CRAN -``` -* installing *source* package ‘crawl’ ... -** package ‘crawl’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWN2LL.cpp -o CTCRWN2LL.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWN2LL_DRIFT.cpp -o CTCRWN2LL_DRIFT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWPREDICT.cpp -o CTCRWPREDICT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWPREDICT_DRIFT.cpp -o CTCRWPREDICT_DRIFT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWSAMPLE.cpp -o CTCRWSAMPLE.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c CTCRWSAMPLE_DRIFT.cpp -o CTCRWSAMPLE_DRIFT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c SMM_MATS.cpp -o SMM_MATS.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/crawl/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o crawl.so CTCRWN2LL.o CTCRWN2LL_DRIFT.o CTCRWPREDICT.o CTCRWPREDICT_DRIFT.o CTCRWSAMPLE.o CTCRWSAMPLE_DRIFT.o RcppExports.o SMM_MATS.o init.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [crawl.so] Error 1 -ERROR: compilation failed for package ‘crawl’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/crawl/old/crawl.Rcheck/crawl’ - -``` -# CytoML -
-* Version: 2.0.0 -* Source code: https://github.com/cran/CytoML -* URL: https://github.com/RGLab/CytoML -* BugReports: https://github.com/RGLab/CytoML/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 113 -Run `revdep_details(,"CytoML")` for more info -
+``` +### CRAN -## In both +``` -* checking whether package ‘CytoML’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CytoML/new/CytoML.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘CytoML’ ... -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C++ compiler... yes -checking whether clang++ -mmacosx-version-min=10.13 -std=gnu++11 accepts -g... yes -checking for gcc... clang -mmacosx-version-min=10.13 -checking whether we are using the GNU C compiler... yes -checking whether clang -mmacosx-version-min=10.13 accepts -g... yes -checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed -configure: setting xml2 flags... -configure: No directory was specified for --with-xml2. Trying to find xml2 using other methods. -checking for xml2-config... /usr/bin/xml2-config -configure: setting cytolib-ml commandline tool path... -configure: Using the following compilation and linking flags -configure: PKG_CPPFLAGS=-I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -ftemplate-depth=900 -configure: PKG_LIBS=-L/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/lib -lxml2 -lz -lpthread -licucore -lm -configure: CYTOLIBML_BIN=/usr/local/bin -configure: creating ./config.status -config.status: creating src/Makevars -config.status: creating R/cytolibml_bin_path.R -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include/ -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -ftemplate-depth=900 -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/flowWorkspace/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:4: -In file included from ./../inst/include/CytoML.h:5: -In file included from ../inst/include/CytoML/openWorkspace.hpp:12: -../inst/include/CytoML/winFlowJoWorkspace.hpp:439:30: warning: '/*' within block comment [-Wcomment] - * "*[local-name()='edge']/*[local-name()='vertex']" is for ellipsoidGate - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include/ -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -ftemplate-depth=900 -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/flowWorkspace/include' -I/usr/local/include -fPIC -Wall -g -O2 -c parseFlowJoWorkspace.cpp -o parseFlowJoWorkspace.o -In file included from parseFlowJoWorkspace.cpp:9: -In file included from ../inst/include/CytoML/openWorkspace.hpp:12: -../inst/include/CytoML/winFlowJoWorkspace.hpp:439:30: warning: '/*' within block comment [-Wcomment] - * "*[local-name()='edge']/*[local-name()='vertex']" is for ellipsoidGate - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CytoML.so RcppExports.o parseFlowJoWorkspace.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/lib -lxml2 -lz -lpthread -licucore -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CytoML.so] Error 1 -ERROR: compilation failed for package ‘CytoML’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CytoML/new/CytoML.Rcheck/CytoML’ -``` -### CRAN ``` -* installing *source* package ‘CytoML’ ... -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C++ compiler... yes -checking whether clang++ -mmacosx-version-min=10.13 -std=gnu++11 accepts -g... yes -checking for gcc... clang -mmacosx-version-min=10.13 -checking whether we are using the GNU C compiler... yes -checking whether clang -mmacosx-version-min=10.13 accepts -g... yes -checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed -configure: setting xml2 flags... -configure: No directory was specified for --with-xml2. Trying to find xml2 using other methods. -checking for xml2-config... /usr/bin/xml2-config -configure: setting cytolib-ml commandline tool path... -configure: Using the following compilation and linking flags -configure: PKG_CPPFLAGS=-I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -ftemplate-depth=900 -configure: PKG_LIBS=-L/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/lib -lxml2 -lz -lpthread -licucore -lm -configure: CYTOLIBML_BIN=/usr/local/bin -configure: creating ./config.status -config.status: creating src/Makevars -config.status: creating R/cytolibml_bin_path.R -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include/ -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -ftemplate-depth=900 -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/flowWorkspace/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:4: -In file included from ./../inst/include/CytoML.h:5: -In file included from ../inst/include/CytoML/openWorkspace.hpp:12: -../inst/include/CytoML/winFlowJoWorkspace.hpp:439:30: warning: '/*' within block comment [-Wcomment] - * "*[local-name()='edge']/*[local-name()='vertex']" is for ellipsoidGate - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include/ -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -ftemplate-depth=900 -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/CytoML/flowWorkspace/include' -I/usr/local/include -fPIC -Wall -g -O2 -c parseFlowJoWorkspace.cpp -o parseFlowJoWorkspace.o -In file included from parseFlowJoWorkspace.cpp:9: -In file included from ../inst/include/CytoML/openWorkspace.hpp:12: -../inst/include/CytoML/winFlowJoWorkspace.hpp:439:30: warning: '/*' within block comment [-Wcomment] - * "*[local-name()='edge']/*[local-name()='vertex']" is for ellipsoidGate - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CytoML.so RcppExports.o parseFlowJoWorkspace.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/lib -lxml2 -lz -lpthread -licucore -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [CytoML.so] Error 1 -ERROR: compilation failed for package ‘CytoML’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/CytoML/old/CytoML.Rcheck/CytoML’ - -``` -# dann +# DepthProc
-* Version: 0.2.0 -* Source code: https://github.com/cran/dann -* Date/Publication: 2020-03-14 05:20:02 UTC -* Number of recursive dependencies: 86 +* Version: 2.1.3 +* Source code: https://github.com/cran/DepthProc +* URL: https://www.depthproc.zstat.pl/, https://github.com/zzawadz/DepthProc +* BugReports: https://github.com/zzawadz/DepthProc/issues +* Date/Publication: 2020-02-19 21:00:03 UTC +* Number of recursive dependencies: 115 -Run `revdep_details(,"dann")` for more info +Run `cloud_details(, "DepthProc")` for more info
-## In both - -* checking whether package ‘dann’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dann/new/dann.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘dann’ ... -** package ‘dann’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c internal_armadillo_helpers.cpp -o internal_armadillo_helpers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c internal_helpers_C.cpp -o internal_helpers_C.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dann.so RcppExports.o internal_armadillo_helpers.o internal_helpers_C.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dann.so] Error 1 -ERROR: compilation failed for package ‘dann’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dann/new/dann.Rcheck/dann’ +* using log directory ‘/tmp/workdir/DepthProc/new/DepthProc.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘DepthProc/DESCRIPTION’ ... OK +* this is package ‘DepthProc’ version ‘2.1.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘DepthProc’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 7.3Mb + sub-directories of 1Mb or more: + libs 6.3Mb +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* DONE +Status: 1 NOTE + + + + + ``` ### CRAN ``` -* installing *source* package ‘dann’ ... -** package ‘dann’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c internal_armadillo_helpers.cpp -o internal_armadillo_helpers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dann/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c internal_helpers_C.cpp -o internal_helpers_C.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dann.so RcppExports.o internal_armadillo_helpers.o internal_helpers_C.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dann.so] Error 1 -ERROR: compilation failed for package ‘dann’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dann/old/dann.Rcheck/dann’ - -``` -# DAPAR +* using log directory ‘/tmp/workdir/DepthProc/old/DepthProc.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘DepthProc/DESCRIPTION’ ... OK +* this is package ‘DepthProc’ version ‘2.1.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘DepthProc’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 7.3Mb + sub-directories of 1Mb or more: + libs 6.3Mb +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* DONE +Status: 1 NOTE + + + + + + +``` +# diceR
-* Version: 1.20.1 -* Source code: https://github.com/cran/DAPAR -* Date/Publication: 2020-05-06 -* Number of recursive dependencies: 248 +* Version: 0.6.0 +* Source code: https://github.com/cran/diceR +* URL: https://github.com/AlineTalhouk/diceR, https://alinetalhouk.github.io/diceR +* BugReports: https://github.com/AlineTalhouk/diceR/issues +* Date/Publication: 2019-07-25 20:30:02 UTC +* Number of recursive dependencies: 173 -Run `revdep_details(,"DAPAR")` for more info +Run `cloud_details(, "diceR")` for more info
-## In both - -* checking whether package ‘DAPAR’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DAPAR/new/DAPAR.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘DAPAR’ ... -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DAPAR/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DAPAR/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DAPAR/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘DAPAR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DAPAR/new/DAPAR.Rcheck/DAPAR’ +* using log directory ‘/tmp/workdir/diceR/new/diceR.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘diceR/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘diceR’ version ‘0.6.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘NMF’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘DAPAR’ ... -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DAPAR/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DAPAR/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DAPAR/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘DAPAR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DAPAR/old/DAPAR.Rcheck/DAPAR’ -``` -# DataVisualizations -
-* Version: 1.1.11 -* Source code: https://github.com/cran/DataVisualizations -* URL: http://www.deepbionics.org -* BugReports: https://github.com/Mthrun/DataVisualizations/issues -* Date/Publication: 2020-02-13 17:50:02 UTC -* Number of recursive dependencies: 152 -Run `revdep_details(,"DataVisualizations")` for more info -
+``` +### CRAN -## In both +``` +* using log directory ‘/tmp/workdir/diceR/old/diceR.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘diceR/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘diceR’ version ‘0.6.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘NMF’ -* checking whether package ‘DataVisualizations’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DataVisualizations/new/DataVisualizations.Rcheck/00install.out’ for details. - ``` +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘modes’ - ``` -## Installation -### Devel -``` -* installing *source* package ‘DataVisualizations’ ... -** package ‘DataVisualizations’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c c_inPSphere2D.cpp -o c_inPSphere2D.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c c_quantile.cpp -o c_quantile.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o DataVisualizations.so RcppExports.o c_inPSphere2D.o c_quantile.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [DataVisualizations.so] Error 1 -ERROR: compilation failed for package ‘DataVisualizations’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DataVisualizations/new/DataVisualizations.Rcheck/DataVisualizations’ -``` -### CRAN ``` -* installing *source* package ‘DataVisualizations’ ... -** package ‘DataVisualizations’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c c_inPSphere2D.cpp -o c_inPSphere2D.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DataVisualizations/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c c_quantile.cpp -o c_quantile.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o DataVisualizations.so RcppExports.o c_inPSphere2D.o c_quantile.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [DataVisualizations.so] Error 1 -ERROR: compilation failed for package ‘DataVisualizations’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DataVisualizations/old/DataVisualizations.Rcheck/DataVisualizations’ - -``` -# DEP +# Distance
-* Version: 1.10.0 -* Source code: https://github.com/cran/DEP -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 148 +* Version: 1.0.0 +* Source code: https://github.com/cran/Distance +* URL: http://github.com/DistanceDevelopment/Distance/ +* BugReports: https://github.com/DistanceDevelopment/Distance/issues +* Date/Publication: 2020-01-31 13:20:17 UTC +* Number of recursive dependencies: 45 -Run `revdep_details(,"DEP")` for more info +Run `cloud_details(, "Distance")` for more info
## In both -* checking whether package ‘DEP’ can be installed ... ERROR +* checking whether package ‘Distance’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DEP/new/DEP.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/Distance/new/Distance.Rcheck/00install.out’ for details. ``` ## Installation @@ -2908,614 +2403,263 @@ Run `revdep_details(,"DEP")` for more info ### Devel ``` -* installing *source* package ‘DEP’ ... +* installing *source* package ‘Distance’ ... +** package ‘Distance’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data -*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DEP/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DEP/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DEP/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load +Error: package or namespace load failed for ‘mrds’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): + there is no package called ‘Rsolnp’ +Error: package ‘mrds’ could not be loaded Execution halted -ERROR: lazy loading failed for package ‘DEP’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DEP/new/DEP.Rcheck/DEP’ +ERROR: lazy loading failed for package ‘Distance’ +* removing ‘/tmp/workdir/Distance/new/Distance.Rcheck/Distance’ ``` ### CRAN ``` -* installing *source* package ‘DEP’ ... +* installing *source* package ‘Distance’ ... +** package ‘Distance’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data -*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DEP/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DEP/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DEP/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load +Error: package or namespace load failed for ‘mrds’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): + there is no package called ‘Rsolnp’ +Error: package ‘mrds’ could not be loaded Execution halted -ERROR: lazy loading failed for package ‘DEP’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DEP/old/DEP.Rcheck/DEP’ +ERROR: lazy loading failed for package ‘Distance’ +* removing ‘/tmp/workdir/Distance/old/Distance.Rcheck/Distance’ ``` -# DepthProc +# DiversityOccupancy
-* Version: 2.1.3 -* Source code: https://github.com/cran/DepthProc -* URL: https://www.depthproc.zstat.pl/, https://github.com/zzawadz/DepthProc -* BugReports: https://github.com/zzawadz/DepthProc/issues -* Date/Publication: 2020-02-19 21:00:03 UTC -* Number of recursive dependencies: 115 +* Version: 1.0.6 +* Source code: https://github.com/cran/DiversityOccupancy +* Date/Publication: 2017-03-02 18:32:36 +* Number of recursive dependencies: 96 -Run `revdep_details(,"DepthProc")` for more info +Run `cloud_details(, "DiversityOccupancy")` for more info
-## In both - -* checking whether package ‘DepthProc’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DepthProc/new/DepthProc.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘DepthProc’ ... -** package ‘DepthProc’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Depth.cpp -o Depth.o -Depth.cpp:22:14: warning: unused variable 'i' [-Wunused-variable] - size_t k,i; - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c LocationEstimators.cpp -o LocationEstimators.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c LocationScaleDepth.cpp -o LocationScaleDepth.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RobCovLib.cpp -o RobCovLib.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c TukeyDepth.cpp -o TukeyDepth.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Utils.cpp -o Utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c UtilsCPP.cpp -o UtilsCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c covFunCPP.cpp -o covFunCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c depthFunCPP.cpp -o depthFunCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c depthcpp.cpp -o depthcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o DepthProc.so Depth.o LocationEstimators.o LocationScaleDepth.o LocationScaleDepthCPP.o RcppExports.o RobCovLib.o TukeyDepth.o Utils.o UtilsCPP.o covFunCPP.o depthFunCPP.o depthcpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include" -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [DepthProc.so] Error 1 -ERROR: compilation failed for package ‘DepthProc’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DepthProc/new/DepthProc.Rcheck/DepthProc’ +* using log directory ‘/tmp/workdir/DiversityOccupancy/new/DiversityOccupancy.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘DiversityOccupancy/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘DiversityOccupancy’ version ‘1.0.6’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘DepthProc’ ... -** package ‘DepthProc’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Depth.cpp -o Depth.o -Depth.cpp:22:14: warning: unused variable 'i' [-Wunused-variable] - size_t k,i; - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c LocationEstimators.cpp -o LocationEstimators.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c LocationScaleDepth.cpp -o LocationScaleDepth.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RobCovLib.cpp -o RobCovLib.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c TukeyDepth.cpp -o TukeyDepth.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Utils.cpp -o Utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c UtilsCPP.cpp -o UtilsCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c covFunCPP.cpp -o covFunCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c depthFunCPP.cpp -o depthFunCPP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c depthcpp.cpp -o depthcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o DepthProc.so Depth.o LocationEstimators.o LocationScaleDepth.o LocationScaleDepthCPP.o RcppExports.o RobCovLib.o TukeyDepth.o Utils.o UtilsCPP.o covFunCPP.o depthFunCPP.o depthcpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/DepthProc/RcppArmadillo/include" -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [DepthProc.so] Error 1 -ERROR: compilation failed for package ‘DepthProc’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DepthProc/old/DepthProc.Rcheck/DepthProc’ - -``` -# dexter -
-* Version: 1.0.7 -* Source code: https://github.com/cran/dexter -* URL: http://dexterities.netlify.com -* BugReports: https://github.com/jessekps/dexter/issues -* Date/Publication: 2020-04-02 15:00:02 UTC -* Number of recursive dependencies: 76 -Run `revdep_details(,"dexter")` for more info -
-## In both +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/DiversityOccupancy/old/DiversityOccupancy.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘DiversityOccupancy/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘DiversityOccupancy’ version ‘1.0.6’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘dexter’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dexter/new/dexter.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘dexter’ ... -** package ‘dexter’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c data.cpp -o data.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c elsym.cpp -o elsym.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c meanelsym.cpp -o meanelsym.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pascal.cpp -o pascal.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c roger.cpp -o roger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dexter.so RcppExports.o data.o elsym.o meanelsym.o pascal.o roger.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dexter.so] Error 1 -ERROR: compilation failed for package ‘dexter’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dexter/new/dexter.Rcheck/dexter’ -``` -### CRAN ``` -* installing *source* package ‘dexter’ ... -** package ‘dexter’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c data.cpp -o data.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c elsym.cpp -o elsym.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c meanelsym.cpp -o meanelsym.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pascal.cpp -o pascal.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dexter/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c roger.cpp -o roger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dexter.so RcppExports.o data.o elsym.o meanelsym.o pascal.o roger.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dexter.so] Error 1 -ERROR: compilation failed for package ‘dexter’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dexter/old/dexter.Rcheck/dexter’ - -``` -# DiffBind +# ESTER
-* Version: 2.16.0 -* Source code: https://github.com/cran/DiffBind -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 157 +* Version: 0.2.0 +* Source code: https://github.com/cran/ESTER +* URL: https://github.com/lnalborczyk/ESTER +* BugReports: https://github.com/lnalborczyk/ESTER/issues +* Date/Publication: 2017-12-10 14:21:14 UTC +* Number of recursive dependencies: 127 -Run `revdep_details(,"DiffBind")` for more info +Run `cloud_details(, "ESTER")` for more info
-## In both - -* R CMD check timed out - +## Error before installation -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘DESeq’ - - Packages which this enhances but not available for checking: - 'rgl', 'XLConnect' - ``` +### Devel -* checking R code for possible problems ... NOTE - ``` - pv.DBAplotVolcano: no visible binding for global variable ‘Fold’ - pv.DBAplotVolcano: no visible binding for global variable ‘Legend’ - Undefined global functions or variables: - Fold Legend - ``` +``` +* using log directory ‘/tmp/workdir/ESTER/new/ESTER.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘ESTER/DESCRIPTION’ ... OK +* this is package ‘ESTER’ version ‘0.2.0’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'brms', 'ggplot2' -* checking contents of ‘data’ directory ... NOTE - ``` - Output for data("tamoxifen_analysis", package = "DiffBind"): - - Output for data("tamoxifen_counts", package = "DiffBind"): - - ``` +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` -* checking compiled code ... NOTE - ``` - File ‘DiffBind/libs/DiffBind.so’: - Found ‘___stderrp’, possibly from ‘stderr’ (C) - Object: ‘sam.o’ - - Compiled code should not call entry points which might terminate R nor - write to stdout/stderr instead of to the console, nor use Fortran I/O - nor system RNGs. - - See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. - ``` -# dodgr -
-* Version: 0.2.7 -* Source code: https://github.com/cran/dodgr -* URL: https://github.com/ATFutures/dodgr -* BugReports: https://github.com/ATFutures/dodgr/issues -* Date/Publication: 2020-05-05 22:20:02 UTC -* Number of recursive dependencies: 94 -Run `revdep_details(,"dodgr")` for more info +``` +### CRAN -
+``` +* using log directory ‘/tmp/workdir/ESTER/old/ESTER.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘ESTER/DESCRIPTION’ ... OK +* this is package ‘ESTER’ version ‘0.2.0’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'brms', 'ggplot2' -## In both +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘dodgr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dodgr/new/dodgr.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘dodgr’ ... -** package ‘dodgr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/bheap.cpp -o heaps/bheap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/fheap.cpp -o heaps/fheap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/heap23.cpp -o heaps/heap23.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/triheap_ext.cpp -o heaps/triheap_ext.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/triheap.cpp -o heaps/triheap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c centrality.cpp -o centrality.o -In file included from centrality.cpp:1: -In file included from ./run_sp.h:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c dgraph.cpp -o dgraph.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c pathfinders.cpp -o pathfinders.o -In file included from pathfinders.cpp:1: -In file included from ./pathfinders.h:7: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c dodgr-to-sf.cpp -o dodgr-to-sf.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c flows.cpp -o flows.o -In file included from flows.cpp:2: -In file included from ./run_sp.h:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c fund-cycles.cpp -o fund-cycles.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c graph-contract.cpp -o graph-contract.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c graph.cpp -o graph.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c graph-sample.cpp -o graph-sample.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c run_sp.cpp -o run_sp.o -In file included from run_sp.cpp:2: -In file included from ./run_sp.h:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c sc-as-network.cpp -o sc-as-network.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c sf-as-network.cpp -o sf-as-network.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c turn_penalty.cpp -o turn_penalty.o -In file included from turn_penalty.cpp:1: -In file included from ./turn_penalty.h:3: -In file included from ./sc-as-network.h:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -turn_penalty.cpp:49:5: note: in instantiation of template class 'std::__1::set >' requested here - erase_non_junctions (the_edges, junction_vertices); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dodgr.so heaps/bheap.o heaps/fheap.o heaps/heap23.o heaps/triheap_ext.o heaps/triheap.o centrality.o dgraph.o pathfinders.o dodgr-to-sf.o flows.o fund-cycles.o graph-contract.o graph.o graph-sample.o RcppExports.o run_sp.o sc-as-network.o sf-as-network.o turn_penalty.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dodgr.so] Error 1 -ERROR: compilation failed for package ‘dodgr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dodgr/new/dodgr.Rcheck/dodgr’ -``` -### CRAN ``` -* installing *source* package ‘dodgr’ ... -** package ‘dodgr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/bheap.cpp -o heaps/bheap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/fheap.cpp -o heaps/fheap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/heap23.cpp -o heaps/heap23.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/triheap_ext.cpp -o heaps/triheap_ext.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c heaps/triheap.cpp -o heaps/triheap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c centrality.cpp -o centrality.o -In file included from centrality.cpp:1: -In file included from ./run_sp.h:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c dgraph.cpp -o dgraph.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c pathfinders.cpp -o pathfinders.o -In file included from pathfinders.cpp:1: -In file included from ./pathfinders.h:7: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c dodgr-to-sf.cpp -o dodgr-to-sf.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c flows.cpp -o flows.o -In file included from flows.cpp:2: -In file included from ./run_sp.h:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c fund-cycles.cpp -o fund-cycles.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c graph-contract.cpp -o graph-contract.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c graph.cpp -o graph.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c graph-sample.cpp -o graph-sample.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c run_sp.cpp -o run_sp.o -In file included from run_sp.cpp:2: -In file included from ./run_sp.h:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -./pathfinders.h:130:17: note: in instantiation of template class 'std::__1::set >' requested here - EdgeSet edge_set; - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c sc-as-network.cpp -o sc-as-network.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c sf-as-network.cpp -o sf-as-network.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dodgr/RcppThread/include' -I/usr/local/include -fPIC -Wall -O3 -c turn_penalty.cpp -o turn_penalty.o -In file included from turn_penalty.cpp:1: -In file included from ./turn_penalty.h:3: -In file included from ./sc-as-network.h:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:57: -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/set:454:26: warning: the specified comparator type does not provide a const call operator [-Wuser-defined-warnings] - static_assert(sizeof(__diagnose_non_const_comparator<_Key, _Compare>()), ""); - ^ -turn_penalty.cpp:49:5: note: in instantiation of template class 'std::__1::set >' requested here - erase_non_junctions (the_edges, junction_vertices); - ^ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__tree:967:5: note: from 'diagnose_if' attribute on '__diagnose_non_const_comparator': - _LIBCPP_DIAGNOSE_WARNING(!std::__invokable<_Compare const&, _Tp const&, _Tp const&>::value, - ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/__config:1320:21: note: expanded from macro '_LIBCPP_DIAGNOSE_WARNING' - __attribute__((diagnose_if(__VA_ARGS__, "warning"))) - ^ ~~~~~~~~~~~ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dodgr.so heaps/bheap.o heaps/fheap.o heaps/heap23.o heaps/triheap_ext.o heaps/triheap.o centrality.o dgraph.o pathfinders.o dodgr-to-sf.o flows.o fund-cycles.o graph-contract.o graph.o graph-sample.o RcppExports.o run_sp.o sc-as-network.o sf-as-network.o turn_penalty.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dodgr.so] Error 1 -ERROR: compilation failed for package ‘dodgr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dodgr/old/dodgr.Rcheck/dodgr’ - -``` -# downscaledl +# EstimateGroupNetwork
-* Version: 1.0 -* Source code: https://github.com/cran/downscaledl -* Date/Publication: 2019-10-24 16:20:10 UTC -* Number of recursive dependencies: 44 +* Version: 0.2.2 +* Source code: https://github.com/cran/EstimateGroupNetwork +* Date/Publication: 2020-01-08 08:20:02 UTC +* Number of recursive dependencies: 111 -Run `revdep_details(,"downscaledl")` for more info +Run `cloud_details(, "EstimateGroupNetwork")` for more info
-## In both - -* checking whether package ‘downscaledl’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/downscaledl/new/downscaledl.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘downscaledl’ ... -** package ‘downscaledl’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/downscaledl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/downscaledl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/downscaledl/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/downscaledl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rcpparmabasic.cpp -o rcpparmabasic.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o downscaledl.so RcppExports.o rcpparmabasic.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [downscaledl.so] Error 1 -ERROR: compilation failed for package ‘downscaledl’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/downscaledl/new/downscaledl.Rcheck/downscaledl’ +* using log directory ‘/tmp/workdir/EstimateGroupNetwork/new/EstimateGroupNetwork.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘EstimateGroupNetwork/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘EstimateGroupNetwork’ version ‘0.2.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘downscaledl’ ... -** package ‘downscaledl’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/downscaledl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/downscaledl/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rcpparmabasic.cpp -o rcpparmabasic.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o downscaledl.so RcppExports.o rcpparmabasic.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [downscaledl.so] Error 1 -ERROR: compilation failed for package ‘downscaledl’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/downscaledl/old/downscaledl.Rcheck/downscaledl’ +* using log directory ‘/tmp/workdir/EstimateGroupNetwork/old/EstimateGroupNetwork.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘EstimateGroupNetwork/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘EstimateGroupNetwork’ version ‘0.2.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` -# dscore +# EventStudy
-* Version: 1.2.0 -* Source code: https://github.com/cran/dscore -* URL: https://github.com/stefvanbuuren/dscore, https://stefvanbuuren.name/dscore/, https://stefvanbuuren.name/dbook1/ -* BugReports: https://github.com/stefvanbuuren/dscore/issues -* Date/Publication: 2020-04-02 10:20:02 UTC -* Number of recursive dependencies: 91 +* Version: 0.36 +* Source code: https://github.com/cran/EventStudy +* URL: http://eventstudytools.com +* BugReports: https://github.com/EventStudyTools/api-wrapper.r/issues +* Date/Publication: 2019-03-14 12:13:31 UTC +* Number of recursive dependencies: 135 -Run `revdep_details(,"dscore")` for more info +Run `cloud_details(, "EventStudy")` for more info
## In both -* checking whether package ‘dscore’ can be installed ... ERROR +* checking whether package ‘EventStudy’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dscore/new/dscore.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/EventStudy/new/EventStudy.Rcheck/00install.out’ for details. ``` ## Installation @@ -3523,213 +2667,206 @@ Run `revdep_details(,"dscore")` for more info ### Devel ``` -* installing *source* package ‘dscore’ ... -** package ‘dscore’ successfully unpacked and MD5 sums checked +* installing *source* package ‘EventStudy’ ... +** package ‘EventStudy’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dscore/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dscore/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dscore/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dscore/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c dscore.cpp -o dscore.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dscore.so RcppExports.o dscore.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dscore.so] Error 1 -ERROR: compilation failed for package ‘dscore’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dscore/new/dscore.Rcheck/dscore’ +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘mime’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +ERROR: lazy loading failed for package ‘EventStudy’ +* removing ‘/tmp/workdir/EventStudy/new/EventStudy.Rcheck/EventStudy’ ``` ### CRAN ``` -* installing *source* package ‘dscore’ ... -** package ‘dscore’ successfully unpacked and MD5 sums checked +* installing *source* package ‘EventStudy’ ... +** package ‘EventStudy’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dscore/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dscore/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c dscore.cpp -o dscore.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dscore.so RcppExports.o dscore.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dscore.so] Error 1 -ERROR: compilation failed for package ‘dscore’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dscore/old/dscore.Rcheck/dscore’ +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘mime’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +ERROR: lazy loading failed for package ‘EventStudy’ +* removing ‘/tmp/workdir/EventStudy/old/EventStudy.Rcheck/EventStudy’ ``` -# dtwclust +# FedData
-* Version: 5.5.6 -* Source code: https://github.com/cran/dtwclust -* URL: https://github.com/asardaes/dtwclust -* BugReports: https://github.com/asardaes/dtwclust/issues -* Date/Publication: 2019-12-11 08:20:02 UTC -* Number of recursive dependencies: 94 +* Version: 2.5.7 +* Source code: https://github.com/cran/FedData +* URL: https://github.com/ropensci/FedData +* BugReports: https://github.com/ropensci/FedData/issues +* Date/Publication: 2019-04-22 13:40:03 UTC +* Number of recursive dependencies: 130 -Run `revdep_details(,"dtwclust")` for more info +Run `cloud_details(, "FedData")` for more info
-## In both - -* checking whether package ‘dtwclust’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dtwclust/new/dtwclust.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘dtwclust’ ... -** package ‘dtwclust’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/utils.cpp -o utils/utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/R-utils.cpp -o utils/R-utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/ParallelWorker.cpp -o utils/ParallelWorker.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/KahanSummer.cpp -o utils/KahanSummer.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/UndirectedGraph.cpp -o utils/UndirectedGraph.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/envelope.cpp -o utils/envelope.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c centroids/dba.cpp -o centroids/dba.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c centroids/sdtw-cent.cpp -o centroids/sdtw-cent.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/distmat-loop.cpp -o distmat/distmat-loop.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/distmat.cpp -o distmat/distmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/fillers.cpp -o distmat/fillers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/dtw-lb.cpp -o distmat/dtw-lb.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c init.cpp -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/dtw-basic.cpp -o distances/dtw-basic.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/R-gateways.cpp -o distances/R-gateways.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/soft-dtw.cpp -o distances/soft-dtw.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/calculators.cpp -o distances/calculators.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/logGAK.cpp -o distances/logGAK.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/lbk.cpp -o distances/lbk.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/lbi.cpp -o distances/lbi.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c tadpole/tadpole.cpp -o tadpole/tadpole.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dtwclust.so ./utils/utils.o ./utils/R-utils.o ./utils/ParallelWorker.o ./utils/KahanSummer.o ./utils/UndirectedGraph.o ./utils/envelope.o ./centroids/dba.o ./centroids/sdtw-cent.o ./distmat/distmat-loop.o ./distmat/distmat.o ./distmat/fillers.o ./distmat/dtw-lb.o ./init.o ./distances/dtw-basic.o ./distances/R-gateways.o ./distances/soft-dtw.o ./distances/calculators.o ./distances/logGAK.o ./distances/lbk.o ./distances/lbi.o ./tadpole/tadpole.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dtwclust.so] Error 1 -ERROR: compilation failed for package ‘dtwclust’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dtwclust/new/dtwclust.Rcheck/dtwclust’ - -``` -### CRAN - -``` -* installing *source* package ‘dtwclust’ ... -** package ‘dtwclust’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/utils.cpp -o utils/utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/R-utils.cpp -o utils/R-utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/ParallelWorker.cpp -o utils/ParallelWorker.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/KahanSummer.cpp -o utils/KahanSummer.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/UndirectedGraph.cpp -o utils/UndirectedGraph.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c utils/envelope.cpp -o utils/envelope.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c centroids/dba.cpp -o centroids/dba.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c centroids/sdtw-cent.cpp -o centroids/sdtw-cent.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/distmat-loop.cpp -o distmat/distmat-loop.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/distmat.cpp -o distmat/distmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/fillers.cpp -o distmat/fillers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distmat/dtw-lb.cpp -o distmat/dtw-lb.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c init.cpp -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/dtw-basic.cpp -o distances/dtw-basic.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/R-gateways.cpp -o distances/R-gateways.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/soft-dtw.cpp -o distances/soft-dtw.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/calculators.cpp -o distances/calculators.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/logGAK.cpp -o distances/logGAK.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/lbk.cpp -o distances/lbk.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c distances/lbi.cpp -o distances/lbi.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dtwclust/RcppThread/include' -I/usr/local/include -DRCPP_USE_UNWIND_PROTECT -fPIC -Wall -O3 -c tadpole/tadpole.cpp -o tadpole/tadpole.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dtwclust.so ./utils/utils.o ./utils/R-utils.o ./utils/ParallelWorker.o ./utils/KahanSummer.o ./utils/UndirectedGraph.o ./utils/envelope.o ./centroids/dba.o ./centroids/sdtw-cent.o ./distmat/distmat-loop.o ./distmat/distmat.o ./distmat/fillers.o ./distmat/dtw-lb.o ./init.o ./distances/dtw-basic.o ./distances/R-gateways.o ./distances/soft-dtw.o ./distances/calculators.o ./distances/logGAK.o ./distances/lbk.o ./distances/lbi.o ./tadpole/tadpole.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dtwclust.so] Error 1 -ERROR: compilation failed for package ‘dtwclust’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dtwclust/old/dtwclust.Rcheck/dtwclust’ - -``` -# DuoClustering2018 - -
- -* Version: 1.6.0 -* Source code: https://github.com/cran/DuoClustering2018 -* Date/Publication: 2020-05-07 -* Number of recursive dependencies: 158 +* using log directory ‘/tmp/workdir/FedData/new/FedData.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘FedData/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘FedData’ version ‘2.5.7’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘FedData’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* DONE +Status: OK -Run `revdep_details(,"DuoClustering2018")` for more info - -
-## Newly broken -* R CMD check timed out - -* checking R code for possible problems ... NOTE - ``` - ... - plot_timing: no visible binding for global variable ‘dataset’ - plot_timing: no visible binding for global variable ‘method’ - plot_timing: no visible binding for global variable ‘run’ - plot_timing: no visible binding for global variable ‘k’ - plot_timing: no visible binding for global variable ‘cluster’ - plot_timing: no visible binding for global variable ‘trueclass’ - plot_timing: no visible binding for global variable ‘est_k’ - plot_timing: no visible binding for global variable ‘elapsed’ - plot_timing: no visible binding for global variable ‘sce’ - plot_timing: no visible binding for global variable ‘filtering’ - plot_timing: no visible binding for global variable ‘truenclust’ - plot_timing: no visible binding for global variable ‘median.elapsed’ - plot_timing: no visible binding for global variable ‘med.t’ - plot_timing: no visible binding for global variable ‘norm.time’ - plot_timing: no visible binding for global variable ‘medianelapsed’ - Undefined global functions or variables: - ARI ari.stab cell cluster data.wide dataset ds ds.norm elapsed - entropy est_k estnclust filtering k k_diff med.t medARI - median.elapsed median.stability medianARI medianelapsed method - norm.time run s s.norm s.true s.true.norm sce stability trueclass - truenclust - ``` -## Newly fixed -* checking whether package ‘DuoClustering2018’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/DuoClustering2018/old/DuoClustering2018.Rcheck/00install.out’ for details. - ``` +``` +### CRAN -# dynfrail +``` +* using log directory ‘/tmp/workdir/FedData/old/FedData.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘FedData/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘FedData’ version ‘2.5.7’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘FedData’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* DONE +Status: OK + + + + + + +``` +# fingertipscharts
-* Version: 0.5.2 -* Source code: https://github.com/cran/dynfrail -* Date/Publication: 2017-10-30 10:11:49 UTC -* Number of recursive dependencies: 75 +* Version: 0.0.10 +* Source code: https://github.com/cran/fingertipscharts +* BugReports: https://github.com/PublicHealthEngland/fingertipscharts/issues +* Date/Publication: 2019-10-07 15:00:03 UTC +* Number of recursive dependencies: 142 -Run `revdep_details(,"dynfrail")` for more info +Run `cloud_details(, "fingertipscharts")` for more info
## In both -* checking whether package ‘dynfrail’ can be installed ... ERROR +* checking whether package ‘fingertipscharts’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dynfrail/new/dynfrail.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/fingertipscharts/new/fingertipscharts.Rcheck/00install.out’ for details. ``` ## Installation @@ -3737,110 +2874,64 @@ Run `revdep_details(,"dynfrail")` for more info ### Devel ``` -* installing *source* package ‘dynfrail’ ... -** package ‘dynfrail’ successfully unpacked and MD5 sums checked +* installing *source* package ‘fingertipscharts’ ... +** package ‘fingertipscharts’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dynfrail/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dynfrail/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dynfrail/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dynfrail/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c estep_new.cpp -o estep_new.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dynfrail.so RcppExports.o estep_new.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dynfrail.so] Error 1 -ERROR: compilation failed for package ‘dynfrail’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dynfrail/new/dynfrail.Rcheck/dynfrail’ +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in dyn.load(file, DLLpath = DLLpath, ...) : + unable to load shared object '/opt/R/3.6.3/lib/R/library/jqr/libs/jqr.so': + libjq.so.1: cannot open shared object file: No such file or directory +Calls: ... asNamespace -> loadNamespace -> library.dynam -> dyn.load +Execution halted +ERROR: lazy loading failed for package ‘fingertipscharts’ +* removing ‘/tmp/workdir/fingertipscharts/new/fingertipscharts.Rcheck/fingertipscharts’ ``` ### CRAN ``` -* installing *source* package ‘dynfrail’ ... -** package ‘dynfrail’ successfully unpacked and MD5 sums checked +* installing *source* package ‘fingertipscharts’ ... +** package ‘fingertipscharts’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dynfrail/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dynfrail/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c estep_new.cpp -o estep_new.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o dynfrail.so RcppExports.o estep_new.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [dynfrail.so] Error 1 -ERROR: compilation failed for package ‘dynfrail’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/dynfrail/old/dynfrail.Rcheck/dynfrail’ +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in dyn.load(file, DLLpath = DLLpath, ...) : + unable to load shared object '/opt/R/3.6.3/lib/R/library/jqr/libs/jqr.so': + libjq.so.1: cannot open shared object file: No such file or directory +Calls: ... asNamespace -> loadNamespace -> library.dynam -> dyn.load +Execution halted +ERROR: lazy loading failed for package ‘fingertipscharts’ +* removing ‘/tmp/workdir/fingertipscharts/old/fingertipscharts.Rcheck/fingertipscharts’ ``` -# ENCODExplorer - -
- -* Version: 2.14.0 -* Source code: https://github.com/cran/ENCODExplorer -* BugReports: https://github.com/CharlesJB/ENCODExplorer/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 96 - -Run `revdep_details(,"ENCODExplorer")` for more info - -
- -## In both - -* R CMD check timed out - - -* checking R code for possible problems ... NOTE - ``` - createDesign: no visible binding for global variable ‘file_format’ - createDesign: no visible binding for global variable ‘status’ - createDesign: no visible binding for global variable ‘accession’ - createDesign: no visible binding for global variable ‘controls’ - createDesign : get_ctrl_design: no visible binding for global variable - ‘accession’ - createDesign : get_ctrl_design: no visible binding for global variable - ‘href’ - createDesign: no visible global function definition for ‘.’ - createDesign: no visible binding for global variable ‘href’ - createDesign: no visible binding for global variable ‘Experiment’ - createDesign: no visible binding for global variable ‘Value’ - downloadEncode: no visible binding for global variable ‘file_accession’ - downloadEncode: no visible binding for global variable ‘file_format’ - downloadEncode: no visible binding for global variable ‘accession’ - shinyEncode: no visible binding for global variable ‘ui’ - shinyEncode: no visible binding for global variable ‘server’ - Undefined global functions or variables: - . Experiment Value accession controls file_accession file_format href - server status ui - ``` - -# exuber +# gastempt
-* Version: 0.4.0 -* Source code: https://github.com/cran/exuber -* URL: https://github.com/kvasilopoulos/exuber -* BugReports: https://github.com/kvasilopoulos/exuber/issues -* Date/Publication: 2020-05-04 17:10:08 UTC -* Number of recursive dependencies: 91 +* Version: 0.5.0 +* Source code: https://github.com/cran/gastempt +* URL: http://github.com/dmenne/gastempt +* BugReports: http://github.com/dmenne/gastempt/issues +* Date/Publication: 2020-05-01 10:10:02 UTC +* Number of recursive dependencies: 88 -Run `revdep_details(,"exuber")` for more info +Run `cloud_details(, "gastempt")` for more info
## In both -* checking whether package ‘exuber’ can be installed ... ERROR +* checking whether package ‘gastempt’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/exuber/new/exuber.Rcheck/00install.out’ for details. - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘exuberdata’ + See ‘/tmp/workdir/gastempt/new/gastempt.Rcheck/00install.out’ for details. ``` ## Installation @@ -3848,62 +2939,48 @@ Run `revdep_details(,"exuber")` for more info ### Devel ``` -* installing *source* package ‘exuber’ ... -** package ‘exuber’ successfully unpacked and MD5 sums checked +* installing *source* package ‘gastempt’ ... +** package ‘gastempt’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/exuber/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/exuber/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/exuber/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/exuber/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rls_gsadf.cpp -o rls_gsadf.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o exuber.so RcppExports.o rls_gsadf.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [exuber.so] Error 1 -ERROR: compilation failed for package ‘exuber’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/exuber/new/exuber.Rcheck/exuber’ +Error in loadNamespace(name) : there is no package called ‘rstantools’ +Calls: :: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +ERROR: configuration failed for package ‘gastempt’ +* removing ‘/tmp/workdir/gastempt/new/gastempt.Rcheck/gastempt’ ``` ### CRAN ``` -* installing *source* package ‘exuber’ ... -** package ‘exuber’ successfully unpacked and MD5 sums checked +* installing *source* package ‘gastempt’ ... +** package ‘gastempt’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/exuber/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/exuber/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rls_gsadf.cpp -o rls_gsadf.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o exuber.so RcppExports.o rls_gsadf.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [exuber.so] Error 1 -ERROR: compilation failed for package ‘exuber’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/exuber/old/exuber.Rcheck/exuber’ +Error in loadNamespace(name) : there is no package called ‘rstantools’ +Calls: :: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +ERROR: configuration failed for package ‘gastempt’ +* removing ‘/tmp/workdir/gastempt/old/gastempt.Rcheck/gastempt’ ``` -# fable +# GeneBook
-* Version: 0.2.0 -* Source code: https://github.com/cran/fable -* URL: https://fable.tidyverts.org, https://github.com/tidyverts/fable -* BugReports: https://github.com/tidyverts/fable/issues -* Date/Publication: 2020-04-22 13:12:08 UTC -* Number of recursive dependencies: 99 +* Version: 1.0 +* Source code: https://github.com/cran/GeneBook +* Date/Publication: 2019-08-01 13:30:05 UTC +* Number of recursive dependencies: 41 -Run `revdep_details(,"fable")` for more info +Run `cloud_details(, "GeneBook")` for more info
## In both -* checking whether package ‘fable’ can be installed ... ERROR +* checking whether package ‘GeneBook’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fable/new/fable.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/GeneBook/new/GeneBook.Rcheck/00install.out’ for details. ``` ## Installation @@ -3911,1052 +2988,193 @@ Run `revdep_details(,"fable")` for more info ### Devel ``` -* installing *source* package ‘fable’ ... -** package ‘fable’ successfully unpacked and MD5 sums checked +* installing *source* package ‘GeneBook’ ... +** package ‘GeneBook’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c etsTargetFunction.cpp -o etsTargetFunction.o -In file included from etsTargetFunction.cpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include/RcppCommon.h:128: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include/Rcpp/exceptions.h:112:53: warning: all paths through this function will call itself [-Winfinite-recursion] - inline void warning(const std::string& message) { // #nocov start - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c etsTargetFunctionWrapper.cpp -o etsTargetFunctionWrapper.o -In file included from etsTargetFunctionWrapper.cpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include/RcppCommon.h:128: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include/Rcpp/exceptions.h:112:53: warning: all paths through this function will call itself [-Winfinite-recursion] - inline void warning(const std::string& message) { // #nocov start - ^ -1 warning generated. -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include' -I/usr/local/include -fPIC -O3 -c etscalc.c -o etscalc.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fable/Rcpp/include' -I/usr/local/include -fPIC -O3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fable.so etsTargetFunction.o etsTargetFunctionWrapper.o etscalc.o registerDynamicSymbol.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [fable.so] Error 1 -ERROR: compilation failed for package ‘fable’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fable/new/fable.Rcheck/fable’ +** R +** byte-compile and prepare package for lazy loading +Failed with error: ‘there is no package called ‘R.utils’’ +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + there is no package called ‘R.utils’ +Error: unable to load R code in package ‘GeneBook’ +Execution halted +ERROR: lazy loading failed for package ‘GeneBook’ +* removing ‘/tmp/workdir/GeneBook/new/GeneBook.Rcheck/GeneBook’ ``` ### CRAN ``` -* installing *source* package ‘fable’ ... -** package ‘fable’ successfully unpacked and MD5 sums checked +* installing *source* package ‘GeneBook’ ... +** package ‘GeneBook’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c etsTargetFunction.cpp -o etsTargetFunction.o -In file included from etsTargetFunction.cpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:128: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/exceptions.h:112:53: warning: all paths through this function will call itself [-Winfinite-recursion] - inline void warning(const std::string& message) { // #nocov start - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c etsTargetFunctionWrapper.cpp -o etsTargetFunctionWrapper.o -In file included from etsTargetFunctionWrapper.cpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/RcppCommon.h:128: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/exceptions.h:112:53: warning: all paths through this function will call itself [-Winfinite-recursion] - inline void warning(const std::string& message) { // #nocov start - ^ -1 warning generated. -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c etscalc.c -o etscalc.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fable.so etsTargetFunction.o etsTargetFunctionWrapper.o etscalc.o registerDynamicSymbol.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [fable.so] Error 1 -ERROR: compilation failed for package ‘fable’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fable/old/fable.Rcheck/fable’ - -``` -# fastLink +** R +** byte-compile and prepare package for lazy loading +Failed with error: ‘there is no package called ‘R.utils’’ +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + there is no package called ‘R.utils’ +Error: unable to load R code in package ‘GeneBook’ +Execution halted +ERROR: lazy loading failed for package ‘GeneBook’ +* removing ‘/tmp/workdir/GeneBook/old/GeneBook.Rcheck/GeneBook’ + +``` +# GenomicMating
-* Version: 0.6.0 -* Source code: https://github.com/cran/fastLink -* BugReports: https://github.com/kosukeimai/fastLink/issues -* Date/Publication: 2020-04-29 17:00:03 UTC -* Number of recursive dependencies: 72 +* Version: 2.0 +* Source code: https://github.com/cran/GenomicMating +* Date/Publication: 2018-07-01 23:00:03 UTC +* Number of recursive dependencies: 92 -Run `revdep_details(,"fastLink")` for more info +Run `cloud_details(, "GenomicMating")` for more info
-## In both - -* checking whether package ‘fastLink’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fastLink/new/fastLink.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘fastLink’ ... -** package ‘fastLink’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -O3 -c fastLink_init.c -o fastLink_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c helpers.cpp -o helpers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c m_func_cpp.cpp -o m_func_cpp.o -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fastLink.so RcppExports.o fastLink_init.o helpers.o m_func_cpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [fastLink.so] Error 1 -ERROR: compilation failed for package ‘fastLink’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fastLink/new/fastLink.Rcheck/fastLink’ +* using log directory ‘/tmp/workdir/GenomicMating/new/GenomicMating.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GenomicMating/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘GenomicMating’ version ‘2.0’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘GenomicMating’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/GenomicMating/new/GenomicMating.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR -``` -### CRAN -``` -* installing *source* package ‘fastLink’ ... -** package ‘fastLink’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -O3 -c fastLink_init.c -o fastLink_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c helpers.cpp -o helpers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c m_func_cpp.cpp -o m_func_cpp.o -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from m_func_cpp.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fastLink/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fastLink.so RcppExports.o fastLink_init.o helpers.o m_func_cpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [fastLink.so] Error 1 -ERROR: compilation failed for package ‘fastLink’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fastLink/old/fastLink.Rcheck/fastLink’ - -``` -# flowWorkspace -
-* Version: 4.0.0 -* Source code: https://github.com/cran/flowWorkspace -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 113 -Run `revdep_details(,"flowWorkspace")` for more info -
+``` +### CRAN -## In both +``` +* using log directory ‘/tmp/workdir/GenomicMating/old/GenomicMating.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GenomicMating/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘GenomicMating’ version ‘2.0’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘GenomicMating’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/GenomicMating/old/GenomicMating.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR -* checking whether package ‘flowWorkspace’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/new/flowWorkspace.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘flowWorkspace’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c R_API.cpp -o R_API.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c R_GatingSet.cpp -o R_GatingSet.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:4: -In file included from ./../inst/include/flowWorkspace.h:6: -In file included from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include/RcppArmadillo.h:34: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp.h:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp/XPtr.h:30:5: warning: delete called on non-final 'cytolib::CytoFrameView' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - delete obj; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp/XPtr.h:53:26: note: in instantiation of function template specialization 'Rcpp::standard_delete_finalizer' requested here - void Finalizer(T*) = standard_delete_finalizer, - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c cytoframeAPI.cpp -o cytoframeAPI.o -In file included from cytoframeAPI.cpp:2: -In file included from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include/RcppArmadillo.h:34: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp.h:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp/XPtr.h:30:5: warning: delete called on non-final 'cytolib::CytoFrameView' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - delete obj; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp/XPtr.h:53:26: note: in instantiation of function template specialization 'Rcpp::standard_delete_finalizer' requested here - void Finalizer(T*) = standard_delete_finalizer, - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c cytosetAPI.cpp -o cytosetAPI.o -In file included from cytosetAPI.cpp:2: -In file included from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include/RcppArmadillo.h:34: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp.h:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp/XPtr.h:30:5: warning: delete called on non-final 'cytolib::CytoFrameView' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - delete obj; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include/Rcpp/XPtr.h:53:26: note: in instantiation of function template specialization 'Rcpp::standard_delete_finalizer' requested here - void Finalizer(T*) = standard_delete_finalizer, - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c getDescendants.cpp -o getDescendants.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c getPopStats.cpp -o getPopStats.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c getSingleCellExpression.cpp -o getSingleCellExpression.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c h5_error_r_handler.cpp -o h5_error_r_handler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c setCounts.cpp -o setCounts.o -mkdir -p "/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/new/flowWorkspace.Rcheck/00LOCK-flowWorkspace/00new/flowWorkspace/lib" -ar rs "/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/new/flowWorkspace.Rcheck/00LOCK-flowWorkspace/00new/flowWorkspace/lib/libflowWorkspace.a" R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o -ar: creating archive /Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/new/flowWorkspace.Rcheck/00LOCK-flowWorkspace/00new/flowWorkspace/lib/libflowWorkspace.a -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o flowWorkspace.so R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [flowWorkspace.so] Error 1 -ERROR: compilation failed for package ‘flowWorkspace’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/new/flowWorkspace.Rcheck/flowWorkspace’ -``` -### CRAN ``` -* installing *source* package ‘flowWorkspace’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c R_API.cpp -o R_API.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c R_GatingSet.cpp -o R_GatingSet.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:4: -In file included from ./../inst/include/flowWorkspace.h:6: -In file included from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include/RcppArmadillo.h:34: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/XPtr.h:30:5: warning: delete called on non-final 'cytolib::CytoFrameView' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - delete obj; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/XPtr.h:53:26: note: in instantiation of function template specialization 'Rcpp::standard_delete_finalizer' requested here - void Finalizer(T*) = standard_delete_finalizer, - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c cytoframeAPI.cpp -o cytoframeAPI.o -In file included from cytoframeAPI.cpp:2: -In file included from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include/RcppArmadillo.h:34: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/XPtr.h:30:5: warning: delete called on non-final 'cytolib::CytoFrameView' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - delete obj; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/XPtr.h:53:26: note: in instantiation of function template specialization 'Rcpp::standard_delete_finalizer' requested here - void Finalizer(T*) = standard_delete_finalizer, - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c cytosetAPI.cpp -o cytosetAPI.o -In file included from cytosetAPI.cpp:2: -In file included from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include/RcppArmadillo.h:34: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp.h:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/XPtr.h:30:5: warning: delete called on non-final 'cytolib::CytoFrameView' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] - delete obj; - ^ -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include/Rcpp/XPtr.h:53:26: note: in instantiation of function template specialization 'Rcpp::standard_delete_finalizer' requested here - void Finalizer(T*) = standard_delete_finalizer, - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c getDescendants.cpp -o getDescendants.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c getPopStats.cpp -o getPopStats.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c getSingleCellExpression.cpp -o getSingleCellExpression.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c h5_error_r_handler.cpp -o h5_error_r_handler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RProtoBufLib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/cytolib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/Rhdf5lib/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/flowWorkspace/RcppParallel/include' -I/usr/local/include -fPIC -Wall -O3 -c setCounts.cpp -o setCounts.o -mkdir -p "/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/old/flowWorkspace.Rcheck/00LOCK-flowWorkspace/00new/flowWorkspace/lib" -ar rs "/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/old/flowWorkspace.Rcheck/00LOCK-flowWorkspace/00new/flowWorkspace/lib/libflowWorkspace.a" R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o -ar: creating archive /Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/old/flowWorkspace.Rcheck/00LOCK-flowWorkspace/00new/flowWorkspace/lib/libflowWorkspace.a -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o flowWorkspace.so R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [flowWorkspace.so] Error 1 -ERROR: compilation failed for package ‘flowWorkspace’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/flowWorkspace/old/flowWorkspace.Rcheck/flowWorkspace’ - -``` -# fourierin +# GetLattesData
-* Version: 0.2.4 -* Source code: https://github.com/cran/fourierin -* URL: http://github.com/gbasulto/fourierin -* BugReports: https://github.com/gbasulto/fourierin/issues -* Date/Publication: 2019-04-07 12:22:43 UTC -* Number of recursive dependencies: 67 +* Version: 1.4 +* Source code: https://github.com/cran/GetLattesData +* URL: https://github.com/msperlin/GetLattesData/ +* BugReports: https://github.com/msperlin/GetLattesData/issues +* Date/Publication: 2020-03-07 15:30:02 UTC +* Number of recursive dependencies: 70 -Run `revdep_details(,"fourierin")` for more info +Run `cloud_details(, "GetLattesData")` for more info
-## In both - -* checking whether package ‘fourierin’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fourierin/new/fourierin.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘fourierin’ ... -** package ‘fourierin’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_1d.cpp -o fourierin_1d.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_2d.cpp -o fourierin_2d.o -fourierin_2d.cpp:160:10: warning: local variable 'out' will be copied despite being returned by name [-Wreturn-std-move] - return out; - ^~~ -fourierin_2d.cpp:160:10: note: call 'std::move' explicitly to avoid copying - return out; - ^~~ - std::move(out) -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_cx_1d.cpp -o fourierin_cx_1d.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_cx_2d.cpp -o fourierin_cx_2d.o -fourierin_cx_2d.cpp:157:10: warning: local variable 'out' will be copied despite being returned by name [-Wreturn-std-move] - return out; - ^~~ -fourierin_cx_2d.cpp:157:10: note: call 'std::move' explicitly to avoid copying - return out; - ^~~ - std::move(out) -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_cx_nd.cpp -o fourierin_cx_nd.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fourierin.so RcppExports.o fourierin_1d.o fourierin_2d.o fourierin_cx_1d.o fourierin_cx_2d.o fourierin_cx_nd.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [fourierin.so] Error 1 -ERROR: compilation failed for package ‘fourierin’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fourierin/new/fourierin.Rcheck/fourierin’ +* using log directory ‘/tmp/workdir/GetLattesData/new/GetLattesData.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GetLattesData/DESCRIPTION’ ... OK +* this is package ‘GetLattesData’ version ‘1.4’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘stringdist’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘fourierin’ ... -** package ‘fourierin’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_1d.cpp -o fourierin_1d.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_2d.cpp -o fourierin_2d.o -fourierin_2d.cpp:160:10: warning: local variable 'out' will be copied despite being returned by name [-Wreturn-std-move] - return out; - ^~~ -fourierin_2d.cpp:160:10: note: call 'std::move' explicitly to avoid copying - return out; - ^~~ - std::move(out) -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_cx_1d.cpp -o fourierin_cx_1d.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_cx_2d.cpp -o fourierin_cx_2d.o -fourierin_cx_2d.cpp:157:10: warning: local variable 'out' will be copied despite being returned by name [-Wreturn-std-move] - return out; - ^~~ -fourierin_cx_2d.cpp:157:10: note: call 'std::move' explicitly to avoid copying - return out; - ^~~ - std::move(out) -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/fourierin/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c fourierin_cx_nd.cpp -o fourierin_cx_nd.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o fourierin.so RcppExports.o fourierin_1d.o fourierin_2d.o fourierin_cx_1d.o fourierin_cx_2d.o fourierin_cx_nd.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [fourierin.so] Error 1 -ERROR: compilation failed for package ‘fourierin’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/fourierin/old/fourierin.Rcheck/fourierin’ - -``` -# gap -
-* Version: 1.2.2 -* Source code: https://github.com/cran/gap -* URL: https://github.com/jinghuazhao/R -* BugReports: https://github.com/jinghuazhao/R/issues -* Date/Publication: 2020-02-02 15:10:02 UTC -* Number of recursive dependencies: 142 -Run `revdep_details(,"gap")` for more info -
-## In both +``` +### CRAN -* checking whether package ‘gap’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gap/new/gap.Rcheck/00install.out’ for details. - ``` +``` +* using log directory ‘/tmp/workdir/GetLattesData/old/GetLattesData.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GetLattesData/DESCRIPTION’ ... OK +* this is package ‘GetLattesData’ version ‘1.4’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘stringdist’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘regress’ - ``` -## Installation -### Devel -``` -* installing *source* package ‘gap’ ... -** package ‘gap’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c 2k.c -o 2k.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c 2ld.c -o 2ld.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c cline.c -o cline.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gcontrol_c.c -o gcontrol_c.o -gcontrol_c.c:757:53: warning: if statement has empty body [-Wempty-body] - if(i>=*burn && j==0) /*printf("%14.9f \n",p)*/; - ^ -gcontrol_c.c:757:53: note: put the semicolon on a separate line to silence this warning -1 warning generated. -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gcx.c -o gcx.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gif_c.c -o gif_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hap_c.c -o hap_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hwe.hardy.c -o hwe.hardy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c kin.morgan.c -o kin.morgan.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c makeped_c.c -o makeped_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mia.c -o mia.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c muvar.c -o muvar.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c package_native_routine_registration_skeleton.c -o package_native_routine_registration_skeleton.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c pfc.f -o pfc.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c pfc.sim.f -o pfc.sim.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c pgc_c.c -o pgc_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c whscore.c -o whscore.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o gap.so 2k.o 2ld.o cline.o gcontrol_c.o gcx.o gif_c.o hap_c.o hwe.hardy.o kin.morgan.o makeped_c.o mia.o muvar.o package_native_routine_registration_skeleton.o pfc.o pfc.sim.o pgc_c.o whscore.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [gap.so] Error 1 -ERROR: compilation failed for package ‘gap’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gap/new/gap.Rcheck/gap’ -``` -### CRAN ``` -* installing *source* package ‘gap’ ... -** package ‘gap’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c 2k.c -o 2k.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c 2ld.c -o 2ld.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c cline.c -o cline.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gcontrol_c.c -o gcontrol_c.o -gcontrol_c.c:757:53: warning: if statement has empty body [-Wempty-body] - if(i>=*burn && j==0) /*printf("%14.9f \n",p)*/; - ^ -gcontrol_c.c:757:53: note: put the semicolon on a separate line to silence this warning -1 warning generated. -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gcx.c -o gcx.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gif_c.c -o gif_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hap_c.c -o hap_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c hwe.hardy.c -o hwe.hardy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c kin.morgan.c -o kin.morgan.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c makeped_c.c -o makeped_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mia.c -o mia.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c muvar.c -o muvar.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c package_native_routine_registration_skeleton.c -o package_native_routine_registration_skeleton.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c pfc.f -o pfc.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c pfc.sim.f -o pfc.sim.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c pgc_c.c -o pgc_c.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c whscore.c -o whscore.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o gap.so 2k.o 2ld.o cline.o gcontrol_c.o gcx.o gif_c.o hap_c.o hwe.hardy.o kin.morgan.o makeped_c.o mia.o muvar.o package_native_routine_registration_skeleton.o pfc.o pfc.sim.o pgc_c.o whscore.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [gap.so] Error 1 -ERROR: compilation failed for package ‘gap’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gap/old/gap.Rcheck/gap’ - -``` -# GAPGOM +# GetQuandlData
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 0.1.0 +* Source code: https://github.com/cran/GetQuandlData +* URL: https://github.com/msperlin/GetQuandlData/ +* BugReports: https://github.com/msperlin/GetQuandlData/issues +* Date/Publication: 2019-10-20 11:30:02 UTC +* Number of recursive dependencies: 96 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "GetQuandlData")` for more info
@@ -4965,15 +3183,30 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/GetQuandlData/new/GetQuandlData.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GetQuandlData/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘GetQuandlData’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ - There is a binary version available but the source version is later: - binary source needs_compilation -tidyr 1.0.2 1.0.3 TRUE +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source packages ‘org.Ag.eg.db’, ‘org.At.tair.db’, ‘org.Bt.eg.db’, ‘org.Ce.eg.db’, ‘org.Cf.eg.db’, ‘org.Dr.eg.db’, ‘org.EcK12.eg.db’, ‘org.EcSakai.eg.db’, ‘org.Mmu.eg.db’, ‘org.Pf.plasmo.db’, ‘org.Pt.eg.db’, ‘org.Sc.sgd.db’, ‘org.Ss.eg.db’, ‘org.Xl.eg.db’ @@ -4981,1808 +3214,443 @@ installing the source packages ‘org.Ag.eg.db’, ‘org.At.tair.db’, ‘org. ### CRAN ``` +* using log directory ‘/tmp/workdir/GetQuandlData/old/GetQuandlData.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GetQuandlData/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘GetQuandlData’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. - There is a binary version available but the source version is later: - binary source needs_compilation -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed -installing the source packages ‘org.Ag.eg.db’, ‘org.At.tair.db’, ‘org.Bt.eg.db’, ‘org.Ce.eg.db’, ‘org.Cf.eg.db’, ‘org.Dr.eg.db’, ‘org.EcK12.eg.db’, ‘org.EcSakai.eg.db’, ‘org.Mmu.eg.db’, ‘org.Pf.plasmo.db’, ‘org.Pt.eg.db’, ‘org.Sc.sgd.db’, ‘org.Ss.eg.db’, ‘org.Xl.eg.db’ ``` -# gastempt +# GPSCDF
-* Version: 0.5.0 -* Source code: https://github.com/cran/gastempt -* URL: http://github.com/dmenne/gastempt -* BugReports: http://github.com/dmenne/gastempt/issues -* Date/Publication: 2020-05-01 10:10:02 UTC -* Number of recursive dependencies: 87 +* Version: 0.1.1 +* Source code: https://github.com/cran/GPSCDF +* Date/Publication: 2019-03-05 15:20:18 UTC +* Number of recursive dependencies: 80 -Run `revdep_details(,"gastempt")` for more info +Run `cloud_details(, "GPSCDF")` for more info
-## In both - -* checking whether package ‘gastempt’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gastempt/new/gastempt.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘gastempt’ ... -** package ‘gastempt’ successfully unpacked and MD5 sums checked -** using staged installation -Error in loadNamespace(name) : there is no package called ‘rstantools’ -Calls: :: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: configuration failed for package ‘gastempt’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gastempt/new/gastempt.Rcheck/gastempt’ +* using log directory ‘/tmp/workdir/GPSCDF/new/GPSCDF.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GPSCDF/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘GPSCDF’ version ‘0.1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘GPSCDF’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/GPSCDF/new/GPSCDF.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘gastempt’ ... -** package ‘gastempt’ successfully unpacked and MD5 sums checked -** using staged installation -Error in loadNamespace(name) : there is no package called ‘rstantools’ -Calls: :: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: configuration failed for package ‘gastempt’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gastempt/old/gastempt.Rcheck/gastempt’ +* using log directory ‘/tmp/workdir/GPSCDF/old/GPSCDF.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘GPSCDF/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘GPSCDF’ version ‘0.1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘GPSCDF’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/GPSCDF/old/GPSCDF.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR + + + + + ``` -# GenomicMating +# HURDAT
-* Version: 2.0 -* Source code: https://github.com/cran/GenomicMating -* Date/Publication: 2018-07-01 23:00:03 UTC -* Number of recursive dependencies: 92 +* Version: 0.2.3.1 +* Source code: https://github.com/cran/HURDAT +* URL: https://github.com/timtrice/HURDAT +* BugReports: https://github.com/timtrice/HURDAT/issues +* Date/Publication: 2020-01-28 14:20:11 UTC +* Number of recursive dependencies: 86 -Run `revdep_details(,"GenomicMating")` for more info +Run `cloud_details(, "HURDAT")` for more info
-## In both - -* checking whether package ‘GenomicMating’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/GenomicMating/new/GenomicMating.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘GenomicMating’ ... -** package ‘GenomicMating’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/GenomicMating/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/GenomicMating/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c MatingPrograms.cpp -o MatingPrograms.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/GenomicMating/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/GenomicMating/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o GenomicMating.so MatingPrograms.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [GenomicMating.so] Error 1 -ERROR: compilation failed for package ‘GenomicMating’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/GenomicMating/new/GenomicMating.Rcheck/GenomicMating’ +* using log directory ‘/tmp/workdir/HURDAT/new/HURDAT.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘HURDAT/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘HURDAT’ version ‘0.2.3.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘HURDAT’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘rvest’ ‘xml2’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘hurdat.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 NOTE + + + + -``` -### CRAN ``` -* installing *source* package ‘GenomicMating’ ... -** package ‘GenomicMating’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/GenomicMating/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c MatingPrograms.cpp -o MatingPrograms.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/GenomicMating/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o GenomicMating.so MatingPrograms.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [GenomicMating.so] Error 1 -ERROR: compilation failed for package ‘GenomicMating’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/GenomicMating/old/GenomicMating.Rcheck/GenomicMating’ +### CRAN ``` -# geodiv +* using log directory ‘/tmp/workdir/HURDAT/old/HURDAT.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘HURDAT/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘HURDAT’ version ‘0.2.3.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘HURDAT’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘rvest’ ‘xml2’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘hurdat.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 NOTE + + + + + + +``` +# IETD
-* Version: 0.1.1 -* Source code: https://github.com/cran/geodiv -* Date/Publication: 2020-02-13 14:40:08 UTC -* Number of recursive dependencies: 75 +* Version: 1.0.0 +* Source code: https://github.com/cran/IETD +* Date/Publication: 2020-03-10 08:50:06 UTC +* Number of recursive dependencies: 62 -Run `revdep_details(,"geodiv")` for more info +Run `cloud_details(, "IETD")` for more info
-## In both - -* checking whether package ‘geodiv’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/geodiv/new/geodiv.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘geodiv’ ... -** package ‘geodiv’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/geodiv/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/geodiv/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/geodiv/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/geodiv/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sfd.cpp -o sfd.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o geodiv.so RcppExports.o sfd.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [geodiv.so] Error 1 -ERROR: compilation failed for package ‘geodiv’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/geodiv/new/geodiv.Rcheck/geodiv’ +* using log directory ‘/tmp/workdir/IETD/new/IETD.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘IETD/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘IETD’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘IETD’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespace in Imports field not imported from: ‘Rdpack’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* DONE +Status: 1 NOTE + + + + -``` -### CRAN ``` -* installing *source* package ‘geodiv’ ... -** package ‘geodiv’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/geodiv/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/geodiv/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sfd.cpp -o sfd.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o geodiv.so RcppExports.o sfd.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [geodiv.so] Error 1 -ERROR: compilation failed for package ‘geodiv’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/geodiv/old/geodiv.Rcheck/geodiv’ +### CRAN ``` -# GEOquery +* using log directory ‘/tmp/workdir/IETD/old/IETD.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘IETD/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘IETD’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘IETD’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespace in Imports field not imported from: ‘Rdpack’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* DONE +Status: 1 NOTE + + + + + + +``` +# IncucyteDRC
-* Version: 2.56.0 -* Source code: https://github.com/cran/GEOquery -* URL: https://github.com/seandavi/GEOquery -* BugReports: https://github.com/seandavi/GEOquery/issues/new -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 65 - -Run `revdep_details(,"GEOquery")` for more info - -
- -## In both - -* R CMD check timed out - - -* checking installed package size ... NOTE - ``` - installed size is 13.9Mb - sub-directories of 1Mb or more: - extdata 12.8Mb - ``` - -* checking whether the namespace can be loaded with stated dependencies ... NOTE - ``` - Warning: no function found corresponding to methods exports from ‘GEOquery’ for: ‘show’ - - A namespace must be able to be loaded with just the base namespace - loaded: otherwise if the namespace gets loaded by a saved object, the - session will be unable to start. - - Probably some imports need to be declared in the NAMESPACE file. - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘httr’ - All declared Imports should be used. - Package in Depends field not imported from: ‘methods’ - These packages need to be imported from (in the NAMESPACE file) - for when this namespace is loaded but not attached. - ``` - -* checking R code for possible problems ... NOTE - ``` - ... - fastTabRead: no visible global function definition for ‘read.delim’ - parseGDS: no visible global function definition for ‘new’ - parseGSE: no visible global function definition for ‘new’ - parseGSEMatrix: no visible global function definition for ‘read.table’ - parseGSEMatrix: no visible global function definition for ‘new’ - parseGSEMatrix: no visible binding for global variable ‘.’ - parseGSEMatrix: no visible binding for global variable - ‘characteristics’ - parseGSEMatrix: no visible binding for global variable ‘kvpair’ - parseGSEMatrix: no visible binding for global variable ‘accession’ - parseGSEMatrix: no visible binding for global variable ‘k’ - parseGSEMatrix: no visible binding for global variable ‘v’ - parseGSEMatrix: no visible global function definition for ‘as’ - Undefined global functions or variables: - . MA accession as characteristics k kvpair new read.delim read.table - v - Consider adding - importFrom("methods", "as", "new") - importFrom("utils", "read.delim", "read.table") - to your NAMESPACE file (and ensure that your DESCRIPTION Imports field - contains 'methods'). - ``` - -# gespeR - -
- -* Version: 1.20.0 -* Source code: https://github.com/cran/gespeR -* URL: http://www.cbg.ethz.ch/software/gespeR -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 118 - -Run `revdep_details(,"gespeR")` for more info - -
- -## In both - -* checking whether package ‘gespeR’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gespeR/new/gespeR.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘gespeR’ ... -** using staged installation -** R -** data -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘prada’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘gespeR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gespeR/new/gespeR.Rcheck/gespeR’ - -``` -### CRAN - -``` -* installing *source* package ‘gespeR’ ... -** using staged installation -** R -** data -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘prada’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘gespeR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/gespeR/old/gespeR.Rcheck/gespeR’ - -``` -# goldi - -
- -* Version: 1.0.1 -* Source code: https://github.com/cran/goldi -* URL: https://github.com/Chris1221/goldi -* BugReports: https://github.com/Chris1221/goldi/issues -* Date/Publication: 2017-06-28 15:06:20 UTC -* Number of recursive dependencies: 70 - -Run `revdep_details(,"goldi")` for more info - -
- -## In both - -* checking whether package ‘goldi’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/goldi/new/goldi.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘goldi’ ... -** package ‘goldi’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/goldi/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/goldi/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/goldi/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/goldi/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c match.cpp -o match.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o goldi.so RcppExports.o match.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [goldi.so] Error 1 -ERROR: compilation failed for package ‘goldi’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/goldi/new/goldi.Rcheck/goldi’ - -``` -### CRAN - -``` -* installing *source* package ‘goldi’ ... -** package ‘goldi’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/goldi/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/goldi/RcppArmadillo/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c match.cpp -o match.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o goldi.so RcppExports.o match.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [goldi.so] Error 1 -ERROR: compilation failed for package ‘goldi’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/goldi/old/goldi.Rcheck/goldi’ - -``` -# graphicalVAR - -
- -* Version: 0.2.3 -* Source code: https://github.com/cran/graphicalVAR -* Date/Publication: 2020-04-09 14:00:06 UTC -* Number of recursive dependencies: 115 - -Run `revdep_details(,"graphicalVAR")` for more info - -
- -## In both - -* checking whether package ‘graphicalVAR’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/graphicalVAR/new/graphicalVAR.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘graphicalVAR’ ... -** package ‘graphicalVAR’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/graphicalVAR/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/graphicalVAR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/graphicalVAR/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/graphicalVAR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Rothmana.cpp -o Rothmana.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o graphicalVAR.so RcppExports.o Rothmana.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [graphicalVAR.so] Error 1 -ERROR: compilation failed for package ‘graphicalVAR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/graphicalVAR/new/graphicalVAR.Rcheck/graphicalVAR’ - -``` -### CRAN - -``` -* installing *source* package ‘graphicalVAR’ ... -** package ‘graphicalVAR’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/graphicalVAR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/graphicalVAR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Rothmana.cpp -o Rothmana.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o graphicalVAR.so RcppExports.o Rothmana.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [graphicalVAR.so] Error 1 -ERROR: compilation failed for package ‘graphicalVAR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/graphicalVAR/old/graphicalVAR.Rcheck/graphicalVAR’ - -``` -# grasp2db - -
- -* Version: 1.1.0 -* Source code: https://github.com/cran/grasp2db -* Number of recursive dependencies: 118 - -Run `revdep_details(,"grasp2db")` for more info - -
- -## In both - -* R CMD check timed out - - -* checking for missing documentation entries ... WARNING - ``` - Undocumented code objects: - ‘GRASP2’ ‘checkAnti’ ‘getJoinCompatible’ - Undocumented data sets: - ‘mml10p_nox’ ‘uniqueGexNames2.0’ ‘uniquePPDnames2.0’ - All user-level objects in a package should have documentation entries. - See chapter ‘Writing R documentation files’ in the ‘Writing R - Extensions’ manual. - ``` - -* checking data for non-ASCII characters ... WARNING - ``` - Warning: found non-ASCII string - 'Behet's disease' in object 'uniquePPDnames2.0' - ``` - -* checking data for ASCII and uncompressed saves ... WARNING - ``` - - Note: significantly better compression could be obtained - by using R CMD build --resave-data - old_size new_size compress - mml10p_nox.rda 7.1Mb 2.8Mb xz - uniquePPDnames2.0.rda 17Kb 15Kb bzip2 - ``` - -* checking package dependencies ... NOTE - ``` - Package which this enhances but not available for checking: ‘AnnotationHubData’ - ``` - -* checking installed package size ... NOTE - ``` - installed size is 7.6Mb - sub-directories of 1Mb or more: - data 7.1Mb - ``` - -* checking DESCRIPTION meta-information ... NOTE - ``` - License components with restrictions not permitted: - Artistic-2.0 + file LICENSE - ``` - -* checking R code for possible problems ... NOTE - ``` - .grasp2ToAnnotationHub: no visible global function definition for - ‘outputFile’ - checkAnti: no visible binding for global variable ‘chr_hg19’ - getJoinCompatible: no visible binding for global variable ‘gwrngs19’ - Undefined global functions or variables: - chr_hg19 gwrngs19 outputFile - ``` - -# heatwaveR - -
- -* Version: 0.4.2 -* Source code: https://github.com/cran/heatwaveR -* URL: https://robwschlegel.github.io/heatwaveR/index.html, https://github.com/robwschlegel/heatwaveR -* BugReports: https://github.com/robwschlegel/heatwaveR/issues -* Date/Publication: 2019-12-01 21:30:06 UTC -* Number of recursive dependencies: 135 - -Run `revdep_details(,"heatwaveR")` for more info - -
- -## In both - -* checking whether package ‘heatwaveR’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/heatwaveR/new/heatwaveR.Rcheck/00install.out’ for details. - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘ggpubr’ - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘heatwaveR’ ... -** package ‘heatwaveR’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/heatwaveR/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/heatwaveR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/heatwaveR/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/heatwaveR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c clim_calc.cpp -o clim_calc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o heatwaveR.so RcppExports.o clim_calc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [heatwaveR.so] Error 1 -ERROR: compilation failed for package ‘heatwaveR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/heatwaveR/new/heatwaveR.Rcheck/heatwaveR’ - -``` -### CRAN - -``` -* installing *source* package ‘heatwaveR’ ... -** package ‘heatwaveR’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/heatwaveR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/heatwaveR/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c clim_calc.cpp -o clim_calc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o heatwaveR.so RcppExports.o clim_calc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [heatwaveR.so] Error 1 -ERROR: compilation failed for package ‘heatwaveR’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/heatwaveR/old/heatwaveR.Rcheck/heatwaveR’ - -``` -# ideal - -
- -* Version: 1.12.0 -* Source code: https://github.com/cran/ideal -* URL: https://github.com/federicomarini/ideal, https://federicomarini.github.io/ideal/ -* BugReports: https://github.com/federicomarini/ideal/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 197 - -Run `revdep_details(,"ideal")` for more info - -
- -## In both - -* checking whether package ‘ideal’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ideal/new/ideal.Rcheck/00install.out’ for details. - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘TxDb.Hsapiens.UCSC.hg38.knownGene’ - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘ideal’ ... -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading - -groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘geneLenDataBase’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘ideal’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ideal/new/ideal.Rcheck/ideal’ - -``` -### CRAN - -``` -* installing *source* package ‘ideal’ ... -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading - -groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘geneLenDataBase’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘ideal’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ideal/old/ideal.Rcheck/ideal’ - -``` -# idefix - -
- -* Version: 0.4.3 -* Source code: https://github.com/cran/idefix -* URL: https://github.com/traets/idefix -* Date/Publication: 2020-04-07 14:40:05 UTC -* Number of recursive dependencies: 72 - -Run `revdep_details(,"idefix")` for more info - -
- -## In both - -* checking whether package ‘idefix’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/idefix/new/idefix.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘idefix’ ... -** package ‘idefix’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c InfoDes_cpp.cpp -o InfoDes_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c det_cpp.cpp -o det_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o idefix.so InfoDes_cpp.o RcppExports.o det_cpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [idefix.so] Error 1 -ERROR: compilation failed for package ‘idefix’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/idefix/new/idefix.Rcheck/idefix’ - -``` -### CRAN - -``` -* installing *source* package ‘idefix’ ... -** package ‘idefix’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c InfoDes_cpp.cpp -o InfoDes_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/idefix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c det_cpp.cpp -o det_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o idefix.so InfoDes_cpp.o RcppExports.o det_cpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [idefix.so] Error 1 -ERROR: compilation failed for package ‘idefix’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/idefix/old/idefix.Rcheck/idefix’ - -``` -# infercnv - -
- -* Version: 1.4.0 -* Source code: https://github.com/cran/infercnv -* URL: https://github.com/broadinstitute/inferCNV/wiki -* BugReports: https://github.com/broadinstitute/inferCNV/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 122 - -Run `revdep_details(,"infercnv")` for more info - -
- -## In both - -* checking whether package ‘infercnv’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/infercnv/new/infercnv.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘infercnv’ ... -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/infercnv/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/infercnv/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/infercnv/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘infercnv’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/infercnv/new/infercnv.Rcheck/infercnv’ - -``` -### CRAN - -``` -* installing *source* package ‘infercnv’ ... -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/infercnv/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/infercnv/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/infercnv/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘infercnv’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/infercnv/old/infercnv.Rcheck/infercnv’ - -``` -# iRF - -
- -* Version: 2.0.0 -* Source code: https://github.com/cran/iRF -* URL: https://arxiv.org/abs/1706.08457 -* Date/Publication: 2017-07-26 04:57:45 UTC -* Number of recursive dependencies: 61 - -Run `revdep_details(,"iRF")` for more info - -
- -## In both - -* checking whether package ‘iRF’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/iRF/new/iRF.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘iRF’ ... -** package ‘iRF’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c ExportedFunctionsRIT.cpp -o ExportedFunctionsRIT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -O3 -c classTree.c -o classTree.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c processNodes.cpp -o processNodes.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -O3 -c regTree.c -o regTree.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -O3 -c regrf.c -o regrf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -O3 -c rf.c -o rf.o -rf.c:492:17: warning: expression result unused [-Wunused-value] - + nrightimp[cl[n] - 1]++; - ^ ~~~~~~~~~~~~~~~~~~~~~~ -1 warning generated. -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rfsub.f -o rfsub.o -f951: Warning: Nonconforming tab character in column 1 of line 234 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 238 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 242 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 245 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 246 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 556 [-Wtabs] -rfsub.f:203:22: - - 203 | end if - | 1 -Warning: Nonconforming tab character at (1) [-Wtabs] -rfsub.f:283:35: - - 283 | totprob = totprob - mprob - | 1 -Warning: Nonconforming tab character at (1) [-Wtabs] -rfsub.f:122:35: - - 122 | bestsplit(kbuild) = dble(a(msplit,int(best))) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rfsub.f:123:39: - - 123 | bestsplitnext(kbuild) = dble(a(msplit,int(best)+1)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rfsub.f:125:35: - - 125 | bestsplit(kbuild) = best - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rfsub.f:237:16: - - 237 | integer jj, subsetvar(mcard) - | 1 -Warning: Unused variable 'jj' declared at (1) [-Wunused-variable] -rfsub.f:535:33: - - 535 | integer ii, tmp, j, nn, dum - | 1 -Warning: Unused variable 'dum' declared at (1) [-Wunused-variable] -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/iRF/Rcpp/include' -I/usr/local/include -fPIC -O3 -c rfutils.c -o rfutils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o iRF.so ExportedFunctionsRIT.o RcppExports.o classTree.o init.o processNodes.o regTree.o regrf.o rf.o rfsub.o rfutils.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [iRF.so] Error 1 -ERROR: compilation failed for package ‘iRF’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/iRF/new/iRF.Rcheck/iRF’ - -``` -### CRAN - -``` -* installing *source* package ‘iRF’ ... -** package ‘iRF’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c ExportedFunctionsRIT.cpp -o ExportedFunctionsRIT.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c classTree.c -o classTree.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c processNodes.cpp -o processNodes.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c regTree.c -o regTree.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c regrf.c -o regrf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c rf.c -o rf.o -rf.c:492:17: warning: expression result unused [-Wunused-value] - + nrightimp[cl[n] - 1]++; - ^ ~~~~~~~~~~~~~~~~~~~~~~ -1 warning generated. -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rfsub.f -o rfsub.o -f951: Warning: Nonconforming tab character in column 1 of line 234 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 238 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 242 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 245 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 246 [-Wtabs] -f951: Warning: Nonconforming tab character in column 1 of line 556 [-Wtabs] -rfsub.f:203:22: - - 203 | end if - | 1 -Warning: Nonconforming tab character at (1) [-Wtabs] -rfsub.f:283:35: - - 283 | totprob = totprob - mprob - | 1 -Warning: Nonconforming tab character at (1) [-Wtabs] -rfsub.f:122:35: - - 122 | bestsplit(kbuild) = dble(a(msplit,int(best))) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rfsub.f:123:39: - - 123 | bestsplitnext(kbuild) = dble(a(msplit,int(best)+1)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rfsub.f:125:35: - - 125 | bestsplit(kbuild) = best - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rfsub.f:237:16: - - 237 | integer jj, subsetvar(mcard) - | 1 -Warning: Unused variable 'jj' declared at (1) [-Wunused-variable] -rfsub.f:535:33: - - 535 | integer ii, tmp, j, nn, dum - | 1 -Warning: Unused variable 'dum' declared at (1) [-Wunused-variable] -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c rfutils.c -o rfutils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o iRF.so ExportedFunctionsRIT.o RcppExports.o classTree.o init.o processNodes.o regTree.o regrf.o rf.o rfsub.o rfutils.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [iRF.so] Error 1 -ERROR: compilation failed for package ‘iRF’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/iRF/old/iRF.Rcheck/iRF’ - -``` -# joineRML - -
- -* Version: 0.4.4 -* Source code: https://github.com/cran/joineRML -* URL: https://github.com/petephilipson/joineRML -* BugReports: https://github.com/graemeleehickey/joineRML/issues -* Date/Publication: 2020-04-09 09:30:02 UTC -* Number of recursive dependencies: 88 - -Run `revdep_details(,"joineRML")` for more info - -
- -## In both - -* checking whether package ‘joineRML’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/joineRML/new/joineRML.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘joineRML’ ... -** package ‘joineRML’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c expW.cpp -o expW.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gammaUpdate.cpp -o gammaUpdate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gammaUpdate_approx.cpp -o gammaUpdate_approx.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c lambdaUpdate.cpp -o lambdaUpdate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c mvnorm.cpp -o mvnorm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o joineRML.so RcppExports.o expW.o gammaUpdate.o gammaUpdate_approx.o init.o lambdaUpdate.o mvnorm.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [joineRML.so] Error 1 -ERROR: compilation failed for package ‘joineRML’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/joineRML/new/joineRML.Rcheck/joineRML’ - -``` -### CRAN - -``` -* installing *source* package ‘joineRML’ ... -** package ‘joineRML’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c expW.cpp -o expW.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gammaUpdate.cpp -o gammaUpdate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gammaUpdate_approx.cpp -o gammaUpdate_approx.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c lambdaUpdate.cpp -o lambdaUpdate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/joineRML/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c mvnorm.cpp -o mvnorm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o joineRML.so RcppExports.o expW.o gammaUpdate.o gammaUpdate_approx.o init.o lambdaUpdate.o mvnorm.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [joineRML.so] Error 1 -ERROR: compilation failed for package ‘joineRML’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/joineRML/old/joineRML.Rcheck/joineRML’ - -``` -# lpirfs - -
- -* Version: 0.1.7 -* Source code: https://github.com/cran/lpirfs -* BugReports: https://github.com/adaemmerp/lpirfs/issues -* Date/Publication: 2019-11-25 09:20:06 UTC -* Number of recursive dependencies: 135 - -Run `revdep_details(,"lpirfs")` for more info - -
- -## In both - -* checking whether package ‘lpirfs’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/lpirfs/new/lpirfs.Rcheck/00install.out’ for details. - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘ggpubr’ - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘lpirfs’ ... -** package ‘lpirfs’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c get_vals_lagcrit.cpp -o get_vals_lagcrit.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c hp_filter.cpp -o hp_filter.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c newey_west.cpp -o newey_west.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c newey_west_pw.cpp -o newey_west_pw.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c newey_west_tsls.cpp -o newey_west_tsls.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ols_diagnost.cpp -o ols_diagnost.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c var_one.cpp -o var_one.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o lpirfs.so RcppExports.o get_vals_lagcrit.o hp_filter.o newey_west.o newey_west_pw.o newey_west_tsls.o ols_diagnost.o var_one.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [lpirfs.so] Error 1 -ERROR: compilation failed for package ‘lpirfs’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/lpirfs/new/lpirfs.Rcheck/lpirfs’ - -``` -### CRAN - -``` -* installing *source* package ‘lpirfs’ ... -** package ‘lpirfs’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c get_vals_lagcrit.cpp -o get_vals_lagcrit.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c hp_filter.cpp -o hp_filter.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c newey_west.cpp -o newey_west.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c newey_west_pw.cpp -o newey_west_pw.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c newey_west_tsls.cpp -o newey_west_tsls.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ols_diagnost.cpp -o ols_diagnost.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/lpirfs/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c var_one.cpp -o var_one.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o lpirfs.so RcppExports.o get_vals_lagcrit.o hp_filter.o newey_west.o newey_west_pw.o newey_west_tsls.o ols_diagnost.o var_one.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [lpirfs.so] Error 1 -ERROR: compilation failed for package ‘lpirfs’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/lpirfs/old/lpirfs.Rcheck/lpirfs’ - -``` -# maEndToEnd - -
- -* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 - -Run `revdep_details(,"")` for more info - -
- -## Error before installation - -### Devel - -``` - - There are binary versions available but the source versions are later: - binary source needs_compilation -openxlsx 4.1.4 4.1.5 TRUE -tidyr 1.0.2 1.0.3 TRUE - - Binaries will be installed - - -installing the source packages ‘hugene10sttranscriptcluster.db’, ‘pd.hugene.1.0.st.v1’, ‘reactome.db’ - - - -``` -### CRAN - -``` - - There are binary versions available but the source versions are later: - binary source needs_compilation -openxlsx 4.1.4 4.1.5 TRUE -tidyr 1.0.2 1.0.3 TRUE - - Binaries will be installed - - -installing the source packages ‘hugene10sttranscriptcluster.db’, ‘pd.hugene.1.0.st.v1’, ‘reactome.db’ - - - -``` -# metagene2 - -
- -* Version: 1.4.0 -* Source code: https://github.com/cran/metagene2 -* URL: https://github.com/ArnaudDroitLab/metagene2 -* BugReports: https://github.com/ArnaudDroitLab/metagene2/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 114 - -Run `revdep_details(,"metagene2")` for more info - -
- -## In both - -* checking whether package ‘metagene2’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/metagene2/new/metagene2.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘metagene2’ ... -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘DESeq’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘metagene2’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/metagene2/new/metagene2.Rcheck/metagene2’ - -``` -### CRAN - -``` -* installing *source* package ‘metagene2’ ... -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘DESeq’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘metagene2’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/metagene2/old/metagene2.Rcheck/metagene2’ - -``` -# mfbvar - -
- -* Version: 0.5.3 -* Source code: https://github.com/cran/mfbvar -* URL: https://github.com/ankargren/mfbvar -* BugReports: https://github.com/ankargren/mfbvar/issues -* Date/Publication: 2020-03-19 22:30:06 UTC -* Number of recursive dependencies: 82 - -Run `revdep_details(,"mfbvar")` for more info - -
- -## In both - -* checking whether package ‘mfbvar’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/mfbvar/new/mfbvar.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘mfbvar’ ... -** package ‘mfbvar’ successfully unpacked and MD5 sums checked -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C++ compiler... yes -checking whether clang++ -mmacosx-version-min=10.13 -std=gnu++11 accepts -g... yes -checking how to run the C++ preprocessor... clang++ -mmacosx-version-min=10.13 -std=gnu++11 -E -checking for macOS... found -configure: WARNING: OpenMP unavailable and turned off. -configure: creating ./config.status -config.status: creating src/Makevars -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c auxmix.cpp -o auxmix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c builders.cpp -o builders.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c dl_reg.cpp -o dl_reg.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c kf_cpp.cpp -o kf_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c max_eig_cpp.cpp -o max_eig_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_csv.cpp -o mcmc_csv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_diffuse.cpp -o mcmc_diffuse.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_fsv.cpp -o mcmc_fsv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_iw.cpp -o mcmc_iw.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mvn_par.cpp -o mvn_par.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c plot_funs.cpp -o plot_funs.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c posteriors.cpp -o posteriors.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c progutils.cpp -o progutils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c progutils_fsv.cpp -o progutils_fsv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rgig.cpp -o rgig.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rmvn.cpp -o rmvn.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rnd_numbers.cpp -o rnd_numbers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rsimsm_adaptive_cv.cpp -o rsimsm_adaptive_cv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rsimsm_adaptive_univariate.cpp -o rsimsm_adaptive_univariate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c smoothing.cpp -o smoothing.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_csv.cpp -o update_csv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_demean.cpp -o update_demean.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_dl.cpp -o update_dl.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_fsv.cpp -o update_fsv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_ng.cpp -o update_ng.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mfbvar.so RcppExports.o auxmix.o builders.o dl_reg.o kf_cpp.o max_eig_cpp.o mcmc_csv.o mcmc_diffuse.o mcmc_fsv.o mcmc_iw.o mvn_par.o plot_funs.o posteriors.o progutils.o progutils_fsv.o rgig.o rmvn.o rnd_numbers.o rsimsm_adaptive_cv.o rsimsm_adaptive_univariate.o smoothing.o update_csv.o update_demean.o update_dl.o update_fsv.o update_ng.o utils.o -DARMA_DONT_USE_OPENMP -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [mfbvar.so] Error 1 -ERROR: compilation failed for package ‘mfbvar’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/mfbvar/new/mfbvar.Rcheck/mfbvar’ - -``` -### CRAN - -``` -* installing *source* package ‘mfbvar’ ... -** package ‘mfbvar’ successfully unpacked and MD5 sums checked -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C++ compiler... yes -checking whether clang++ -mmacosx-version-min=10.13 -std=gnu++11 accepts -g... yes -checking how to run the C++ preprocessor... clang++ -mmacosx-version-min=10.13 -std=gnu++11 -E -checking for macOS... found -configure: WARNING: OpenMP unavailable and turned off. -configure: creating ./config.status -config.status: creating src/Makevars -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c auxmix.cpp -o auxmix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c builders.cpp -o builders.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c dl_reg.cpp -o dl_reg.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c kf_cpp.cpp -o kf_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c max_eig_cpp.cpp -o max_eig_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_csv.cpp -o mcmc_csv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_diffuse.cpp -o mcmc_diffuse.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_fsv.cpp -o mcmc_fsv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mcmc_iw.cpp -o mcmc_iw.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c mvn_par.cpp -o mvn_par.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c plot_funs.cpp -o plot_funs.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c posteriors.cpp -o posteriors.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c progutils.cpp -o progutils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c progutils_fsv.cpp -o progutils_fsv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rgig.cpp -o rgig.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rmvn.cpp -o rmvn.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rnd_numbers.cpp -o rnd_numbers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rsimsm_adaptive_cv.cpp -o rsimsm_adaptive_cv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c rsimsm_adaptive_univariate.cpp -o rsimsm_adaptive_univariate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c smoothing.cpp -o smoothing.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_csv.cpp -o update_csv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_demean.cpp -o update_demean.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_dl.cpp -o update_dl.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_fsv.cpp -o update_fsv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c update_ng.cpp -o update_ng.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppProgress/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/stochvol/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mfbvar/RcppParallel/include' -I/usr/local/include -DARMA_DONT_USE_OPENMP -I../inst/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mfbvar.so RcppExports.o auxmix.o builders.o dl_reg.o kf_cpp.o max_eig_cpp.o mcmc_csv.o mcmc_diffuse.o mcmc_fsv.o mcmc_iw.o mvn_par.o plot_funs.o posteriors.o progutils.o progutils_fsv.o rgig.o rmvn.o rnd_numbers.o rsimsm_adaptive_cv.o rsimsm_adaptive_univariate.o smoothing.o update_csv.o update_demean.o update_dl.o update_fsv.o update_ng.o utils.o -DARMA_DONT_USE_OPENMP -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [mfbvar.so] Error 1 -ERROR: compilation failed for package ‘mfbvar’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/mfbvar/old/mfbvar.Rcheck/mfbvar’ - -``` -# miceFast - -
- -* Version: 0.5.1 -* Source code: https://github.com/cran/miceFast -* URL: https://github.com/Polkas/miceFast -* BugReports: https://github.com/Polkas/miceFast/issues -* Date/Publication: 2019-08-19 22:50:02 UTC -* Number of recursive dependencies: 104 - -Run `revdep_details(,"miceFast")` for more info - -
- -## In both - -* checking whether package ‘miceFast’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/miceFast/new/miceFast.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘miceFast’ ... -** package ‘miceFast’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c R_funs.cpp -o R_funs.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c corrData.cpp -o corrData.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c miceFast_additfunc.cpp -o miceFast_additfunc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c miceFast_class.cpp -o miceFast_class.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c miceFast_quantmodels.cpp -o miceFast_quantmodels.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o miceFast.so R_funs.o RcppExports.o corrData.o miceFast_additfunc.o miceFast_class.o miceFast_quantmodels.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [miceFast.so] Error 1 -ERROR: compilation failed for package ‘miceFast’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/miceFast/new/miceFast.Rcheck/miceFast’ - -``` -### CRAN - -``` -* installing *source* package ‘miceFast’ ... -** package ‘miceFast’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c R_funs.cpp -o R_funs.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c corrData.cpp -o corrData.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c miceFast_additfunc.cpp -o miceFast_additfunc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c miceFast_class.cpp -o miceFast_class.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/miceFast/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c miceFast_quantmodels.cpp -o miceFast_quantmodels.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o miceFast.so R_funs.o RcppExports.o corrData.o miceFast_additfunc.o miceFast_class.o miceFast_quantmodels.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [miceFast.so] Error 1 -ERROR: compilation failed for package ‘miceFast’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/miceFast/old/miceFast.Rcheck/miceFast’ - -``` -# MixMatrix - -
- -* Version: 0.2.4 -* Source code: https://github.com/cran/MixMatrix -* URL: http://github.com/gzt/MixMatrix/, https://gzt.github.io/MixMatrix/ -* BugReports: http://github.com/gzt/MixMatrix/issues -* Date/Publication: 2019-11-14 22:30:03 UTC -* Number of recursive dependencies: 78 - -Run `revdep_details(,"MixMatrix")` for more info - -
- -## In both - -* checking whether package ‘MixMatrix’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/MixMatrix/new/MixMatrix.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘MixMatrix’ ... -** package ‘MixMatrix’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c posdefsqrt.cpp -o posdefsqrt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c stats.cpp -o stats.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o MixMatrix.so RcppExports.o posdefsqrt.o stats.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [MixMatrix.so] Error 1 -ERROR: compilation failed for package ‘MixMatrix’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/MixMatrix/new/MixMatrix.Rcheck/MixMatrix’ - -``` -### CRAN - -``` -* installing *source* package ‘MixMatrix’ ... -** package ‘MixMatrix’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c posdefsqrt.cpp -o posdefsqrt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c stats.cpp -o stats.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/MixMatrix/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o MixMatrix.so RcppExports.o posdefsqrt.o stats.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [MixMatrix.so] Error 1 -ERROR: compilation failed for package ‘MixMatrix’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/MixMatrix/old/MixMatrix.Rcheck/MixMatrix’ - -``` -# momentuHMM - -
- -* Version: 1.5.1 -* Source code: https://github.com/cran/momentuHMM -* URL: https://github.com/bmcclintock/momentuHMM -* BugReports: https://github.com/bmcclintock/momentuHMM/issues -* Date/Publication: 2020-03-06 06:00:02 UTC -* Number of recursive dependencies: 167 - -Run `revdep_details(,"momentuHMM")` for more info - -
- -## In both - -* checking whether package ‘momentuHMM’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/momentuHMM/new/momentuHMM.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘momentuHMM’ ... -** package ‘momentuHMM’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XBloop.cpp -o XBloop.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c getDM.cpp -o getDM.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c momentuHMM_init.c -o momentuHMM_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c nLogLike.cpp -o nLogLike.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c trMatrix.cpp -o trMatrix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o momentuHMM.so RcppExports.o XBloop.o getDM.o momentuHMM_init.o nLogLike.o trMatrix.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [momentuHMM.so] Error 1 -ERROR: compilation failed for package ‘momentuHMM’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/momentuHMM/new/momentuHMM.Rcheck/momentuHMM’ - -``` -### CRAN - -``` -* installing *source* package ‘momentuHMM’ ... -** package ‘momentuHMM’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XBloop.cpp -o XBloop.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c getDM.cpp -o getDM.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c momentuHMM_init.c -o momentuHMM_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c nLogLike.cpp -o nLogLike.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/momentuHMM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c trMatrix.cpp -o trMatrix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o momentuHMM.so RcppExports.o XBloop.o getDM.o momentuHMM_init.o nLogLike.o trMatrix.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [momentuHMM.so] Error 1 -ERROR: compilation failed for package ‘momentuHMM’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/momentuHMM/old/momentuHMM.Rcheck/momentuHMM’ - -``` -# MonetDBLite - -
- -* Version: 0.6.0 -* Source code: https://github.com/cran/MonetDBLite -* URL: https://github.com/hannesmuehleisen/MonetDBLite-R -* BugReports: https://github.com/hannesmuehleisen/MonetDBLite-R/issues -* Date/Publication: 2018-07-27 09:40:03 UTC -* Number of recursive dependencies: 99 - -Run `revdep_details(,"MonetDBLite")` for more info - -
- -## In both - -* R CMD check timed out - - -* checking installed package size ... NOTE - ``` - installed size is 5.8Mb - sub-directories of 1Mb or more: - libs 5.3Mb - ``` - -# morse - -
- -* Version: 3.2.5 -* Source code: https://github.com/cran/morse -* URL: https://cran.r-project.org/package=morse -* BugReports: https://github.com/pveber/morse -* Date/Publication: 2019-09-27 08:50:02 UTC -* Number of recursive dependencies: 73 - -Run `revdep_details(,"morse")` for more info - -
- -## In both - -* checking whether package ‘morse’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/morse/new/morse.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘morse’ ... -** package ‘morse’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/morse/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/morse/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/morse/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘morse’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/morse/new/morse.Rcheck/morse’ - -``` -### CRAN - -``` -* installing *source* package ‘morse’ ... -** package ‘morse’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/morse/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/morse/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/morse/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘morse’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/morse/old/morse.Rcheck/morse’ - -``` -# mrgsolve - -
- -* Version: 0.10.1 -* Source code: https://github.com/cran/mrgsolve -* URL: https://github.com/metrumresearchgroup/mrgsolve -* BugReports: https://github.com/metrumresearchgroup/mrgsolve/issues -* Date/Publication: 2020-02-21 06:00:02 UTC -* Number of recursive dependencies: 52 - -Run `revdep_details(,"mrgsolve")` for more info - -
- -## In both - -* checking whether package ‘mrgsolve’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/mrgsolve/new/mrgsolve.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘mrgsolve’ ... -** package ‘mrgsolve’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c LSODA.cpp -o LSODA.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c dataobject.cpp -o dataobject.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c datarecord.cpp -o datarecord.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c devtran.cpp -o devtran.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c housemodel-mread-source.cpp -o housemodel-mread-source.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c mrgsolve.cpp -o mrgsolve.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c mrgsolve_init.cpp -o mrgsolve_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c odeproblem.cpp -o odeproblem.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mrgsolve.so LSODA.o RcppExports.o dataobject.o datarecord.o devtran.o housemodel-mread-source.o mrgsolve.o mrgsolve_init.o odeproblem.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [mrgsolve.so] Error 1 -ERROR: compilation failed for package ‘mrgsolve’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/mrgsolve/new/mrgsolve.Rcheck/mrgsolve’ - -``` -### CRAN - -``` -* installing *source* package ‘mrgsolve’ ... -** package ‘mrgsolve’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c LSODA.cpp -o LSODA.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c dataobject.cpp -o dataobject.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c datarecord.cpp -o datarecord.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c devtran.cpp -o devtran.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c housemodel-mread-source.cpp -o housemodel-mread-source.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c mrgsolve.cpp -o mrgsolve.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c mrgsolve_init.cpp -o mrgsolve_init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I../inst/base -I. -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/mrgsolve/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I/usr/local/include -fPIC -Wall -O3 -c odeproblem.cpp -o odeproblem.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mrgsolve.so LSODA.o RcppExports.o dataobject.o datarecord.o devtran.o housemodel-mread-source.o mrgsolve.o mrgsolve_init.o odeproblem.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [mrgsolve.so] Error 1 -ERROR: compilation failed for package ‘mrgsolve’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/mrgsolve/old/mrgsolve.Rcheck/mrgsolve’ - -``` -# NobBS - -
- -* Version: 0.1.0 -* Source code: https://github.com/cran/NobBS -* Date/Publication: 2020-03-03 10:40:02 UTC -* Number of recursive dependencies: 25 - -Run `revdep_details(,"NobBS")` for more info - -
- -## In both - -* checking whether package ‘NobBS’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/NobBS/new/NobBS.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘NobBS’ ... -** package ‘NobBS’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/NobBS/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/NobBS/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/NobBS/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘NobBS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/NobBS/new/NobBS.Rcheck/NobBS’ - -``` -### CRAN - -``` -* installing *source* package ‘NobBS’ ... -** package ‘NobBS’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/NobBS/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/NobBS/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/NobBS/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘NobBS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/NobBS/old/NobBS.Rcheck/NobBS’ - -``` -# NoRCE - -
- -* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 0.5.4 +* Source code: https://github.com/cran/IncucyteDRC +* URL: https://github.com/chapmandu2/IncucyteDRC +* BugReports: https://github.com/chapmandu2/IncucyteDRC/issues +* Date/Publication: 2016-04-23 14:21:03 +* Number of recursive dependencies: 119 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "IncucyteDRC")` for more info
@@ -6791,2074 +3659,816 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/IncucyteDRC/new/IncucyteDRC.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘IncucyteDRC/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘IncucyteDRC’ version ‘0.5.4’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ - There are binary versions available but the source versions are later: - binary source needs_compilation -rtracklayer 1.47.0 1.48.0 TRUE -tidyr 1.0.2 1.0.3 TRUE - - Binaries will be installed - - -installing the source packages ‘reactome.db’, ‘TxDb.Celegans.UCSC.ce11.refGene’, ‘TxDb.Dmelanogaster.UCSC.dm6.ensGene’, ‘TxDb.Drerio.UCSC.danRer10.refGene’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’, ‘TxDb.Hsapiens.UCSC.hg38.knownGene’, ‘TxDb.Mmusculus.UCSC.mm10.knownGene’, ‘TxDb.Rnorvegicus.UCSC.rn6.refGene’ - - - -``` -### CRAN - -``` - - There are binary versions available but the source versions are later: - binary source needs_compilation -rtracklayer 1.47.0 1.48.0 TRUE -tidyr 1.0.2 1.0.3 TRUE - - Binaries will be installed - - -installing the source packages ‘reactome.db’, ‘TxDb.Celegans.UCSC.ce11.refGene’, ‘TxDb.Dmelanogaster.UCSC.dm6.ensGene’, ‘TxDb.Drerio.UCSC.danRer10.refGene’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’, ‘TxDb.Hsapiens.UCSC.hg38.knownGene’, ‘TxDb.Mmusculus.UCSC.mm10.knownGene’, ‘TxDb.Rnorvegicus.UCSC.rn6.refGene’ - - - -``` -# openair - -
- -* Version: 2.7-2 -* Source code: https://github.com/cran/openair -* URL: http://davidcarslaw.github.io/openair/ -* BugReports: https://github.com/davidcarslaw/openair/issues -* Date/Publication: 2020-04-02 07:40:02 UTC -* Number of recursive dependencies: 47 - -Run `revdep_details(,"openair")` for more info - -
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -## In both -* checking whether package ‘openair’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/openair/new/openair.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘openair’ ... -** package ‘openair’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/openair/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c cluster.cpp -o cluster.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/openair/Rcpp/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/openair/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c rolling.cpp -o rolling.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o openair.so cluster.o init.o rolling.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [openair.so] Error 1 -ERROR: compilation failed for package ‘openair’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/openair/new/openair.Rcheck/openair’ ``` ### CRAN ``` -* installing *source* package ‘openair’ ... -** package ‘openair’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c cluster.cpp -o cluster.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c rolling.cpp -o rolling.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o openair.so cluster.o init.o rolling.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [openair.so] Error 1 -ERROR: compilation failed for package ‘openair’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/openair/old/openair.Rcheck/openair’ - -``` -# partition - -
- -* Version: 0.1.1 -* Source code: https://github.com/cran/partition -* URL: https://uscbiostats.github.io/partition/, https://github.com/USCbiostats/partition -* BugReports: https://github.com/USCbiostats/partition/issues -* Date/Publication: 2019-12-12 06:30:03 UTC -* Number of recursive dependencies: 83 - -Run `revdep_details(,"partition")` for more info - -
+* using log directory ‘/tmp/workdir/IncucyteDRC/old/IncucyteDRC.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘IncucyteDRC/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘IncucyteDRC’ version ‘0.5.4’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -## In both +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘partition’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/partition/new/partition.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘partition’ ... -** package ‘partition’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c corr.cpp -o corr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c icc.cpp -o icc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c kmeans.cpp -o kmeans.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c minr2.cpp -o minr2.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pca.cpp -o pca.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c reduce_partition.cpp -o reduce_partition.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o partition.so RcppExports.o corr.o icc.o kmeans.o minr2.o pca.o reduce_partition.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [partition.so] Error 1 -ERROR: compilation failed for package ‘partition’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/partition/new/partition.Rcheck/partition’ -``` -### CRAN ``` -* installing *source* package ‘partition’ ... -** package ‘partition’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c corr.cpp -o corr.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c icc.cpp -o icc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c kmeans.cpp -o kmeans.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c minr2.cpp -o minr2.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pca.cpp -o pca.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/partition/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c reduce_partition.cpp -o reduce_partition.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o partition.so RcppExports.o corr.o icc.o kmeans.o minr2.o pca.o reduce_partition.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [partition.so] Error 1 -ERROR: compilation failed for package ‘partition’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/partition/old/partition.Rcheck/partition’ - -``` -# pccc +# JacobiEigen
-* Version: 1.0.3 -* Source code: https://github.com/cran/pccc -* URL: https://github.com/CUD2V/pccc -* BugReports: https://github.com/CUD2V/pccc/issues -* Date/Publication: 2019-08-21 21:50:06 UTC -* Number of recursive dependencies: 60 +* Version: 0.3-3 +* Source code: https://github.com/cran/JacobiEigen +* Date/Publication: 2019-03-10 07:12:44 UTC +* Number of recursive dependencies: 61 -Run `revdep_details(,"pccc")` for more info +Run `cloud_details(, "JacobiEigen")` for more info
-## In both - -* checking whether package ‘pccc’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pccc/new/pccc.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘pccc’ ... -** package ‘pccc’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pccc/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pccc/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c ccc.cpp -o ccc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pccc/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c get_codes.cpp -o get_codes.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pccc/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c pccc.cpp -o pccc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pccc.so RcppExports.o ccc.o get_codes.o pccc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [pccc.so] Error 1 -ERROR: compilation failed for package ‘pccc’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pccc/new/pccc.Rcheck/pccc’ - -``` -### CRAN - -``` -* installing *source* package ‘pccc’ ... -** package ‘pccc’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c ccc.cpp -o ccc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c get_codes.cpp -o get_codes.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -O3 -c pccc.cpp -o pccc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pccc.so RcppExports.o ccc.o get_codes.o pccc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [pccc.so] Error 1 -ERROR: compilation failed for package ‘pccc’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pccc/old/pccc.Rcheck/pccc’ - -``` -# phase1PRMD +* using log directory ‘/tmp/workdir/JacobiEigen/new/JacobiEigen.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘JacobiEigen/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘JacobiEigen’ version ‘0.3-3’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ -
- -* Version: 1.0.2 -* Source code: https://github.com/cran/phase1PRMD -* Date/Publication: 2020-03-09 06:50:03 UTC -* Number of recursive dependencies: 84 +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -Run `revdep_details(,"phase1PRMD")` for more info +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -
- -## In both -* checking whether package ‘phase1PRMD’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phase1PRMD/new/phase1PRMD.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘phase1PRMD’ ... -** package ‘phase1PRMD’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phase1PRMD/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phase1PRMD/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phase1PRMD/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘phase1PRMD’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phase1PRMD/new/phase1PRMD.Rcheck/phase1PRMD’ ``` ### CRAN ``` -* installing *source* package ‘phase1PRMD’ ... -** package ‘phase1PRMD’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phase1PRMD/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phase1PRMD/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phase1PRMD/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘phase1PRMD’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phase1PRMD/old/phase1PRMD.Rcheck/phase1PRMD’ - -``` -# phenofit - -
- -* Version: 0.2.7 -* Source code: https://github.com/cran/phenofit -* URL: https://github.com/kongdd/phenofit -* BugReports: https://github.com/kongdd/phenofit/issues -* Date/Publication: 2020-04-02 11:40:03 UTC -* Number of recursive dependencies: 89 +* using log directory ‘/tmp/workdir/JacobiEigen/old/JacobiEigen.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘JacobiEigen/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘JacobiEigen’ version ‘0.3-3’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ -Run `revdep_details(,"phenofit")` for more info - -
+The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -## In both +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘phenofit’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phenofit/new/phenofit.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘phenofit’ ... -** package ‘phenofit’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c doubleLogistics.cpp -o doubleLogistics.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c f_goal.cpp -o f_goal.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c register_routines.c -o register_routines.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c season.cpp -o season.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c smooth_wSG.cpp -o smooth_wSG.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c smooth_whit.c -o smooth_whit.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c wTSM.cpp -o wTSM.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o phenofit.so RcppExports.o doubleLogistics.o f_goal.o register_routines.o season.o smooth_wSG.o smooth_whit.o wTSM.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [phenofit.so] Error 1 -ERROR: compilation failed for package ‘phenofit’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phenofit/new/phenofit.Rcheck/phenofit’ -``` -### CRAN ``` -* installing *source* package ‘phenofit’ ... -** package ‘phenofit’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c doubleLogistics.cpp -o doubleLogistics.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c f_goal.cpp -o f_goal.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c register_routines.c -o register_routines.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c season.cpp -o season.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c smooth_wSG.cpp -o smooth_wSG.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c smooth_whit.c -o smooth_whit.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phenofit/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c wTSM.cpp -o wTSM.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o phenofit.so RcppExports.o doubleLogistics.o f_goal.o register_routines.o season.o smooth_wSG.o smooth_whit.o wTSM.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [phenofit.so] Error 1 -ERROR: compilation failed for package ‘phenofit’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phenofit/old/phenofit.Rcheck/phenofit’ - -``` -# phyr +# jstor
-* Version: 1.0.2 -* Source code: https://github.com/cran/phyr -* URL: https://github.com/daijiang/phyr/ -* BugReports: https://github.com/daijiang/phyr/issues -* Date/Publication: 2019-11-13 22:20:02 UTC -* Number of recursive dependencies: 134 +* Version: 0.3.8 +* Source code: https://github.com/cran/jstor +* URL: https://github.com/ropensci/jstor, https://docs.ropensci.org/jstor +* BugReports: https://github.com/ropensci/jstor/issues +* Date/Publication: 2020-04-03 14:10:23 UTC +* Number of recursive dependencies: 68 -Run `revdep_details(,"phyr")` for more info +Run `cloud_details(, "jstor")` for more info
-## In both - -* checking whether package ‘phyr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phyr/new/phyr.Rcheck/00install.out’ for details. - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘INLA’ - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘phyr’ ... -** package ‘phyr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c binaryPGLMM.cpp -o binaryPGLMM.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c cor_phylo.cpp -o cor_phylo.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pcd.cpp -o pcd.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pglmm_binary.cpp -o pglmm_binary.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pglmm_gaussian.cpp -o pglmm_gaussian.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c psv.cpp -o psv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o phyr.so RcppExports.o binaryPGLMM.o cor_phylo.o pcd.o pglmm_binary.o pglmm_gaussian.o psv.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [phyr.so] Error 1 -ERROR: compilation failed for package ‘phyr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phyr/new/phyr.Rcheck/phyr’ - -``` -### CRAN - -``` -* installing *source* package ‘phyr’ ... -** package ‘phyr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c binaryPGLMM.cpp -o binaryPGLMM.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c cor_phylo.cpp -o cor_phylo.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pcd.cpp -o pcd.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pglmm_binary.cpp -o pglmm_binary.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pglmm_gaussian.cpp -o pglmm_gaussian.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/phyr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c psv.cpp -o psv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o phyr.so RcppExports.o binaryPGLMM.o cor_phylo.o pcd.o pglmm_binary.o pglmm_gaussian.o psv.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [phyr.so] Error 1 -ERROR: compilation failed for package ‘phyr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/phyr/old/phyr.Rcheck/phyr’ - -``` -# PLNmodels - -
- -* Version: 0.9.5 -* Source code: https://github.com/cran/PLNmodels -* URL: https://jchiquet.github.io/PLNmodels/ -* BugReports: https://github.com/jchiquet/PLNmodels/issues -* Date/Publication: 2020-01-27 21:10:02 UTC -* Number of recursive dependencies: 112 - -Run `revdep_details(,"PLNmodels")` for more info - -
-## In both -* checking whether package ‘PLNmodels’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/PLNmodels/new/PLNmodels.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘PLNmodels’ ... -** package ‘PLNmodels’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c call_optimizers.cpp -o call_optimizers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c gradients.cpp -o gradients.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c nlopt_utils.cpp -o nlopt_utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c optimizers.cpp -o optimizers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o PLNmodels.so RcppExports.o call_optimizers.o gradients.o nlopt_utils.o optimizers.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [PLNmodels.so] Error 1 -ERROR: compilation failed for package ‘PLNmodels’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/PLNmodels/new/PLNmodels.Rcheck/PLNmodels’ ``` ### CRAN ``` -* installing *source* package ‘PLNmodels’ ... -** package ‘PLNmodels’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c call_optimizers.cpp -o call_optimizers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c gradients.cpp -o gradients.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c nlopt_utils.cpp -o nlopt_utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PLNmodels/nloptr/include' -I/usr/local/include -fPIC -Wall -O3 -c optimizers.cpp -o optimizers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o PLNmodels.so RcppExports.o call_optimizers.o gradients.o nlopt_utils.o optimizers.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [PLNmodels.so] Error 1 -ERROR: compilation failed for package ‘PLNmodels’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/PLNmodels/old/PLNmodels.Rcheck/PLNmodels’ - -``` -# pomp +* using log directory ‘/tmp/workdir/jstor/old/jstor.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘jstor/DESCRIPTION’ ... OK +* this is package ‘jstor’ version ‘0.3.8’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘jstor’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking R/sysdata.rda ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... + + + + + +``` +# MarketMatching
-* Version: 2.8 -* Source code: https://github.com/cran/pomp -* URL: https://kingaa.github.io/pomp/ -* BugReports: https://github.com/kingaa/pomp/issues/ -* Date/Publication: 2020-04-10 20:10:02 UTC -* Number of recursive dependencies: 66 +* Version: 1.1.2 +* Source code: https://github.com/cran/MarketMatching +* Date/Publication: 2019-07-03 17:10:03 UTC +* Number of recursive dependencies: 79 -Run `revdep_details(,"pomp")` for more info +Run `cloud_details(, "MarketMatching")` for more info
-## In both - -* checking whether package ‘pomp’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pomp/new/pomp.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘pomp’ ... -** package ‘pomp’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c bspline.c -o bspline.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c distributions.c -o distributions.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c dmeasure.c -o dmeasure.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c dprior.c -o dprior.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c dprocess.c -o dprocess.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c euler.c -o euler.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gompertz.c -o gompertz.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lookup_table.c -o lookup_table.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mif2.c -o mif2.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ou2.c -o ou2.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c partrans.c -o partrans.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c pfilter.c -o pfilter.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c pomp_fun.c -o pomp_fun.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe.c -o probe.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe_acf.c -o probe_acf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe_marginal.c -o probe_marginal.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe_nlar.c -o probe_nlar.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c resample.c -o resample.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rinit.c -o rinit.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rmeasure.c -o rmeasure.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rprior.c -o rprior.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rprocess.c -o rprocess.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c simulate.c -o simulate.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c skeleton.c -o skeleton.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sobolseq.c -o sobolseq.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ssa.c -o ssa.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c synth_lik.c -o synth_lik.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c trajectory.c -o trajectory.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c transformations.c -o transformations.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c userdata.c -o userdata.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pomp.so bspline.o distributions.o dmeasure.o dprior.o dprocess.o euler.o gompertz.o init.o lookup_table.o mif2.o ou2.o partrans.o pfilter.o pomp_fun.o probe.o probe_acf.o probe_marginal.o probe_nlar.o resample.o rinit.o rmeasure.o rprior.o rprocess.o simulate.o skeleton.o sobolseq.o ssa.o synth_lik.o trajectory.o transformations.o userdata.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [pomp.so] Error 1 -ERROR: compilation failed for package ‘pomp’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pomp/new/pomp.Rcheck/pomp’ - -``` -### CRAN - -``` -* installing *source* package ‘pomp’ ... -** package ‘pomp’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c bspline.c -o bspline.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c distributions.c -o distributions.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c dmeasure.c -o dmeasure.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c dprior.c -o dprior.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c dprocess.c -o dprocess.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c euler.c -o euler.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c gompertz.c -o gompertz.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c lookup_table.c -o lookup_table.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c mif2.c -o mif2.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ou2.c -o ou2.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c partrans.c -o partrans.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c pfilter.c -o pfilter.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c pomp_fun.c -o pomp_fun.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe.c -o probe.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe_acf.c -o probe_acf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe_marginal.c -o probe_marginal.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c probe_nlar.c -o probe_nlar.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c resample.c -o resample.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rinit.c -o rinit.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rmeasure.c -o rmeasure.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rprior.c -o rprior.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c rprocess.c -o rprocess.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c simulate.c -o simulate.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c skeleton.c -o skeleton.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c sobolseq.c -o sobolseq.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c ssa.c -o ssa.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c synth_lik.c -o synth_lik.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c trajectory.c -o trajectory.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c transformations.c -o transformations.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c userdata.c -o userdata.o -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pomp.so bspline.o distributions.o dmeasure.o dprior.o dprocess.o euler.o gompertz.o init.o lookup_table.o mif2.o ou2.o partrans.o pfilter.o pomp_fun.o probe.o probe_acf.o probe_marginal.o probe_nlar.o resample.o rinit.o rmeasure.o rprior.o rprocess.o simulate.o skeleton.o sobolseq.o ssa.o synth_lik.o trajectory.o transformations.o userdata.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [pomp.so] Error 1 -ERROR: compilation failed for package ‘pomp’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pomp/old/pomp.Rcheck/pomp’ - -``` -# PPforest +* using log directory ‘/tmp/workdir/MarketMatching/new/MarketMatching.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MarketMatching/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MarketMatching’ version ‘1.1.2’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘bsts’ -
- -* Version: 0.1.1 -* Source code: https://github.com/cran/PPforest -* URL: https://github.com/natydasilva/PPforest -* Date/Publication: 2018-06-11 18:46:17 UTC -* Number of recursive dependencies: 88 +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -Run `revdep_details(,"PPforest")` for more info - -
- -## In both -* checking whether package ‘PPforest’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/PPforest/new/PPforest.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘PPforest’ ... -** package ‘PPforest’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PPforest/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PPforest/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PPforest/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PPforest/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c optim_index.cpp -o optim_index.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o PPforest.so RcppExports.o optim_index.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [PPforest.so] Error 1 -ERROR: compilation failed for package ‘PPforest’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/PPforest/new/PPforest.Rcheck/PPforest’ ``` ### CRAN ``` -* installing *source* package ‘PPforest’ ... -** package ‘PPforest’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PPforest/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/PPforest/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c optim_index.cpp -o optim_index.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o PPforest.so RcppExports.o optim_index.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [PPforest.so] Error 1 -ERROR: compilation failed for package ‘PPforest’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/PPforest/old/PPforest.Rcheck/PPforest’ - -``` -# pRoloc - -
- -* Version: 1.28.0 -* Source code: https://github.com/cran/pRoloc -* URL: https://github.com/lgatto/pRoloc -* BugReports: https://github.com/lgatto/pRoloc/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 218 - -Run `revdep_details(,"pRoloc")` for more info - -
+* using log directory ‘/tmp/workdir/MarketMatching/old/MarketMatching.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MarketMatching/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MarketMatching’ version ‘1.1.2’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘bsts’ -## In both +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘pRoloc’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pRoloc/new/pRoloc.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘pRoloc’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c dmvtCpp.cpp -o dmvtCpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pRoloc.cpp -o pRoloc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pRoloc.so RcppExports.o dmvtCpp.o pRoloc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [pRoloc.so] Error 1 -ERROR: compilation failed for package ‘pRoloc’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pRoloc/new/pRoloc.Rcheck/pRoloc’ -``` -### CRAN ``` -* installing *source* package ‘pRoloc’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c dmvtCpp.cpp -o dmvtCpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/pRoloc/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pRoloc.cpp -o pRoloc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pRoloc.so RcppExports.o dmvtCpp.o pRoloc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [pRoloc.so] Error 1 -ERROR: compilation failed for package ‘pRoloc’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/pRoloc/old/pRoloc.Rcheck/pRoloc’ - -``` -# psychmeta +# MazamaSpatialUtils
-* Version: 2.3.8 -* Source code: https://github.com/cran/psychmeta -* BugReports: https://github.com/psychmeta/psychmeta/issues -* Date/Publication: 2020-04-22 05:20:02 UTC -* Number of recursive dependencies: 85 - -Run `revdep_details(,"psychmeta")` for more info - -
- -## In both - -* checking whether package ‘psychmeta’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/psychmeta/new/psychmeta.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘psychmeta’ ... -** package ‘psychmeta’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychmeta/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychmeta/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychmeta/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘psychmeta’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/psychmeta/new/psychmeta.Rcheck/psychmeta’ +* Version: 0.6.4 +* Source code: https://github.com/cran/MazamaSpatialUtils +* URL: https://github.com/MazamaScience/MazamaSpatialUtils +* BugReports: https://github.com/MazamaScience/MazamaSpatialUtils/issues +* Date/Publication: 2019-09-28 19:40:03 UTC +* Number of recursive dependencies: 98 -``` -### CRAN +Run `cloud_details(, "MazamaSpatialUtils")` for more info -``` -* installing *source* package ‘psychmeta’ ... -** package ‘psychmeta’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychmeta/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychmeta/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychmeta/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘psychmeta’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/psychmeta/old/psychmeta.Rcheck/psychmeta’ + + +## Error before installation + +### Devel ``` -# psychonetrics +* using log directory ‘/tmp/workdir/MazamaSpatialUtils/new/MazamaSpatialUtils.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MazamaSpatialUtils/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MazamaSpatialUtils’ version ‘0.6.4’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘rmapshaper’ -
+Package suggested but not available: ‘readr’ -* Version: 0.7.1 -* Source code: https://github.com/cran/psychonetrics -* URL: http://psychonetrics.org/ -* BugReports: https://github.com/SachaEpskamp/psychonetrics/issues -* Date/Publication: 2020-04-15 09:20:02 UTC -* Number of recursive dependencies: 153 +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -Run `revdep_details(,"psychonetrics")` for more info +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -
-## In both -* checking whether package ‘psychonetrics’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/psychonetrics/new/psychonetrics.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel ``` -* installing *source* package ‘psychonetrics’ ... -** package ‘psychonetrics’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 02_algebrahelpers_RcppHelpers.cpp -o 02_algebrahelpers_RcppHelpers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 02_algebrahelpers_kronecker.cpp -o 02_algebrahelpers_kronecker.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 02_algebrahelpers_modelMatrix_cpp.cpp -o 02_algebrahelpers_modelMatrix_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 03_modelformation_formModelMatrices_cpp.cpp -o 03_modelformation_formModelMatrices_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 03_modelformation_impliedcovstructures.cpp -o 03_modelformation_impliedcovstructures.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalFit_FisherInformation_cpp.cpp -o 04_generalFit_FisherInformation_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalFit_gradient_cpp.cpp -o 04_generalFit_gradient_cpp.o -04_generalFit_gradient_cpp.cpp:39:10: warning: local variable 'grad' will be copied despite being returned by name [-Wreturn-std-move] - return grad; - ^~~~ -04_generalFit_gradient_cpp.cpp:39:10: note: call 'std::move' explicitly to avoid copying - return grad; - ^~~~ - std::move(grad) -04_generalFit_gradient_cpp.cpp:53:10: warning: local variable 'grad' will be copied despite being returned by name [-Wreturn-std-move] - return grad; - ^~~~ -04_generalFit_gradient_cpp.cpp:53:10: note: call 'std::move' explicitly to avoid copying - return grad; - ^~~~ - std::move(grad) -2 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_fitfunction_cpp.cpp -o 04_generalfit_fitfunction_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_implied_and_prepare.cpp -o 04_generalfit_implied_and_prepare.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_loglik_fimlcpp.cpp -o 04_generalfit_loglik_fimlcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_psychonetrics_BFGS.cpp -o 04_generalfit_psychonetrics_BFGS.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_expected_Hessian_Gauss_cpp.cpp -o 05_MLestimator_expected_Hessian_Gauss_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_fit_Gauss_cpp.cpp -o 05_MLestimator_fit_Gauss_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_fit_Ising.cpp -o 05_MLestimator_fit_Ising.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_gradient_Gauss_cpp.cpp -o 05_MLestimator_gradient_Gauss_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_gradient_Ising_cpp.cpp -o 05_MLestimator_gradient_Ising_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_DWLS_Wmat.cpp -o 06_DWLS_Wmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_ULS_expectedHessian_cpp.cpp -o 06_ULS_expectedHessian_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_ULS_fitfunction_cpp.cpp -o 06_ULS_fitfunction_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_ULS_gradient_cpp.cpp -o 06_ULS_gradient_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_WLS_Wmat.cpp -o 06_WLS_Wmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 07_FIMLestimator_expected_hessian_gauss_cppversion.cpp -o 07_FIMLestimator_expected_hessian_gauss_cppversion.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 07_FIMLestimator_fitfunction_cppversion.cpp -o 07_FIMLestimator_fitfunction_cppversion.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 07_FIMLestimator_jacobian_gauss.cpp -o 07_FIMLestimator_jacobian_gauss.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 10_ordinal_covPrepare.cpp -o 10_ordinal_covPrepare.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 10_ordinal_cppFuns.cpp -o 10_ordinal_cppFuns.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 14_varcov_derivatives_cpp.cpp -o 14_varcov_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 14_varcov_implied_cpp.cpp -o 14_varcov_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 14_varcov_prepare_cpp.cpp -o 14_varcov_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 15_lvm_derivatives_cpp.cpp -o 15_lvm_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 15_lvm_implied_cpp.cpp -o 15_lvm_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 15_lvm_prepare_cpp.cpp -o 15_lvm_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 16_var1_derivatives_cpp.cpp -o 16_var1_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 16_var1_implied_cpp.cpp -o 16_var1_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 16_var1_prepare_cpp.cpp -o 16_var1_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 18_dlvm1_derivatives_cpp.cpp -o 18_dlvm1_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 18_dlvm1_implied_cpp.cpp -o 18_dlvm1_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 18_dlvm1_prepare_cpp.cpp -o 18_dlvm1_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 19_tsdlvm1_derivatives.cpp -o 19_tsdlvm1_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 19_tsdlvm1_implied_cpp.cpp -o 19_tsdlvm1_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 19_tsdlvm1_prepare_cpp.cpp -o 19_tsdlvm1_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 20_meta_varcov_derivatives_cpp.cpp -o 20_meta_varcov_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 20_meta_varcov_implied.cpp -o 20_meta_varcov_implied.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 20_meta_varcov_prepare_cpp.cpp -o 20_meta_varcov_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_derivatives.cpp -o 21_Ising_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_expectedHessian.cpp -o 21_Ising_expectedHessian.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_helperfunctions.cpp -o 21_Ising_helperfunctions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_implied_cpp.cpp -o 21_Ising_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_prepare_cpp.cpp -o 21_Ising_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 22_ml_lvm_derivatives.cpp -o 22_ml_lvm_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 22_ml_lvm_implied_cpp.cpp -o 22_ml_lvm_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 22_ml_lvm_prepare_cpp.cpp -o 22_ml_lvm_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c b_modelexpansion_updateModel_cpp.cpp -o b_modelexpansion_updateModel_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c b_modelexpansions_addMIs_cpp.cpp -o b_modelexpansions_addMIs_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c b_modelexpansions_addSEs_cpp.cpp -o b_modelexpansions_addSEs_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o psychonetrics.so 02_algebrahelpers_RcppHelpers.o 02_algebrahelpers_kronecker.o 02_algebrahelpers_modelMatrix_cpp.o 03_modelformation_formModelMatrices_cpp.o 03_modelformation_impliedcovstructures.o 04_generalFit_FisherInformation_cpp.o 04_generalFit_gradient_cpp.o 04_generalfit_fitfunction_cpp.o 04_generalfit_implied_and_prepare.o 04_generalfit_loglik_fimlcpp.o 04_generalfit_psychonetrics_BFGS.o 05_MLestimator_expected_Hessian_Gauss_cpp.o 05_MLestimator_fit_Gauss_cpp.o 05_MLestimator_fit_Ising.o 05_MLestimator_gradient_Gauss_cpp.o 05_MLestimator_gradient_Ising_cpp.o 06_DWLS_Wmat.o 06_ULS_expectedHessian_cpp.o 06_ULS_fitfunction_cpp.o 06_ULS_gradient_cpp.o 06_WLS_Wmat.o 07_FIMLestimator_expected_hessian_gauss_cppversion.o 07_FIMLestimator_fitfunction_cppversion.o 07_FIMLestimator_jacobian_gauss.o 10_ordinal_covPrepare.o 10_ordinal_cppFuns.o 14_varcov_derivatives_cpp.o 14_varcov_implied_cpp.o 14_varcov_prepare_cpp.o 15_lvm_derivatives_cpp.o 15_lvm_implied_cpp.o 15_lvm_prepare_cpp.o 16_var1_derivatives_cpp.o 16_var1_implied_cpp.o 16_var1_prepare_cpp.o 18_dlvm1_derivatives_cpp.o 18_dlvm1_implied_cpp.o 18_dlvm1_prepare_cpp.o 19_tsdlvm1_derivatives.o 19_tsdlvm1_implied_cpp.o 19_tsdlvm1_prepare_cpp.o 20_meta_varcov_derivatives_cpp.o 20_meta_varcov_implied.o 20_meta_varcov_prepare_cpp.o 21_Ising_derivatives.o 21_Ising_expectedHessian.o 21_Ising_helperfunctions.o 21_Ising_implied_cpp.o 21_Ising_prepare_cpp.o 22_ml_lvm_derivatives.o 22_ml_lvm_implied_cpp.o 22_ml_lvm_prepare_cpp.o RcppExports.o b_modelexpansion_updateModel_cpp.o b_modelexpansions_addMIs_cpp.o b_modelexpansions_addSEs_cpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [psychonetrics.so] Error 1 -ERROR: compilation failed for package ‘psychonetrics’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/psychonetrics/new/psychonetrics.Rcheck/psychonetrics’ +### CRAN ``` -### CRAN +* using log directory ‘/tmp/workdir/MazamaSpatialUtils/old/MazamaSpatialUtils.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MazamaSpatialUtils/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MazamaSpatialUtils’ version ‘0.6.4’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘rmapshaper’ + +Package suggested but not available: ‘readr’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` -* installing *source* package ‘psychonetrics’ ... -** package ‘psychonetrics’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 02_algebrahelpers_RcppHelpers.cpp -o 02_algebrahelpers_RcppHelpers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 02_algebrahelpers_kronecker.cpp -o 02_algebrahelpers_kronecker.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 02_algebrahelpers_modelMatrix_cpp.cpp -o 02_algebrahelpers_modelMatrix_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 03_modelformation_formModelMatrices_cpp.cpp -o 03_modelformation_formModelMatrices_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 03_modelformation_impliedcovstructures.cpp -o 03_modelformation_impliedcovstructures.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalFit_FisherInformation_cpp.cpp -o 04_generalFit_FisherInformation_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalFit_gradient_cpp.cpp -o 04_generalFit_gradient_cpp.o -04_generalFit_gradient_cpp.cpp:39:10: warning: local variable 'grad' will be copied despite being returned by name [-Wreturn-std-move] - return grad; - ^~~~ -04_generalFit_gradient_cpp.cpp:39:10: note: call 'std::move' explicitly to avoid copying - return grad; - ^~~~ - std::move(grad) -04_generalFit_gradient_cpp.cpp:53:10: warning: local variable 'grad' will be copied despite being returned by name [-Wreturn-std-move] - return grad; - ^~~~ -04_generalFit_gradient_cpp.cpp:53:10: note: call 'std::move' explicitly to avoid copying - return grad; - ^~~~ - std::move(grad) -2 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_fitfunction_cpp.cpp -o 04_generalfit_fitfunction_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_implied_and_prepare.cpp -o 04_generalfit_implied_and_prepare.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_loglik_fimlcpp.cpp -o 04_generalfit_loglik_fimlcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 04_generalfit_psychonetrics_BFGS.cpp -o 04_generalfit_psychonetrics_BFGS.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_expected_Hessian_Gauss_cpp.cpp -o 05_MLestimator_expected_Hessian_Gauss_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_fit_Gauss_cpp.cpp -o 05_MLestimator_fit_Gauss_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_fit_Ising.cpp -o 05_MLestimator_fit_Ising.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_gradient_Gauss_cpp.cpp -o 05_MLestimator_gradient_Gauss_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 05_MLestimator_gradient_Ising_cpp.cpp -o 05_MLestimator_gradient_Ising_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_DWLS_Wmat.cpp -o 06_DWLS_Wmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_ULS_expectedHessian_cpp.cpp -o 06_ULS_expectedHessian_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_ULS_fitfunction_cpp.cpp -o 06_ULS_fitfunction_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_ULS_gradient_cpp.cpp -o 06_ULS_gradient_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 06_WLS_Wmat.cpp -o 06_WLS_Wmat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 07_FIMLestimator_expected_hessian_gauss_cppversion.cpp -o 07_FIMLestimator_expected_hessian_gauss_cppversion.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 07_FIMLestimator_fitfunction_cppversion.cpp -o 07_FIMLestimator_fitfunction_cppversion.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 07_FIMLestimator_jacobian_gauss.cpp -o 07_FIMLestimator_jacobian_gauss.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 10_ordinal_covPrepare.cpp -o 10_ordinal_covPrepare.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 10_ordinal_cppFuns.cpp -o 10_ordinal_cppFuns.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 14_varcov_derivatives_cpp.cpp -o 14_varcov_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 14_varcov_implied_cpp.cpp -o 14_varcov_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 14_varcov_prepare_cpp.cpp -o 14_varcov_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 15_lvm_derivatives_cpp.cpp -o 15_lvm_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 15_lvm_implied_cpp.cpp -o 15_lvm_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 15_lvm_prepare_cpp.cpp -o 15_lvm_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 16_var1_derivatives_cpp.cpp -o 16_var1_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 16_var1_implied_cpp.cpp -o 16_var1_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 16_var1_prepare_cpp.cpp -o 16_var1_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 18_dlvm1_derivatives_cpp.cpp -o 18_dlvm1_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 18_dlvm1_implied_cpp.cpp -o 18_dlvm1_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 18_dlvm1_prepare_cpp.cpp -o 18_dlvm1_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 19_tsdlvm1_derivatives.cpp -o 19_tsdlvm1_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 19_tsdlvm1_implied_cpp.cpp -o 19_tsdlvm1_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 19_tsdlvm1_prepare_cpp.cpp -o 19_tsdlvm1_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 20_meta_varcov_derivatives_cpp.cpp -o 20_meta_varcov_derivatives_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 20_meta_varcov_implied.cpp -o 20_meta_varcov_implied.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 20_meta_varcov_prepare_cpp.cpp -o 20_meta_varcov_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_derivatives.cpp -o 21_Ising_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_expectedHessian.cpp -o 21_Ising_expectedHessian.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_helperfunctions.cpp -o 21_Ising_helperfunctions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_implied_cpp.cpp -o 21_Ising_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 21_Ising_prepare_cpp.cpp -o 21_Ising_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 22_ml_lvm_derivatives.cpp -o 22_ml_lvm_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 22_ml_lvm_implied_cpp.cpp -o 22_ml_lvm_implied_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c 22_ml_lvm_prepare_cpp.cpp -o 22_ml_lvm_prepare_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c b_modelexpansion_updateModel_cpp.cpp -o b_modelexpansion_updateModel_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c b_modelexpansions_addMIs_cpp.cpp -o b_modelexpansions_addMIs_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_USE_OPENMP -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/pbv/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/psychonetrics/roptim/include' -I/usr/local/include -fPIC -Wall -O3 -c b_modelexpansions_addSEs_cpp.cpp -o b_modelexpansions_addSEs_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o psychonetrics.so 02_algebrahelpers_RcppHelpers.o 02_algebrahelpers_kronecker.o 02_algebrahelpers_modelMatrix_cpp.o 03_modelformation_formModelMatrices_cpp.o 03_modelformation_impliedcovstructures.o 04_generalFit_FisherInformation_cpp.o 04_generalFit_gradient_cpp.o 04_generalfit_fitfunction_cpp.o 04_generalfit_implied_and_prepare.o 04_generalfit_loglik_fimlcpp.o 04_generalfit_psychonetrics_BFGS.o 05_MLestimator_expected_Hessian_Gauss_cpp.o 05_MLestimator_fit_Gauss_cpp.o 05_MLestimator_fit_Ising.o 05_MLestimator_gradient_Gauss_cpp.o 05_MLestimator_gradient_Ising_cpp.o 06_DWLS_Wmat.o 06_ULS_expectedHessian_cpp.o 06_ULS_fitfunction_cpp.o 06_ULS_gradient_cpp.o 06_WLS_Wmat.o 07_FIMLestimator_expected_hessian_gauss_cppversion.o 07_FIMLestimator_fitfunction_cppversion.o 07_FIMLestimator_jacobian_gauss.o 10_ordinal_covPrepare.o 10_ordinal_cppFuns.o 14_varcov_derivatives_cpp.o 14_varcov_implied_cpp.o 14_varcov_prepare_cpp.o 15_lvm_derivatives_cpp.o 15_lvm_implied_cpp.o 15_lvm_prepare_cpp.o 16_var1_derivatives_cpp.o 16_var1_implied_cpp.o 16_var1_prepare_cpp.o 18_dlvm1_derivatives_cpp.o 18_dlvm1_implied_cpp.o 18_dlvm1_prepare_cpp.o 19_tsdlvm1_derivatives.o 19_tsdlvm1_implied_cpp.o 19_tsdlvm1_prepare_cpp.o 20_meta_varcov_derivatives_cpp.o 20_meta_varcov_implied.o 20_meta_varcov_prepare_cpp.o 21_Ising_derivatives.o 21_Ising_expectedHessian.o 21_Ising_helperfunctions.o 21_Ising_implied_cpp.o 21_Ising_prepare_cpp.o 22_ml_lvm_derivatives.o 22_ml_lvm_implied_cpp.o 22_ml_lvm_prepare_cpp.o RcppExports.o b_modelexpansion_updateModel_cpp.o b_modelexpansions_addMIs_cpp.o b_modelexpansions_addSEs_cpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [psychonetrics.so] Error 1 -ERROR: compilation failed for package ‘psychonetrics’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/psychonetrics/old/psychonetrics.Rcheck/psychonetrics’ - -``` -# qgraph +# MBNMAtime
-* Version: 1.6.5 -* Source code: https://github.com/cran/qgraph -* URL: http://sachaepskamp.com/qgraph -* BugReports: https://github.com/SachaEpskamp/qgraph -* Date/Publication: 2020-02-21 19:20:02 UTC -* Number of recursive dependencies: 111 +* Version: 0.1.3 +* Source code: https://github.com/cran/MBNMAtime +* URL: https://doi.org/10.1002/jrsm.1351 +* Date/Publication: 2020-03-04 15:50:06 UTC +* Number of recursive dependencies: 81 -Run `revdep_details(,"qgraph")` for more info +Run `cloud_details(, "MBNMAtime")` for more info
-## In both +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/MBNMAtime/new/MBNMAtime.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MBNMAtime/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MBNMAtime’ version ‘0.1.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘qgraph’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/qgraph/new/qgraph.Rcheck/00install.out’ for details. - ``` -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘sendplot’ - ``` -## Installation -### Devel -``` -* installing *source* package ‘qgraph’ ... -** package ‘qgraph’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qgraph/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qgraph/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c layout_rcpp.cpp -o layout_rcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o qgraph.so RcppExports.o layout_rcpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [qgraph.so] Error 1 -ERROR: compilation failed for package ‘qgraph’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/qgraph/new/qgraph.Rcheck/qgraph’ ``` ### CRAN ``` -* installing *source* package ‘qgraph’ ... -** package ‘qgraph’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c layout_rcpp.cpp -o layout_rcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o qgraph.so RcppExports.o layout_rcpp.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [qgraph.so] Error 1 -ERROR: compilation failed for package ‘qgraph’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/qgraph/old/qgraph.Rcheck/qgraph’ +* using log directory ‘/tmp/workdir/MBNMAtime/old/MBNMAtime.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MBNMAtime/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MBNMAtime’ version ‘0.1.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` -# quanteda +# MetaboList
-* Version: 2.0.1 -* Source code: https://github.com/cran/quanteda -* URL: https://quanteda.io -* BugReports: https://github.com/quanteda/quanteda/issues -* Date/Publication: 2020-03-18 15:40:07 UTC -* Number of recursive dependencies: 153 +* Version: 2.0 +* Source code: https://github.com/cran/MetaboList +* Date/Publication: 2019-08-22 16:40:02 UTC +* Number of recursive dependencies: 65 -Run `revdep_details(,"quanteda")` for more info +Run `cloud_details(, "MetaboList")` for more info
-## In both - -* checking whether package ‘quanteda’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/quanteda/new/quanteda.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘quanteda’ ... -** package ‘quanteda’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c collocations_mt_.cpp -o collocations_mt_.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c dist_mt.cpp -o dist_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c fcm_mt.cpp -o fcm_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c kwic_mt.cpp -o kwic_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_chunk_mt.cpp -o tokens_chunk_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_compound_mt.cpp -o tokens_compound_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_lookup_mt.cpp -o tokens_lookup_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_ngrams_mt.cpp -o tokens_ngrams_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_recompile_mt.cpp -o tokens_recompile_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_replace_mt.cpp -o tokens_replace_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_segment_mt.cpp -o tokens_segment_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_select_mt.cpp -o tokens_select_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c utility.cpp -o utility.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c wordcloud.cpp -o wordcloud.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o quanteda.so RcppExports.o collocations_mt_.o dist_mt.o fcm_mt.o kwic_mt.o tokens_chunk_mt.o tokens_compound_mt.o tokens_lookup_mt.o tokens_ngrams_mt.o tokens_recompile_mt.o tokens_replace_mt.o tokens_segment_mt.o tokens_select_mt.o utility.o wordcloud.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [quanteda.so] Error 1 -ERROR: compilation failed for package ‘quanteda’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/quanteda/new/quanteda.Rcheck/quanteda’ + + + + + ``` ### CRAN ``` -* installing *source* package ‘quanteda’ ... -** package ‘quanteda’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c collocations_mt_.cpp -o collocations_mt_.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c dist_mt.cpp -o dist_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c fcm_mt.cpp -o fcm_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c kwic_mt.cpp -o kwic_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_chunk_mt.cpp -o tokens_chunk_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_compound_mt.cpp -o tokens_compound_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_lookup_mt.cpp -o tokens_lookup_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_ngrams_mt.cpp -o tokens_ngrams_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_recompile_mt.cpp -o tokens_recompile_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_replace_mt.cpp -o tokens_replace_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_segment_mt.cpp -o tokens_segment_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c tokens_select_mt.cpp -o tokens_select_mt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c utility.cpp -o utility.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_DONT_PRINT_OPENMP_WARNING -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppParallel/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/quanteda/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD=1 -fPIC -Wall -O3 -c wordcloud.cpp -o wordcloud.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o quanteda.so RcppExports.o collocations_mt_.o dist_mt.o fcm_mt.o kwic_mt.o tokens_chunk_mt.o tokens_compound_mt.o tokens_lookup_mt.o tokens_ngrams_mt.o tokens_recompile_mt.o tokens_replace_mt.o tokens_segment_mt.o tokens_select_mt.o utility.o wordcloud.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [quanteda.so] Error 1 -ERROR: compilation failed for package ‘quanteda’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/quanteda/old/quanteda.Rcheck/quanteda’ - -``` -# quokar -
-* Version: 0.1.0 -* Source code: https://github.com/cran/quokar -* URL: https://github.com/wenjingwang/quokar -* BugReports: https://github.com/wenjingwang/quokar/issues -* Date/Publication: 2017-11-10 10:21:36 UTC -* Number of recursive dependencies: 82 -Run `revdep_details(,"quokar")` for more info -
-## In both -* checking whether package ‘quokar’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/quokar/new/quokar.Rcheck/00install.out’ for details. - ``` +``` +# MixMatrix -## Installation +
+ +* Version: 0.2.4 +* Source code: https://github.com/cran/MixMatrix +* URL: http://github.com/gzt/MixMatrix/, https://gzt.github.io/MixMatrix/ +* BugReports: http://github.com/gzt/MixMatrix/issues +* Date/Publication: 2019-11-14 22:30:03 UTC +* Number of recursive dependencies: 78 + +Run `cloud_details(, "MixMatrix")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘quokar’ ... -** package ‘quokar’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c init.c -o init.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rqbr.f -o rqbr.o -rqbr.f:567:5: - - 567 | 23243 continue - | 1 -Warning: Label 23243 at (1) defined but not used [-Wunused-label] -rqbr.f:527:5: - - 527 | 23231 continue - | 1 -Warning: Label 23231 at (1) defined but not used [-Wunused-label] -rqbr.f:514:5: - - 514 | 23227 continue - | 1 -Warning: Label 23227 at (1) defined but not used [-Wunused-label] -rqbr.f:517:5: - - 517 | 23223 continue - | 1 -Warning: Label 23223 at (1) defined but not used [-Wunused-label] -rqbr.f:506:5: - - 506 | 23221 continue - | 1 -Warning: Label 23221 at (1) defined but not used [-Wunused-label] -rqbr.f:481:5: - - 481 | 23205 continue - | 1 -Warning: Label 23205 at (1) defined but not used [-Wunused-label] -rqbr.f:462:5: - - 462 | 23203 continue - | 1 -Warning: Label 23203 at (1) defined but not used [-Wunused-label] -rqbr.f:458:5: - - 458 | 23201 continue - | 1 -Warning: Label 23201 at (1) defined but not used [-Wunused-label] -rqbr.f:432:5: - - 432 | 23193 continue - | 1 -Warning: Label 23193 at (1) defined but not used [-Wunused-label] -rqbr.f:425:5: - - 425 | 23191 continue - | 1 -Warning: Label 23191 at (1) defined but not used [-Wunused-label] -rqbr.f:375:5: - - 375 | 23171 continue - | 1 -Warning: Label 23171 at (1) defined but not used [-Wunused-label] -rqbr.f:393:5: - - 393 | 23169 continue - | 1 -Warning: Label 23169 at (1) defined but not used [-Wunused-label] -rqbr.f:361:5: - - 361 | 23167 continue - | 1 -Warning: Label 23167 at (1) defined but not used [-Wunused-label] -rqbr.f:348:5: - - 348 | 23161 continue - | 1 -Warning: Label 23161 at (1) defined but not used [-Wunused-label] -rqbr.f:341:5: - - 341 | 23157 continue - | 1 -Warning: Label 23157 at (1) defined but not used [-Wunused-label] -rqbr.f:336:5: - - 336 | 23155 continue - | 1 -Warning: Label 23155 at (1) defined but not used [-Wunused-label] -rqbr.f:327:5: - - 327 | 23147 continue - | 1 -Warning: Label 23147 at (1) defined but not used [-Wunused-label] -rqbr.f:317:5: - - 317 | 23141 continue - | 1 -Warning: Label 23141 at (1) defined but not used [-Wunused-label] -rqbr.f:303:5: - - 303 | 23139 continue - | 1 -Warning: Label 23139 at (1) defined but not used [-Wunused-label] -rqbr.f:294:5: - - 294 | 23133 continue - | 1 -Warning: Label 23133 at (1) defined but not used [-Wunused-label] -rqbr.f:277:5: - - 277 | 23129 continue - | 1 -Warning: Label 23129 at (1) defined but not used [-Wunused-label] -rqbr.f:272:5: - - 272 | 23121 continue - | 1 -Warning: Label 23121 at (1) defined but not used [-Wunused-label] -rqbr.f:258:5: - - 258 | 23117 continue - | 1 -Warning: Label 23117 at (1) defined but not used [-Wunused-label] -rqbr.f:243:5: - - 243 | 23111 continue - | 1 -Warning: Label 23111 at (1) defined but not used [-Wunused-label] -rqbr.f:234:5: - - 234 | 23107 continue - | 1 -Warning: Label 23107 at (1) defined but not used [-Wunused-label] -rqbr.f:237:5: - - 237 | 23103 continue - | 1 -Warning: Label 23103 at (1) defined but not used [-Wunused-label] -rqbr.f:225:5: - - 225 | 23099 continue - | 1 -Warning: Label 23099 at (1) defined but not used [-Wunused-label] -rqbr.f:217:5: - - 217 | 23097 continue - | 1 -Warning: Label 23097 at (1) defined but not used [-Wunused-label] -rqbr.f:208:5: - - 208 | 23095 continue - | 1 -Warning: Label 23095 at (1) defined but not used [-Wunused-label] -rqbr.f:187:5: - - 187 | 23085 continue - | 1 -Warning: Label 23085 at (1) defined but not used [-Wunused-label] -rqbr.f:210:5: - - 210 | 23080 goto 23079 - | 1 -Warning: Label 23080 at (1) defined but not used [-Wunused-label] -rqbr.f:174:5: - - 174 | 23076 continue - | 1 -Warning: Label 23076 at (1) defined but not used [-Wunused-label] -rqbr.f:279:5: - - 279 | 23073 goto 23072 - | 1 -Warning: Label 23073 at (1) defined but not used [-Wunused-label] -rqbr.f:159:5: - - 159 | 23071 continue - | 1 -Warning: Label 23071 at (1) defined but not used [-Wunused-label] -rqbr.f:151:5: - - 151 | 23059 continue - | 1 -Warning: Label 23059 at (1) defined but not used [-Wunused-label] -rqbr.f:281:5: - - 281 | 23056 goto 23055 - | 1 -Warning: Label 23056 at (1) defined but not used [-Wunused-label] -rqbr.f:283:5: - - 283 | 23053 goto 23052 - | 1 -Warning: Label 23053 at (1) defined but not used [-Wunused-label] -rqbr.f:127:5: - - 127 | 23049 continue - | 1 -Warning: Label 23049 at (1) defined but not used [-Wunused-label] -rqbr.f:491:5: - - 491 | 23046 goto 23045 - | 1 -Warning: Label 23046 at (1) defined but not used [-Wunused-label] -rqbr.f:116:5: - - 116 | 23044 continue - | 1 -Warning: Label 23044 at (1) defined but not used [-Wunused-label] -rqbr.f:119:5: - - 119 | 23042 continue - | 1 -Warning: Label 23042 at (1) defined but not used [-Wunused-label] -rqbr.f:104:5: - - 104 | 23038 continue - | 1 -Warning: Label 23038 at (1) defined but not used [-Wunused-label] -rqbr.f:107:5: - - 107 | 23036 continue - | 1 -Warning: Label 23036 at (1) defined but not used [-Wunused-label] -rqbr.f:91:5: - - 91 | 23034 continue - | 1 -Warning: Label 23034 at (1) defined but not used [-Wunused-label] -rqbr.f:78:5: - - 78 | 23022 continue - | 1 -Warning: Label 23022 at (1) defined but not used [-Wunused-label] -rqbr.f:94:5: - - 94 | 23020 continue - | 1 -Warning: Label 23020 at (1) defined but not used [-Wunused-label] -rqbr.f:562:5: - - 562 | 23017 goto 23016 - | 1 -Warning: Label 23017 at (1) defined but not used [-Wunused-label] -rqbr.f:54:5: - - 54 | 23013 continue - | 1 -Warning: Label 23013 at (1) defined but not used [-Wunused-label] -rqbr.f:50:5: - - 50 | 23011 continue - | 1 -Warning: Label 23011 at (1) defined but not used [-Wunused-label] -rqbr.f:300:10: - - 300 | k = wa(i,n4)*sign(one,wa(i,n4)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:306:11: - - 306 | kd = abs(wa(m4,i))-n - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:319:11: - - 319 | kd = abs(wa(i,n4))-n - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:357:10: - - 357 | k = wa(i,n4)*sign(one,wa(i,n4)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:365:10: - - 365 | k = wa(i,n4)*sign(one,wa(i,n4))-n - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:521:10: - - 521 | k = wa(i,n4)*sign(one,wa(i,n4)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:5:0: - - 5 | integer n,n1,n2,n3,nsol,ndsol,out,s(m),h(nn,nsol) - | -Warning: 'out' may be used uninitialized in this function [-Wmaybe-uninitialized] -rqbr.f:273:0: - - 273 | if(wa(m1,in).lt.zero)then - | -Warning: 'in' may be used uninitialized in this function [-Wmaybe-uninitialized] -rqbr.f:483:0: - - 483 | if(tnt.ge.t1+toler)then - | -Warning: 't1' may be used uninitialized in this function [-Wmaybe-uninitialized] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rqfnb.f -o rqfnb.o -rqfnb.f:134:5: - - 134 | 23029 continue - | 1 -Warning: Label 23029 at (1) defined but not used [-Wunused-label] -rqfnb.f:107:5: - - 107 | 23027 continue - | 1 -Warning: Label 23027 at (1) defined but not used [-Wunused-label] -rqfnb.f:94:5: - - 94 | 23015 continue - | 1 -Warning: Label 23015 at (1) defined but not used [-Wunused-label] -rqfnb.f:64:5: - - 64 | 23011 continue - | 1 -Warning: Label 23011 at (1) defined but not used [-Wunused-label] -rqfnb.f:149:5: - - 149 | 23009 continue - | 1 -Warning: Label 23009 at (1) defined but not used [-Wunused-label] -rqfnb.f:53:5: - - 53 | 23005 continue - | 1 -Warning: Label 23005 at (1) defined but not used [-Wunused-label] -rqfnb.f:36:5: - - 36 | 23001 continue - | 1 -Warning: Label 23001 at (1) defined but not used [-Wunused-label] -rqfnb.f:169:5: - - 169 | 23043 continue - | 1 -Warning: Label 23043 at (1) defined but not used [-Wunused-label] -rqfnb.f:163:5: - - 163 | 23041 continue - | 1 -Warning: Label 23041 at (1) defined but not used [-Wunused-label] -rqfnb.f:165:5: - - 165 | 23039 continue - | 1 -Warning: Label 23039 at (1) defined but not used [-Wunused-label] -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o quokar.so init.o rqbr.o rqfnb.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [quokar.so] Error 1 -ERROR: compilation failed for package ‘quokar’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/quokar/new/quokar.Rcheck/quokar’ +* using log directory ‘/tmp/workdir/MixMatrix/new/MixMatrix.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MixMatrix/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MixMatrix’ version ‘0.2.4’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘MixMatrix’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘discriminant-analysis.Rmd’using ‘UTF-8’... OK + ‘matrix-t-estimation.Rmd’using ‘UTF-8’... OK + ‘matrixnormal.Rmd’using ‘UTF-8’... OK + ‘mixturemodel.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: OK + + + + + ``` ### CRAN ``` -* installing *source* package ‘quokar’ ... -** package ‘quokar’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -O3 -c init.c -o init.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rqbr.f -o rqbr.o -rqbr.f:567:5: - - 567 | 23243 continue - | 1 -Warning: Label 23243 at (1) defined but not used [-Wunused-label] -rqbr.f:527:5: - - 527 | 23231 continue - | 1 -Warning: Label 23231 at (1) defined but not used [-Wunused-label] -rqbr.f:514:5: - - 514 | 23227 continue - | 1 -Warning: Label 23227 at (1) defined but not used [-Wunused-label] -rqbr.f:517:5: - - 517 | 23223 continue - | 1 -Warning: Label 23223 at (1) defined but not used [-Wunused-label] -rqbr.f:506:5: - - 506 | 23221 continue - | 1 -Warning: Label 23221 at (1) defined but not used [-Wunused-label] -rqbr.f:481:5: - - 481 | 23205 continue - | 1 -Warning: Label 23205 at (1) defined but not used [-Wunused-label] -rqbr.f:462:5: - - 462 | 23203 continue - | 1 -Warning: Label 23203 at (1) defined but not used [-Wunused-label] -rqbr.f:458:5: - - 458 | 23201 continue - | 1 -Warning: Label 23201 at (1) defined but not used [-Wunused-label] -rqbr.f:432:5: - - 432 | 23193 continue - | 1 -Warning: Label 23193 at (1) defined but not used [-Wunused-label] -rqbr.f:425:5: - - 425 | 23191 continue - | 1 -Warning: Label 23191 at (1) defined but not used [-Wunused-label] -rqbr.f:375:5: - - 375 | 23171 continue - | 1 -Warning: Label 23171 at (1) defined but not used [-Wunused-label] -rqbr.f:393:5: - - 393 | 23169 continue - | 1 -Warning: Label 23169 at (1) defined but not used [-Wunused-label] -rqbr.f:361:5: - - 361 | 23167 continue - | 1 -Warning: Label 23167 at (1) defined but not used [-Wunused-label] -rqbr.f:348:5: - - 348 | 23161 continue - | 1 -Warning: Label 23161 at (1) defined but not used [-Wunused-label] -rqbr.f:341:5: - - 341 | 23157 continue - | 1 -Warning: Label 23157 at (1) defined but not used [-Wunused-label] -rqbr.f:336:5: - - 336 | 23155 continue - | 1 -Warning: Label 23155 at (1) defined but not used [-Wunused-label] -rqbr.f:327:5: - - 327 | 23147 continue - | 1 -Warning: Label 23147 at (1) defined but not used [-Wunused-label] -rqbr.f:317:5: - - 317 | 23141 continue - | 1 -Warning: Label 23141 at (1) defined but not used [-Wunused-label] -rqbr.f:303:5: - - 303 | 23139 continue - | 1 -Warning: Label 23139 at (1) defined but not used [-Wunused-label] -rqbr.f:294:5: - - 294 | 23133 continue - | 1 -Warning: Label 23133 at (1) defined but not used [-Wunused-label] -rqbr.f:277:5: - - 277 | 23129 continue - | 1 -Warning: Label 23129 at (1) defined but not used [-Wunused-label] -rqbr.f:272:5: - - 272 | 23121 continue - | 1 -Warning: Label 23121 at (1) defined but not used [-Wunused-label] -rqbr.f:258:5: - - 258 | 23117 continue - | 1 -Warning: Label 23117 at (1) defined but not used [-Wunused-label] -rqbr.f:243:5: - - 243 | 23111 continue - | 1 -Warning: Label 23111 at (1) defined but not used [-Wunused-label] -rqbr.f:234:5: - - 234 | 23107 continue - | 1 -Warning: Label 23107 at (1) defined but not used [-Wunused-label] -rqbr.f:237:5: - - 237 | 23103 continue - | 1 -Warning: Label 23103 at (1) defined but not used [-Wunused-label] -rqbr.f:225:5: - - 225 | 23099 continue - | 1 -Warning: Label 23099 at (1) defined but not used [-Wunused-label] -rqbr.f:217:5: - - 217 | 23097 continue - | 1 -Warning: Label 23097 at (1) defined but not used [-Wunused-label] -rqbr.f:208:5: - - 208 | 23095 continue - | 1 -Warning: Label 23095 at (1) defined but not used [-Wunused-label] -rqbr.f:187:5: - - 187 | 23085 continue - | 1 -Warning: Label 23085 at (1) defined but not used [-Wunused-label] -rqbr.f:210:5: - - 210 | 23080 goto 23079 - | 1 -Warning: Label 23080 at (1) defined but not used [-Wunused-label] -rqbr.f:174:5: - - 174 | 23076 continue - | 1 -Warning: Label 23076 at (1) defined but not used [-Wunused-label] -rqbr.f:279:5: - - 279 | 23073 goto 23072 - | 1 -Warning: Label 23073 at (1) defined but not used [-Wunused-label] -rqbr.f:159:5: - - 159 | 23071 continue - | 1 -Warning: Label 23071 at (1) defined but not used [-Wunused-label] -rqbr.f:151:5: - - 151 | 23059 continue - | 1 -Warning: Label 23059 at (1) defined but not used [-Wunused-label] -rqbr.f:281:5: - - 281 | 23056 goto 23055 - | 1 -Warning: Label 23056 at (1) defined but not used [-Wunused-label] -rqbr.f:283:5: - - 283 | 23053 goto 23052 - | 1 -Warning: Label 23053 at (1) defined but not used [-Wunused-label] -rqbr.f:127:5: - - 127 | 23049 continue - | 1 -Warning: Label 23049 at (1) defined but not used [-Wunused-label] -rqbr.f:491:5: - - 491 | 23046 goto 23045 - | 1 -Warning: Label 23046 at (1) defined but not used [-Wunused-label] -rqbr.f:116:5: - - 116 | 23044 continue - | 1 -Warning: Label 23044 at (1) defined but not used [-Wunused-label] -rqbr.f:119:5: - - 119 | 23042 continue - | 1 -Warning: Label 23042 at (1) defined but not used [-Wunused-label] -rqbr.f:104:5: - - 104 | 23038 continue - | 1 -Warning: Label 23038 at (1) defined but not used [-Wunused-label] -rqbr.f:107:5: - - 107 | 23036 continue - | 1 -Warning: Label 23036 at (1) defined but not used [-Wunused-label] -rqbr.f:91:5: - - 91 | 23034 continue - | 1 -Warning: Label 23034 at (1) defined but not used [-Wunused-label] -rqbr.f:78:5: - - 78 | 23022 continue - | 1 -Warning: Label 23022 at (1) defined but not used [-Wunused-label] -rqbr.f:94:5: - - 94 | 23020 continue - | 1 -Warning: Label 23020 at (1) defined but not used [-Wunused-label] -rqbr.f:562:5: - - 562 | 23017 goto 23016 - | 1 -Warning: Label 23017 at (1) defined but not used [-Wunused-label] -rqbr.f:54:5: - - 54 | 23013 continue - | 1 -Warning: Label 23013 at (1) defined but not used [-Wunused-label] -rqbr.f:50:5: - - 50 | 23011 continue - | 1 -Warning: Label 23011 at (1) defined but not used [-Wunused-label] -rqbr.f:300:10: - - 300 | k = wa(i,n4)*sign(one,wa(i,n4)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:306:11: - - 306 | kd = abs(wa(m4,i))-n - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:319:11: - - 319 | kd = abs(wa(i,n4))-n - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:357:10: - - 357 | k = wa(i,n4)*sign(one,wa(i,n4)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:365:10: - - 365 | k = wa(i,n4)*sign(one,wa(i,n4))-n - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:521:10: - - 521 | k = wa(i,n4)*sign(one,wa(i,n4)) - | 1 -Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion] -rqbr.f:5:0: - - 5 | integer n,n1,n2,n3,nsol,ndsol,out,s(m),h(nn,nsol) - | -Warning: 'out' may be used uninitialized in this function [-Wmaybe-uninitialized] -rqbr.f:273:0: - - 273 | if(wa(m1,in).lt.zero)then - | -Warning: 'in' may be used uninitialized in this function [-Wmaybe-uninitialized] -rqbr.f:483:0: - - 483 | if(tnt.ge.t1+toler)then - | -Warning: 't1' may be used uninitialized in this function [-Wmaybe-uninitialized] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c rqfnb.f -o rqfnb.o -rqfnb.f:134:5: - - 134 | 23029 continue - | 1 -Warning: Label 23029 at (1) defined but not used [-Wunused-label] -rqfnb.f:107:5: - - 107 | 23027 continue - | 1 -Warning: Label 23027 at (1) defined but not used [-Wunused-label] -rqfnb.f:94:5: - - 94 | 23015 continue - | 1 -Warning: Label 23015 at (1) defined but not used [-Wunused-label] -rqfnb.f:64:5: - - 64 | 23011 continue - | 1 -Warning: Label 23011 at (1) defined but not used [-Wunused-label] -rqfnb.f:149:5: - - 149 | 23009 continue - | 1 -Warning: Label 23009 at (1) defined but not used [-Wunused-label] -rqfnb.f:53:5: - - 53 | 23005 continue - | 1 -Warning: Label 23005 at (1) defined but not used [-Wunused-label] -rqfnb.f:36:5: - - 36 | 23001 continue - | 1 -Warning: Label 23001 at (1) defined but not used [-Wunused-label] -rqfnb.f:169:5: - - 169 | 23043 continue - | 1 -Warning: Label 23043 at (1) defined but not used [-Wunused-label] -rqfnb.f:163:5: - - 163 | 23041 continue - | 1 -Warning: Label 23041 at (1) defined but not used [-Wunused-label] -rqfnb.f:165:5: - - 165 | 23039 continue - | 1 -Warning: Label 23039 at (1) defined but not used [-Wunused-label] -clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o quokar.so init.o rqbr.o rqfnb.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [quokar.so] Error 1 -ERROR: compilation failed for package ‘quokar’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/quokar/old/quokar.Rcheck/quokar’ - -``` -# qwraps2 +* using log directory ‘/tmp/workdir/MixMatrix/old/MixMatrix.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MixMatrix/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MixMatrix’ version ‘0.2.4’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘MixMatrix’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘discriminant-analysis.Rmd’using ‘UTF-8’... OK + ‘matrix-t-estimation.Rmd’using ‘UTF-8’... OK + ‘matrixnormal.Rmd’using ‘UTF-8’... OK + ‘mixturemodel.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: OK + + + + + + +``` +# MLRShiny
-* Version: 0.4.2 -* Source code: https://github.com/cran/qwraps2 -* URL: https://github.com/dewittpe/qwraps2/ -* Date/Publication: 2019-12-02 20:40:13 UTC -* Number of recursive dependencies: 76 +* Version: 0.1.0 +* Source code: https://github.com/cran/MLRShiny +* Date/Publication: 2019-04-22 19:20:03 UTC +* Number of recursive dependencies: 99 -Run `revdep_details(,"qwraps2")` for more info +Run `cloud_details(, "MLRShiny")` for more info
-## In both - -* checking whether package ‘qwraps2’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/qwraps2/new/qwraps2.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘qwraps2’ ... -** package ‘qwraps2’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c logit.cpp -o logit.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c traprule.cpp -o traprule.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o qwraps2.so RcppExports.o logit.o traprule.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [qwraps2.so] Error 1 -ERROR: compilation failed for package ‘qwraps2’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/qwraps2/new/qwraps2.Rcheck/qwraps2’ +* using log directory ‘/tmp/workdir/MLRShiny/new/MLRShiny.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MLRShiny/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MLRShiny’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘MLRShiny’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘QuantPsyc’ ‘corrgram’ ‘dplyr’ ‘forecast’ ‘psych’ ‘shinyAce’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + + ``` ### CRAN ``` -* installing *source* package ‘qwraps2’ ... -** package ‘qwraps2’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c logit.cpp -o logit.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/qwraps2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c traprule.cpp -o traprule.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o qwraps2.so RcppExports.o logit.o traprule.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [qwraps2.so] Error 1 -ERROR: compilation failed for package ‘qwraps2’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/qwraps2/old/qwraps2.Rcheck/qwraps2’ - -``` -# Rariant +* using log directory ‘/tmp/workdir/MLRShiny/old/MLRShiny.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘MLRShiny/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘MLRShiny’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘MLRShiny’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘QuantPsyc’ ‘corrgram’ ‘dplyr’ ‘forecast’ ‘psych’ ‘shinyAce’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking examples ... OK +* DONE +Status: 1 NOTE + + + + + + +``` +# nesRdata
-* Version: 1.24.0 -* Source code: https://github.com/cran/Rariant -* URL: https://github.com/juliangehring/Rariant -* BugReports: https://support.bioconductor.org -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 167 +* Version: 0.3.1 +* Source code: https://github.com/cran/nesRdata +* URL: https://github.com/jsta/nesRdata +* BugReports: https://github.com/jsta/nesRdata/issues +* Date/Publication: 2020-04-30 17:20:02 UTC +* Number of recursive dependencies: 66 -Run `revdep_details(,"Rariant")` for more info +Run `cloud_details(, "nesRdata")` for more info
-## Newly broken +## In both -* checking whether package ‘Rariant’ can be installed ... ERROR +* checking whether package ‘nesRdata’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/Rariant/new/Rariant.Rcheck/00install.out’ for details. - ``` - -## Newly fixed - -* checking examples ... WARNING - ``` - Found the following significant warnings: - - Warning: 'rbind_all' is deprecated. - Deprecated functions may be defunct as soon as of the next release of - R. - See ?Deprecated. - ``` - -* checking installed package size ... NOTE - ``` - installed size is 7.7Mb - sub-directories of 1Mb or more: - doc 2.2Mb - extdata 5.2Mb - ``` - -* checking R code for possible problems ... NOTE - ``` - tallyBamRegion: no visible global function definition for 'PileupParam' - tallyBamRegion: no visible global function definition for - 'ScanBamParam' - tallyBamRegion: no visible global function definition for 'pileup' - Undefined global functions or variables: - PileupParam ScanBamParam pileup - ``` - -* checking installed files from ‘inst/doc’ ... NOTE - ``` - The following files should probably not be installed: - ‘rariant-inspect-ci.png’, ‘rariant-inspect-shift.png’ - - Consider the use of a .Rinstignore file: see ‘Writing R Extensions’, - or move the vignette sources from ‘inst/doc’ to ‘vignettes’. + See ‘/tmp/workdir/nesRdata/new/nesRdata.Rcheck/00install.out’ for details. ``` ## Installation @@ -8866,907 +4476,807 @@ Run `revdep_details(,"Rariant")` for more info ### Devel ``` -* installing *source* package ‘Rariant’ ... +* installing *source* package ‘nesRdata’ ... +** package ‘nesRdata’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error: object 'rbind_all' is not exported by 'namespace:dplyr' +Error in dyn.load(file, DLLpath = DLLpath, ...) : + unable to load shared object '/opt/R/3.6.3/lib/R/library/redland/libs/redland.so': + librdf.so.0: cannot open shared object file: No such file or directory +Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load Execution halted -ERROR: lazy loading failed for package ‘Rariant’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/Rariant/new/Rariant.Rcheck/Rariant’ +ERROR: lazy loading failed for package ‘nesRdata’ +* removing ‘/tmp/workdir/nesRdata/new/nesRdata.Rcheck/nesRdata’ ``` ### CRAN ``` -* installing *source* package ‘Rariant’ ... +* installing *source* package ‘nesRdata’ ... +** package ‘nesRdata’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -** help -*** installing help indices -** building package indices -** installing vignettes -** testing if installed package can be loaded from temporary location -** testing if installed package can be loaded from final location -** testing if installed package keeps a record of temporary installation path -* DONE (Rariant) +Error in dyn.load(file, DLLpath = DLLpath, ...) : + unable to load shared object '/opt/R/3.6.3/lib/R/library/redland/libs/redland.so': + librdf.so.0: cannot open shared object file: No such file or directory +Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load +Execution halted +ERROR: lazy loading failed for package ‘nesRdata’ +* removing ‘/tmp/workdir/nesRdata/old/nesRdata.Rcheck/nesRdata’ ``` -# rbridge +# NetworkExtinction
-* Version: 1.0.2 -* Source code: https://github.com/cran/rbridge -* Date/Publication: 2020-02-29 11:40:03 UTC -* Number of recursive dependencies: 39 +* Version: 0.1.1 +* Source code: https://github.com/cran/NetworkExtinction +* URL: https://derek-corcoran-barrios.github.io/NetworkExtintion/ +* Date/Publication: 2019-10-27 22:20:02 UTC +* Number of recursive dependencies: 85 -Run `revdep_details(,"rbridge")` for more info +Run `cloud_details(, "NetworkExtinction")` for more info
-## In both - -* checking whether package ‘rbridge’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/rbridge/new/rbridge.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘rbridge’ ... -** package ‘rbridge’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/rbridge/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/rbridge/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Main_functions.cpp -o Main_functions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/rbridge/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/rbridge/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o rbridge.so Main_functions.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [rbridge.so] Error 1 -ERROR: compilation failed for package ‘rbridge’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/rbridge/new/rbridge.Rcheck/rbridge’ +* using log directory ‘/tmp/workdir/NetworkExtinction/new/NetworkExtinction.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘NetworkExtinction/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘NetworkExtinction’ version ‘0.1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘rbridge’ ... -** package ‘rbridge’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/rbridge/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Main_functions.cpp -o Main_functions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/rbridge/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o rbridge.so Main_functions.o RcppExports.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [rbridge.so] Error 1 -ERROR: compilation failed for package ‘rbridge’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/rbridge/old/rbridge.Rcheck/rbridge’ -``` -# registr -
-* Version: 1.0.0 -* Source code: https://github.com/cran/registr -* Date/Publication: 2020-03-16 11:40:02 UTC -* Number of recursive dependencies: 67 -Run `revdep_details(,"registr")` for more info -
+``` +### CRAN -## In both +``` +* using log directory ‘/tmp/workdir/NetworkExtinction/old/NetworkExtinction.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘NetworkExtinction/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘NetworkExtinction’ version ‘0.1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘registr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/registr/new/registr.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘registr’ ... -** package ‘registr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c expectedScores.cpp -o expectedScores.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c expectedXi.cpp -o expectedXi.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c squareTheta.cpp -o squareTheta.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o registr.so RcppExports.o expectedScores.o expectedXi.o squareTheta.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/lib -lpcre2-8 -llzma -lbz2 -lz -licucore -ldl -lm -liconv -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lpcre2-8 -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [registr.so] Error 1 -ERROR: compilation failed for package ‘registr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/registr/new/registr.Rcheck/registr’ -``` -### CRAN ``` -* installing *source* package ‘registr’ ... -** package ‘registr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c expectedScores.cpp -o expectedScores.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c expectedXi.cpp -o expectedXi.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/registr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c squareTheta.cpp -o squareTheta.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o registr.so RcppExports.o expectedScores.o expectedXi.o squareTheta.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/lib -lpcre2-8 -llzma -lbz2 -lz -licucore -ldl -lm -liconv -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lpcre2-8 -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [registr.so] Error 1 -ERROR: compilation failed for package ‘registr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/registr/old/registr.Rcheck/registr’ - -``` -# resautonet +# OncoBayes2
-* Version: 1.0 -* Source code: https://github.com/cran/resautonet -* Date/Publication: 2019-03-16 23:00:08 UTC -* Number of recursive dependencies: 41 +* Version: 0.6-5 +* Source code: https://github.com/cran/OncoBayes2 +* Date/Publication: 2020-05-07 14:50:02 UTC +* Number of recursive dependencies: 82 -Run `revdep_details(,"resautonet")` for more info +Run `cloud_details(, "OncoBayes2")` for more info
-## In both - -* checking whether package ‘resautonet’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/resautonet/new/resautonet.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘resautonet’ ... -** package ‘resautonet’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/resautonet/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/resautonet/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/resautonet/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/resautonet/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rcpparma_hello_world.cpp -o rcpparma_hello_world.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o resautonet.so RcppExports.o rcpparma_hello_world.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [resautonet.so] Error 1 -ERROR: compilation failed for package ‘resautonet’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/resautonet/new/resautonet.Rcheck/resautonet’ - -``` -### CRAN +* using log directory ‘/tmp/workdir/OncoBayes2/new/OncoBayes2.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘OncoBayes2/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘OncoBayes2’ version ‘0.6-5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘OncoBayes2’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 42.7Mb + sub-directories of 1Mb or more: + libs 41.7Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... WARNING +Loading required package: Rcpp +Error: package or namespace load failed for ‘OncoBayes2’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + there is no package called ‘cli’ +Execution halted -``` -* installing *source* package ‘resautonet’ ... -** package ‘resautonet’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/resautonet/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/resautonet/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rcpparma_hello_world.cpp -o rcpparma_hello_world.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o resautonet.so RcppExports.o rcpparma_hello_world.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [resautonet.so] Error 1 -ERROR: compilation failed for package ‘resautonet’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/resautonet/old/resautonet.Rcheck/resautonet’ +It looks like this package has a loading problem when not on .libPaths: +see the messages for details. +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘bayesplot’ ‘ggplot2’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking line endings in shell scripts ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... NOTE +GNU make is a SystemRequirements. +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... ERROR +Running examples in ‘OncoBayes2-Ex.R’ failed +The error most likely occurred in: + +> ### Name: posterior_predict.blrmfit +> ### Title: Posterior of predictive +> ### Aliases: posterior_predict.blrmfit posterior_predict +> +> ### ** Examples +> +> ## Setting up dummy sampling for fast execution of example +> ## Please use 4 chains and 100x more warmup & iter in practice +> .user_mc_options <- options(OncoBayes2.MC.warmup=10, OncoBayes2.MC.iter=20, OncoBayes2.MC.chains=1) +> +> +> example_model("single_agent") +Running single_agent example: + + ## Example from Neuenschwander, B., et al. (2009). Stats in Medicine + + num_comp <- 1 # one investigational drug + num_inter <- 0 # no drug-drug interactions need to be modeled + num_groups <- nlevels(hist_SA$group_id) # no stratification needed + num_strata <- 1 # no stratification needed + + + dref <- 50 + + ## Since there is no prior information the hierarchical model + ## is not used in this example by setting tau to (almost) 0. + blrmfit <- blrm_exnex( + cbind(num_toxicities, num_patients - num_toxicities) ~ + 1 + log(drug_A / dref) | + 0 | + group_id, + data = hist_SA, + prior_EX_mu_mean_comp = matrix( + c(logit(1/2), # mean of intercept on logit scale + log(1)), # mean of log-slope on logit scale + nrow = num_comp, + ncol = 2 + ), + prior_EX_mu_sd_comp = matrix( + c(2, # sd of intercept + 1), # sd of log-slope + nrow = num_comp, + ncol = 2 + ), + ## Here we take tau as known and as zero. + ## This disables the hierarchical prior which is + ## not required in this example as we analyze a + ## single trial. + prior_EX_tau_mean_comp = matrix( + c(0, 0), + nrow = num_comp, + ncol = 2 + ), + prior_EX_tau_sd_comp = matrix( + c(1, 1), + nrow = num_comp, + ncol = 2 + ), + prior_EX_prob_comp = matrix(1, nrow = num_comp, ncol = 1), + prior_tau_dist = 0, + prior_PD = FALSE + ) + +Warning: The largest R-hat is NA, indicating chains have not mixed. +Running the chains for more iterations may help. See +http://mc-stan.org/misc/warnings.html#r-hat +Warning: Bulk Effective Samples Size (ESS) is too low, indicating posterior means and medians may be unreliable. +Running the chains for more iterations may help. See +http://mc-stan.org/misc/warnings.html#bulk-ess +Warning: Tail Effective Samples Size (ESS) is too low, indicating posterior variances and tail quantiles may be unreliable. +Running the chains for more iterations may help. See +http://mc-stan.org/misc/warnings.html#tail-ess +> +> post_pred <- posterior_predict(blrmfit) +> ## turn DLT counts into DLT rates +> post_pred_rate <- sweep(post_pred, 2, hist_SA$num_patients, "/") +> +> library(bayesplot) +This is bayesplot version 1.7.2 +- Online documentation and vignettes at mc-stan.org/bayesplot +- bayesplot theme set to bayesplot::theme_default() + * Does _not_ affect other ggplot2 plots + * See ?bayesplot_theme_set for details on theme setting +> library(ggplot2) +> +> ## compare posterior predictive of the model for the response rates +> ## with observed data +> with(hist_SA, ++ ppc_intervals(num_toxicities / num_patients, post_pred_rate, x=drug_A, prob_outer=0.95)) + ++ xlab("Dose [mg]") +Error in loadNamespace(name) : there is no package called ‘labeling’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘introduction.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 ERROR, 1 WARNING, 3 NOTEs -``` -# rnaseqGene -
-* Version: 1.12.0 -* Source code: https://github.com/cran/rnaseqGene -* URL: https://github.com/mikelove/rnaseqGene/ -* Date/Publication: 2020-04-28 -* Number of recursive dependencies: 207 -Run `revdep_details(,"rnaseqGene")` for more info -
-## In both +``` +### CRAN -* checking whether package ‘rnaseqGene’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/rnaseqGene/new/rnaseqGene.Rcheck/00install.out’ for details. - ``` +``` +* using log directory ‘/tmp/workdir/OncoBayes2/old/OncoBayes2.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘OncoBayes2/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘OncoBayes2’ version ‘0.6-5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘OncoBayes2’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 42.7Mb + sub-directories of 1Mb or more: + libs 41.7Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... WARNING +Loading required package: Rcpp +Error: package or namespace load failed for ‘OncoBayes2’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + there is no package called ‘cli’ +Execution halted -* checking package dependencies ... NOTE - ``` - Depends: includes the non-default packages: - 'BiocStyle', 'airway', 'tximeta', 'magrittr', 'DESeq2', 'apeglm', - 'vsn', 'dplyr', 'ggplot2', 'hexbin', 'pheatmap', 'RColorBrewer', - 'PoiClaClu', 'glmpca', 'ggbeeswarm', 'genefilter', 'AnnotationDbi', - 'org.Hs.eg.db', 'ReportingTools', 'Gviz', 'sva', 'RUVSeq', 'fission' - Adding so many packages to the search path is excessive and importing - selectively is preferable. - ``` +It looks like this package has a loading problem when not on .libPaths: +see the messages for details. +* checking dependencies in R code ... NOTE +Namespaces in Imports field not imported from: + ‘bayesplot’ ‘ggplot2’ + All declared Imports should be used. +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking line endings in shell scripts ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... NOTE +GNU make is a SystemRequirements. +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... ERROR +Running examples in ‘OncoBayes2-Ex.R’ failed +The error most likely occurred in: + +> ### Name: posterior_predict.blrmfit +> ### Title: Posterior of predictive +> ### Aliases: posterior_predict.blrmfit posterior_predict +> +> ### ** Examples +> +> ## Setting up dummy sampling for fast execution of example +> ## Please use 4 chains and 100x more warmup & iter in practice +> .user_mc_options <- options(OncoBayes2.MC.warmup=10, OncoBayes2.MC.iter=20, OncoBayes2.MC.chains=1) +> +> +> example_model("single_agent") +Running single_agent example: + + ## Example from Neuenschwander, B., et al. (2009). Stats in Medicine + + num_comp <- 1 # one investigational drug + num_inter <- 0 # no drug-drug interactions need to be modeled + num_groups <- nlevels(hist_SA$group_id) # no stratification needed + num_strata <- 1 # no stratification needed + + + dref <- 50 + + ## Since there is no prior information the hierarchical model + ## is not used in this example by setting tau to (almost) 0. + blrmfit <- blrm_exnex( + cbind(num_toxicities, num_patients - num_toxicities) ~ + 1 + log(drug_A / dref) | + 0 | + group_id, + data = hist_SA, + prior_EX_mu_mean_comp = matrix( + c(logit(1/2), # mean of intercept on logit scale + log(1)), # mean of log-slope on logit scale + nrow = num_comp, + ncol = 2 + ), + prior_EX_mu_sd_comp = matrix( + c(2, # sd of intercept + 1), # sd of log-slope + nrow = num_comp, + ncol = 2 + ), + ## Here we take tau as known and as zero. + ## This disables the hierarchical prior which is + ## not required in this example as we analyze a + ## single trial. + prior_EX_tau_mean_comp = matrix( + c(0, 0), + nrow = num_comp, + ncol = 2 + ), + prior_EX_tau_sd_comp = matrix( + c(1, 1), + nrow = num_comp, + ncol = 2 + ), + prior_EX_prob_comp = matrix(1, nrow = num_comp, ncol = 1), + prior_tau_dist = 0, + prior_PD = FALSE + ) + +Warning: The largest R-hat is NA, indicating chains have not mixed. +Running the chains for more iterations may help. See +http://mc-stan.org/misc/warnings.html#r-hat +Warning: Bulk Effective Samples Size (ESS) is too low, indicating posterior means and medians may be unreliable. +Running the chains for more iterations may help. See +http://mc-stan.org/misc/warnings.html#bulk-ess +Warning: Tail Effective Samples Size (ESS) is too low, indicating posterior variances and tail quantiles may be unreliable. +Running the chains for more iterations may help. See +http://mc-stan.org/misc/warnings.html#tail-ess +> +> post_pred <- posterior_predict(blrmfit) +> ## turn DLT counts into DLT rates +> post_pred_rate <- sweep(post_pred, 2, hist_SA$num_patients, "/") +> +> library(bayesplot) +This is bayesplot version 1.7.2 +- Online documentation and vignettes at mc-stan.org/bayesplot +- bayesplot theme set to bayesplot::theme_default() + * Does _not_ affect other ggplot2 plots + * See ?bayesplot_theme_set for details on theme setting +> library(ggplot2) +> +> ## compare posterior predictive of the model for the response rates +> ## with observed data +> with(hist_SA, ++ ppc_intervals(num_toxicities / num_patients, post_pred_rate, x=drug_A, prob_outer=0.95)) + ++ xlab("Dose [mg]") +Error in loadNamespace(name) : there is no package called ‘labeling’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘introduction.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 1 ERROR, 1 WARNING, 3 NOTEs -## Installation -### Devel -``` -* installing *source* package ‘rnaseqGene’ ... -** using staged installation -** inst -** help -No man pages found in package ‘rnaseqGene’ -*** installing help indices -** building package indices -** installing vignettes -** testing if installed package can be loaded from temporary location -Error: package or namespace load failed for 'EDASeq' in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): - there is no package called 'DESeq' -Error : package 'EDASeq' could not be loaded -Error: loading failed -Execution halted -ERROR: loading failed -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/rnaseqGene/new/rnaseqGene.Rcheck/rnaseqGene’ -``` -### CRAN -``` -* installing *source* package ‘rnaseqGene’ ... -** using staged installation -** inst -** help -No man pages found in package ‘rnaseqGene’ -*** installing help indices -** building package indices -** installing vignettes -** testing if installed package can be loaded from temporary location -Error: package or namespace load failed for 'EDASeq' in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): - there is no package called 'DESeq' -Error : package 'EDASeq' could not be loaded -Error: loading failed -Execution halted -ERROR: loading failed -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/rnaseqGene/old/rnaseqGene.Rcheck/rnaseqGene’ ``` -# RSSL +# PAutilities
-* Version: 0.9.1 -* Source code: https://github.com/cran/RSSL -* URL: http://www.github.com/jkrijthe/RSSL -* BugReports: http://www.github.com/jkrijthe/RSSL -* Date/Publication: 2020-02-04 10:20:07 UTC -* Number of recursive dependencies: 74 +* Version: 1.0.1 +* Source code: https://github.com/cran/PAutilities +* URL: https://github.com/paulhibbing/PAutilities +* BugReports: https://github.com/paulhibbing/PAutilities/issues +* Date/Publication: 2020-05-17 05:00:27 UTC +* Number of recursive dependencies: 86 -Run `revdep_details(,"RSSL")` for more info +Run `cloud_details(, "PAutilities")` for more info
-## In both +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/PAutilities/new/PAutilities.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PAutilities/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PAutilities’ version ‘1.0.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘PAutilities’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘tpm.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: OK + -* checking whether package ‘RSSL’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/RSSL/new/RSSL.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘RSSL’ ... -** package ‘RSSL’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c GRFClassifier.cpp -o GRFClassifier.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c Rsvm.c -o Rsvm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ssl.cpp -o ssl.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c svm.cpp -o svm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c svmlin_rcpp.cpp -o svmlin_rcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o RSSL.so GRFClassifier.o RcppExports.o Rsvm.o init.o ssl.o svm.o svmlin_rcpp.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [RSSL.so] Error 1 -ERROR: compilation failed for package ‘RSSL’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/RSSL/new/RSSL.Rcheck/RSSL’ ``` ### CRAN ``` -* installing *source* package ‘RSSL’ ... -** package ‘RSSL’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c GRFClassifier.cpp -o GRFClassifier.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c Rsvm.c -o Rsvm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -O3 -c init.c -o init.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ssl.cpp -o ssl.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c svm.cpp -o svm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c svmlin_rcpp.cpp -o svmlin_rcpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RSSL/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o RSSL.so GRFClassifier.o RcppExports.o Rsvm.o init.o ssl.o svm.o svmlin_rcpp.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [RSSL.so] Error 1 -ERROR: compilation failed for package ‘RSSL’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/RSSL/old/RSSL.Rcheck/RSSL’ - -``` -# RxODE +* using log directory ‘/tmp/workdir/PAutilities/old/PAutilities.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PAutilities/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PAutilities’ version ‘1.0.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘PAutilities’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘tpm.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: OK + + + + + + +``` +# PKNCA
-* Version: 0.9.2-0 -* Source code: https://github.com/cran/RxODE -* URL: https://nlmixrdevelopment.github.io/RxODE/ -* BugReports: https://github.com/nlmixrdevelopment/RxODE/issues -* Date/Publication: 2020-03-13 07:10:14 UTC -* Number of recursive dependencies: 132 +* Version: 0.9.3 +* Source code: https://github.com/cran/PKNCA +* URL: https://github.com/billdenney/pknca +* BugReports: https://github.com/billdenney/pknca/issues +* Date/Publication: 2020-04-12 20:00:02 UTC +* Number of recursive dependencies: 74 -Run `revdep_details(,"RxODE")` for more info +Run `cloud_details(, "PKNCA")` for more info
-## In both +## Error before installation -* checking whether package ‘RxODE’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/RxODE/new/RxODE.Rcheck/00install.out’ for details. - ``` +### Devel -* checking package dependencies ... NOTE - ``` - Packages suggested but not available for checking: - 'SnakeCharmR', 'installr' - ``` +``` +* using log directory ‘/tmp/workdir/PKNCA/new/PKNCA.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PKNCA/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PKNCA’ version ‘0.9.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages suggested but not available: 'ggplot2', 'rmarkdown' -## Installation +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -### Devel +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘RxODE’ ... -** package ‘RxODE’ successfully unpacked and MD5 sums checked -** using staged installation -checking for gcc... clang -mmacosx-version-min=10.13 -checking whether the C compiler works... yes -checking for C compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C compiler... yes -checking whether clang -mmacosx-version-min=10.13 accepts -g... yes -checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed -checking for clang -mmacosx-version-min=10.13 option to support OpenMP... unsupported -configure: creating ./config.status -config.status: creating src/Makevars ---------[begin src/Makevars]-------- -# -*- mode: makefile-gmake -*- -CXX_STD = CXX11 - -################################################################################ -## Package library flags. -PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) - -# Release options -PKG_CFLAGS = -D_isRxODE_ -PKG_CXXFLAGS = -D_isRxODE_ - - -SOURCES_C = call_dvode.c dop853.c tran.c omegaChol.c init.c par_solve.c cfode.c common.c corfailure.c correction.c daxpy.c ddot.c dgefa.c dgesl.c dscal.c fnorm.c idamax.c intdy.c lsoda.c methodswitch.c orderswitch.c prja.c scaleh.c solsy.c stoda.c vmnorm.c strdup_printf.c rprintf.c lincmt.c box.c -SOURCES_CPP = RcppExports.cpp WinDrive.cpp rxInv.cpp rxData.cpp etTran.cpp et.cpp rxStack.cpp cvPost.cpp -SOURCES_FORTAN = dlsoda.f opkda2.f - -OBJECTS = $(SOURCES_C:.c=.o) $(SOURCES_FORTAN:.f=.o) $(SOURCES_CPP:.cpp=.o) - -# strippedLib: $(SHLIB) -# if test -e "/usr/bin/strip"; then /usr/bin/strip -s $(SHLIB); fi - -.PHONY: all -# all: strippedLib -# $(SHLIB): mylibs -all: $(SHLIB) -# mylibs: -# $(CC) -I"$(R_INCLUDE_DIR)" $(CFLAGS) $(CPPFLAGS) $(SHLIB_CFLAGS) $(CPICFLAGS) -I../inst/include/ ../inst/include/RxODE_model.h || $(CC) --version - - ---------[end src/Makevars]-------- -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c call_dvode.c -o call_dvode.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dop853.c -o dop853.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c tran.c -o tran.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c omegaChol.c -o omegaChol.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c init.c -o init.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c par_solve.c -o par_solve.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c cfode.c -o cfode.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c common.c -o common.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c corfailure.c -o corfailure.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c correction.c -o correction.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c daxpy.c -o daxpy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c ddot.c -o ddot.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dgefa.c -o dgefa.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dgesl.c -o dgesl.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dscal.c -o dscal.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c fnorm.c -o fnorm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c idamax.c -o idamax.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c intdy.c -o intdy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c lsoda.c -o lsoda.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c methodswitch.c -o methodswitch.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c orderswitch.c -o orderswitch.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c prja.c -o prja.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c scaleh.c -o scaleh.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c solsy.c -o solsy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c stoda.c -o stoda.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c vmnorm.c -o vmnorm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c strdup_printf.c -o strdup_printf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c rprintf.c -o rprintf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c lincmt.c -o lincmt.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c box.c -o box.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c dlsoda.f -o dlsoda.o -dlsoda.f:705:0: - - 705 | IF (IREDO .EQ. 0) GO TO 690 - | -Warning: 'iredo' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:679:0: - - 679 | 170 RH = MAX(RH,HMIN/ABS(H)) - | -Warning: 'rh' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2874:0: - - 2874 | IF (IHIT) T = TCRIT - | -Warning: 'tcrit' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2874:0: Warning: 'ihit' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2615:0: - - 2615 | IF (H0 .NE. 0.0D0 .AND. (T + H0 - TCRIT)*H0 .GT. 0.0D0) - | -Warning: 'h0' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2537:0: - - 2537 | LEN1S = LEN1S + LENWM - | -Warning: 'lenwm' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2536:0: - - 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 - | -Warning: 'mu' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2536:0: Warning: 'ml' may be used uninitialized in this function [-Wmaybe-uninitialized] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c opkda2.f -o opkda2.o -opkda2.f:650:0: - - 650 | INTEGER FUNCTION IXSAV (IPAR, IVALUE, ISET) - | -Warning: '__result_ixsav' may be used uninitialized in this function [-Wmaybe-uninitialized] -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c WinDrive.cpp -o WinDrive.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c rxInv.cpp -o rxInv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c rxData.cpp -o rxData.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c etTran.cpp -o etTran.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c et.cpp -o et.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c rxStack.cpp -o rxStack.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c cvPost.cpp -o cvPost.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o RxODE.so call_dvode.o dop853.o tran.o omegaChol.o init.o par_solve.o cfode.o common.o corfailure.o correction.o daxpy.o ddot.o dgefa.o dgesl.o dscal.o fnorm.o idamax.o intdy.o lsoda.o methodswitch.o orderswitch.o prja.o scaleh.o solsy.o stoda.o vmnorm.o strdup_printf.o rprintf.o lincmt.o box.o dlsoda.o opkda2.o RcppExports.o WinDrive.o rxInv.o rxData.o etTran.o et.o rxStack.o cvPost.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [RxODE.so] Error 1 -ERROR: compilation failed for package ‘RxODE’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/RxODE/new/RxODE.Rcheck/RxODE’ -``` -### CRAN -``` -* installing *source* package ‘RxODE’ ... -** package ‘RxODE’ successfully unpacked and MD5 sums checked -** using staged installation -checking for gcc... clang -mmacosx-version-min=10.13 -checking whether the C compiler works... yes -checking for C compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C compiler... yes -checking whether clang -mmacosx-version-min=10.13 accepts -g... yes -checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed -checking for clang -mmacosx-version-min=10.13 option to support OpenMP... unsupported -configure: creating ./config.status -config.status: creating src/Makevars ---------[begin src/Makevars]-------- -# -*- mode: makefile-gmake -*- -CXX_STD = CXX11 - -################################################################################ -## Package library flags. -PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) - -# Release options -PKG_CFLAGS = -D_isRxODE_ -PKG_CXXFLAGS = -D_isRxODE_ - - -SOURCES_C = call_dvode.c dop853.c tran.c omegaChol.c init.c par_solve.c cfode.c common.c corfailure.c correction.c daxpy.c ddot.c dgefa.c dgesl.c dscal.c fnorm.c idamax.c intdy.c lsoda.c methodswitch.c orderswitch.c prja.c scaleh.c solsy.c stoda.c vmnorm.c strdup_printf.c rprintf.c lincmt.c box.c -SOURCES_CPP = RcppExports.cpp WinDrive.cpp rxInv.cpp rxData.cpp etTran.cpp et.cpp rxStack.cpp cvPost.cpp -SOURCES_FORTAN = dlsoda.f opkda2.f - -OBJECTS = $(SOURCES_C:.c=.o) $(SOURCES_FORTAN:.f=.o) $(SOURCES_CPP:.cpp=.o) - -# strippedLib: $(SHLIB) -# if test -e "/usr/bin/strip"; then /usr/bin/strip -s $(SHLIB); fi - -.PHONY: all -# all: strippedLib -# $(SHLIB): mylibs -all: $(SHLIB) -# mylibs: -# $(CC) -I"$(R_INCLUDE_DIR)" $(CFLAGS) $(CPPFLAGS) $(SHLIB_CFLAGS) $(CPICFLAGS) -I../inst/include/ ../inst/include/RxODE_model.h || $(CC) --version - - ---------[end src/Makevars]-------- -** libs -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c call_dvode.c -o call_dvode.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dop853.c -o dop853.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c tran.c -o tran.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c omegaChol.c -o omegaChol.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c init.c -o init.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c par_solve.c -o par_solve.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c cfode.c -o cfode.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c common.c -o common.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c corfailure.c -o corfailure.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c correction.c -o correction.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c daxpy.c -o daxpy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c ddot.c -o ddot.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dgefa.c -o dgefa.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dgesl.c -o dgesl.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c dscal.c -o dscal.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c fnorm.c -o fnorm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c idamax.c -o idamax.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c intdy.c -o intdy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c lsoda.c -o lsoda.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c methodswitch.c -o methodswitch.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c orderswitch.c -o orderswitch.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c prja.c -o prja.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c scaleh.c -o scaleh.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c solsy.c -o solsy.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c stoda.c -o stoda.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c vmnorm.c -o vmnorm.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c strdup_printf.c -o strdup_printf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c rprintf.c -o rprintf.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c lincmt.c -o lincmt.o -clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -O3 -c box.c -o box.o -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c dlsoda.f -o dlsoda.o -dlsoda.f:705:0: - - 705 | IF (IREDO .EQ. 0) GO TO 690 - | -Warning: 'iredo' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:679:0: - - 679 | 170 RH = MAX(RH,HMIN/ABS(H)) - | -Warning: 'rh' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2874:0: - - 2874 | IF (IHIT) T = TCRIT - | -Warning: 'tcrit' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2874:0: Warning: 'ihit' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2615:0: - - 2615 | IF (H0 .NE. 0.0D0 .AND. (T + H0 - TCRIT)*H0 .GT. 0.0D0) - | -Warning: 'h0' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2537:0: - - 2537 | LEN1S = LEN1S + LENWM - | -Warning: 'lenwm' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2536:0: - - 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 - | -Warning: 'mu' may be used uninitialized in this function [-Wmaybe-uninitialized] -dlsoda.f:2536:0: Warning: 'ml' may be used uninitialized in this function [-Wmaybe-uninitialized] -gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c opkda2.f -o opkda2.o -opkda2.f:650:0: - - 650 | INTEGER FUNCTION IXSAV (IPAR, IVALUE, ISET) - | -Warning: '__result_ixsav' may be used uninitialized in this function [-Wmaybe-uninitialized] -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c WinDrive.cpp -o WinDrive.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c rxInv.cpp -o rxInv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c rxData.cpp -o rxData.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c etTran.cpp -o etTran.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c et.cpp -o et.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c rxStack.cpp -o rxStack.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/dparser/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/RxODE/PreciseSums/include' -I/usr/local/include -D_isRxODE_ -fPIC -Wall -O3 -c cvPost.cpp -o cvPost.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o RxODE.so call_dvode.o dop853.o tran.o omegaChol.o init.o par_solve.o cfode.o common.o corfailure.o correction.o daxpy.o ddot.o dgefa.o dgesl.o dscal.o fnorm.o idamax.o intdy.o lsoda.o methodswitch.o orderswitch.o prja.o scaleh.o solsy.o stoda.o vmnorm.o strdup_printf.o rprintf.o lincmt.o box.o dlsoda.o opkda2.o RcppExports.o WinDrive.o rxInv.o rxData.o etTran.o et.o rxStack.o cvPost.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [RxODE.so] Error 1 -ERROR: compilation failed for package ‘RxODE’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/RxODE/old/RxODE.Rcheck/RxODE’ - -``` -# sarima -
-* Version: 0.8.2 -* Source code: https://github.com/cran/sarima -* URL: https://github.com/GeoBosh/sarima https://geobosh.github.io/sarima/ -* BugReports: https://github.com/GeoBosh/sarima/issues -* Date/Publication: 2020-03-02 10:30:02 UTC -* Number of recursive dependencies: 73 -Run `revdep_details(,"sarima")` for more info +``` +### CRAN -
+``` +* using log directory ‘/tmp/workdir/PKNCA/old/PKNCA.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PKNCA/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PKNCA’ version ‘0.9.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages suggested but not available: 'ggplot2', 'rmarkdown' -## In both +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘sarima’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/sarima/new/sarima.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘sarima’ ... -** package ‘sarima’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Kalman0b.cpp -o Kalman0b.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c arimaQ0.cpp -o arimaQ0.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o sarima.so Kalman0b.o RcppExports.o arimaQ0.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [sarima.so] Error 1 -ERROR: compilation failed for package ‘sarima’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/sarima/new/sarima.Rcheck/sarima’ -``` -### CRAN ``` -* installing *source* package ‘sarima’ ... -** package ‘sarima’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Kalman0b.cpp -o Kalman0b.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c arimaQ0.cpp -o arimaQ0.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/sarima/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c utils.cpp -o utils.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o sarima.so Kalman0b.o RcppExports.o arimaQ0.o utils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [sarima.so] Error 1 -ERROR: compilation failed for package ‘sarima’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/sarima/old/sarima.Rcheck/sarima’ - -``` -# scanstatistics +# PKPDmisc
-* Version: 1.0.1 -* Source code: https://github.com/cran/scanstatistics -* URL: https://github.com/BenjaK/scanstatistics -* BugReports: https://github.com/BenjaK/scanstatistics/issues -* Date/Publication: 2018-01-24 12:37:44 UTC -* Number of recursive dependencies: 83 +* Version: 2.1.2 +* Source code: https://github.com/cran/PKPDmisc +* URL: https://github.com/metrumresearchgroup/PKPDmisc +* BugReports: https://github.com/metrumresearchgroup/PKPDmisc/issues +* Date/Publication: 2020-04-07 15:40:16 UTC +* Number of recursive dependencies: 70 -Run `revdep_details(,"scanstatistics")` for more info +Run `cloud_details(, "PKPDmisc")` for more info
-## In both - -* checking whether package ‘scanstatistics’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scanstatistics/new/scanstatistics.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘scanstatistics’ ... -** package ‘scanstatistics’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c probability_functions.cpp -o probability_functions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_bayes_negbin.cpp -o scan_bayes_negbin.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_eb_negbin.cpp -o scan_eb_negbin.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_eb_poisson.cpp -o scan_eb_poisson.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_eb_zip.cpp -o scan_eb_zip.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_pb_perm.cpp -o scan_pb_perm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_pb_poisson.cpp -o scan_pb_poisson.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_utility.cpp -o scan_utility.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o scanstatistics.so RcppExports.o probability_functions.o scan_bayes_negbin.o scan_eb_negbin.o scan_eb_poisson.o scan_eb_zip.o scan_pb_perm.o scan_pb_poisson.o scan_utility.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [scanstatistics.so] Error 1 -ERROR: compilation failed for package ‘scanstatistics’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scanstatistics/new/scanstatistics.Rcheck/scanstatistics’ -``` -### CRAN -``` -* installing *source* package ‘scanstatistics’ ... -** package ‘scanstatistics’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c probability_functions.cpp -o probability_functions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_bayes_negbin.cpp -o scan_bayes_negbin.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_eb_negbin.cpp -o scan_eb_negbin.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_eb_poisson.cpp -o scan_eb_poisson.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_eb_zip.cpp -o scan_eb_zip.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_pb_perm.cpp -o scan_pb_perm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_pb_poisson.cpp -o scan_pb_poisson.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scanstatistics/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scan_utility.cpp -o scan_utility.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o scanstatistics.so RcppExports.o probability_functions.o scan_bayes_negbin.o scan_eb_negbin.o scan_eb_poisson.o scan_eb_zip.o scan_pb_perm.o scan_pb_poisson.o scan_utility.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [scanstatistics.so] Error 1 -ERROR: compilation failed for package ‘scanstatistics’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scanstatistics/old/scanstatistics.Rcheck/scanstatistics’ - -``` -# scfind -
-* Version: 1.9.0 -* Source code: https://github.com/cran/scfind -* URL: https://github.com/hemberg-lab/scfind -* BugReports: https://support.bioconductor.org/t/scfind/ -* Date/Publication: 2019-10-29 -* Number of recursive dependencies: 70 -Run `revdep_details(,"scfind")` for more info -
+``` +### CRAN -## In both +``` -* checking whether package ‘scfind’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scfind/new/scfind.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘scfind’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scfind/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scfind/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c eliasFano.cpp -o eliasFano.o -eliasFano.cpp:8:9: warning: unused variable 'rem' [-Wunused-variable] - int rem; - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o scfind.so RcppExports.o eliasFano.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [scfind.so] Error 1 -ERROR: compilation failed for package ‘scfind’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scfind/new/scfind.Rcheck/scfind’ -``` -### CRAN ``` -* installing *source* package ‘scfind’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c eliasFano.cpp -o eliasFano.o -eliasFano.cpp:8:9: warning: unused variable 'rem' [-Wunused-variable] - int rem; - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o scfind.so RcppExports.o eliasFano.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [scfind.so] Error 1 -ERROR: compilation failed for package ‘scfind’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scfind/old/scfind.Rcheck/scfind’ - -``` -# scGPS +# PML
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 1.2 +* Source code: https://github.com/cran/PML +* URL: https://github.com/xinyue-L/PML +* BugReports: https://github.com/xinyue-L/PML/issues +* Date/Publication: 2020-02-11 12:20:02 UTC +* Number of recursive dependencies: 78 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "PML")` for more info
@@ -9775,19 +5285,26 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/PML/new/PML.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PML/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PML’ version ‘1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘rbokeh’ - There are binary versions available but the source versions are later: - binary source needs_compilation -RcppParallel 5.0.0 5.0.1 TRUE -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed - These will not be installed -Package which is only available in source form, and may need - compilation of C/C++/Fortran: ‘DESeq’ -installing the source package ‘reactome.db’ @@ -9795,571 +5312,305 @@ installing the source package ‘reactome.db’ ### CRAN ``` +* using log directory ‘/tmp/workdir/PML/old/PML.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PML/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PML’ version ‘1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘rbokeh’ - There are binary versions available but the source versions are later: - binary source needs_compilation -RcppParallel 5.0.0 5.0.1 TRUE -tidyr 1.0.2 1.0.3 TRUE +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR - Binaries will be installed - These will not be installed -Package which is only available in source form, and may need - compilation of C/C++/Fortran: ‘DESeq’ -installing the source package ‘reactome.db’ ``` -# scmap +# PupilPre
-* Version: 1.10.0 -* Source code: https://github.com/cran/scmap -* URL: https://github.com/hemberg-lab/scmap -* BugReports: https://support.bioconductor.org/t/scmap/ -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 87 +* Version: 0.6.2 +* Source code: https://github.com/cran/PupilPre +* Date/Publication: 2020-03-10 05:20:02 UTC +* Number of recursive dependencies: 78 -Run `revdep_details(,"scmap")` for more info +Run `cloud_details(, "PupilPre")` for more info
-## In both - -* checking whether package ‘scmap’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scmap/new/scmap.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘scmap’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scmap/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scmap/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scmap/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scmap/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scmap.cpp -o scmap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o scmap.so RcppExports.o scmap.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [scmap.so] Error 1 -ERROR: compilation failed for package ‘scmap’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scmap/new/scmap.Rcheck/scmap’ +* using log directory ‘/tmp/workdir/PupilPre/new/PupilPre.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PupilPre/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PupilPre’ version ‘0.6.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘scmap’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scmap/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/scmap/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c scmap.cpp -o scmap.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o scmap.so RcppExports.o scmap.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [scmap.so] Error 1 -ERROR: compilation failed for package ‘scmap’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/scmap/old/scmap.Rcheck/scmap’ -``` -# SCORPIUS -
-* Version: 1.0.6 -* Source code: https://github.com/cran/SCORPIUS -* URL: http://github.com/rcannood/SCORPIUS -* BugReports: https://github.com/rcannood/SCORPIUS/issues -* Date/Publication: 2020-03-16 16:20:02 UTC -* Number of recursive dependencies: 116 -Run `revdep_details(,"SCORPIUS")` for more info -
+``` +### CRAN -## Newly broken +``` +* using log directory ‘/tmp/workdir/PupilPre/old/PupilPre.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘PupilPre/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘PupilPre’ version ‘0.6.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -* checking whether package ‘SCORPIUS’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SCORPIUS/new/SCORPIUS.Rcheck/00install.out’ for details. - ``` +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -## Installation -### Devel -``` -* installing *source* package ‘SCORPIUS’ ... -** package ‘SCORPIUS’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: object ‘as.tbl_cube’ is not exported by 'namespace:dplyr' -Execution halted -ERROR: lazy loading failed for package ‘SCORPIUS’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SCORPIUS/new/SCORPIUS.Rcheck/SCORPIUS’ -``` -### CRAN -``` -* installing *source* package ‘SCORPIUS’ ... -** package ‘SCORPIUS’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -** help -*** installing help indices -*** copying figures -** building package indices -** installing vignettes -** testing if installed package can be loaded from temporary location -** testing if installed package can be loaded from final location -** testing if installed package keeps a record of temporary installation path -* DONE (SCORPIUS) ``` -# SCPME +# R2019nCoV
-* Version: 1.0 -* Source code: https://github.com/cran/SCPME -* URL: https://github.com/MGallow/SCPME -* BugReports: https://github.com/MGallow/SCPME/issues -* Date/Publication: 2018-08-13 09:00:09 UTC -* Number of recursive dependencies: 84 +* Version: 0.1.0 +* Source code: https://github.com/cran/R2019nCoV +* Date/Publication: 2020-02-29 13:40:09 UTC +* Number of recursive dependencies: 72 -Run `revdep_details(,"SCPME")` for more info +Run `cloud_details(, "R2019nCoV")` for more info
-## In both - -* checking whether package ‘SCPME’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SCPME/new/SCPME.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘SCPME’ ... -** package ‘SCPME’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c ADMM.cpp -o ADMM.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CV.cpp -o CV.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CVP.cpp -o CVP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c soft.cpp -o soft.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o SCPME.so ADMM.o CV.o CVP.o RcppExports.o soft.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [SCPME.so] Error 1 -ERROR: compilation failed for package ‘SCPME’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SCPME/new/SCPME.Rcheck/SCPME’ - -``` -### CRAN -``` -* installing *source* package ‘SCPME’ ... -** package ‘SCPME’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c ADMM.cpp -o ADMM.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CV.cpp -o CV.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c CVP.cpp -o CVP.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SCPME/RcppProgress/include' -I/usr/local/include -fPIC -Wall -O3 -c soft.cpp -o soft.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o SCPME.so ADMM.o CV.o CVP.o RcppExports.o soft.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [SCPME.so] Error 1 -ERROR: compilation failed for package ‘SCPME’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SCPME/old/SCPME.Rcheck/SCPME’ - -``` -# selectKSigs -
-* Version: 1.0.0 -* Source code: https://github.com/cran/selectKSigs -* URL: https://github.com/USCbiostats/selectKSigs -* BugReports: https://github.com/USCbiostats/HiLDA/selectKSigs -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 126 -Run `revdep_details(,"selectKSigs")` for more info -
-## In both +``` +### CRAN -* checking whether package ‘selectKSigs’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/selectKSigs/new/selectKSigs.Rcheck/00install.out’ for details. - ``` +``` -## Installation -### Devel -``` -* installing *source* package ‘selectKSigs’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c EMalgorithm.cpp -o EMalgorithm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c convertFromToVector.cpp -o convertFromToVector.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o selectKSigs.so EMalgorithm.o RcppExports.o convertFromToVector.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -installing to /Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/selectKSigs/new/selectKSigs.Rcheck/00LOCK-selectKSigs/00new/selectKSigs/libs -** R -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘selectKSigs’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/selectKSigs/new/selectKSigs.Rcheck/selectKSigs’ -``` -### CRAN -``` -* installing *source* package ‘selectKSigs’ ... -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c EMalgorithm.cpp -o EMalgorithm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I/usr/local/include -fPIC -Wall -O3 -c convertFromToVector.cpp -o convertFromToVector.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o selectKSigs.so EMalgorithm.o RcppExports.o convertFromToVector.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -installing to /Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/selectKSigs/old/selectKSigs.Rcheck/00LOCK-selectKSigs/00new/selectKSigs/libs -** R -** inst -** byte-compile and prepare package for lazy loading -Error: .onLoad failed in loadNamespace() for 'rjags', details: - call: dyn.load(file, DLLpath = DLLpath, ...) - error: unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/rjags/libs/rjags.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/rjags/libs/rjags.so, 10): Library not loaded: /usr/local/lib/libjags.4.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/selectKSigs/rjags/libs/rjags.so - Reason: image not found -Execution halted -ERROR: lazy loading failed for package ‘selectKSigs’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/selectKSigs/old/selectKSigs.Rcheck/selectKSigs’ ``` -# SimBIID +# RClickhouse
-* Version: 0.1.4 -* Source code: https://github.com/cran/SimBIID -* URL: https://github.com/tjmckinley/SimBIID -* BugReports: https://github.com/tjmckinley/SimBIID/issues -* Date/Publication: 2020-03-03 11:40:05 UTC -* Number of recursive dependencies: 62 +* Version: 0.5.2 +* Source code: https://github.com/cran/RClickhouse +* URL: https://github.com/IMSMWU/RClickhouse +* BugReports: https://github.com/IMSMWU/RClickhouse/issues +* Date/Publication: 2020-03-06 15:30:02 UTC +* Number of recursive dependencies: 41 -Run `revdep_details(,"SimBIID")` for more info +Run `cloud_details(, "RClickhouse")` for more info
-## In both - -* checking whether package ‘SimBIID’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SimBIID/new/SimBIID.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘SimBIID’ ... -** package ‘SimBIID’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c adaptUpdate.cpp -o adaptUpdate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bootstrapParticleFilter.cpp -o bootstrapParticleFilter.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bootstrapParticleFilterState.cpp -o bootstrapParticleFilterState.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c cholArma.cpp -o cholArma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c mvrnormArma.cpp -o mvrnormArma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pmcmc.cpp -o pmcmc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o SimBIID.so RcppExports.o adaptUpdate.o bootstrapParticleFilter.o bootstrapParticleFilterState.o cholArma.o mvrnormArma.o pmcmc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [SimBIID.so] Error 1 -ERROR: compilation failed for package ‘SimBIID’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SimBIID/new/SimBIID.Rcheck/SimBIID’ +* using log directory ‘/tmp/workdir/RClickhouse/new/RClickhouse.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘RClickhouse/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘RClickhouse’ version ‘0.5.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dbplyr’ -``` -### CRAN +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -* installing *source* package ‘SimBIID’ ... -** package ‘SimBIID’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c adaptUpdate.cpp -o adaptUpdate.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bootstrapParticleFilter.cpp -o bootstrapParticleFilter.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bootstrapParticleFilterState.cpp -o bootstrapParticleFilterState.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c cholArma.cpp -o cholArma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c mvrnormArma.cpp -o mvrnormArma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SimBIID/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pmcmc.cpp -o pmcmc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o SimBIID.so RcppExports.o adaptUpdate.o bootstrapParticleFilter.o bootstrapParticleFilterState.o cholArma.o mvrnormArma.o pmcmc.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [SimBIID.so] Error 1 -ERROR: compilation failed for package ‘SimBIID’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SimBIID/old/SimBIID.Rcheck/SimBIID’ - -``` -# simts -
-* Version: 0.1.1 -* Source code: https://github.com/cran/simts -* URL: https://github.com/SMAC-Group/simts, https://arxiv.org/pdf/1607.04543.pdf -* BugReports: https://github.com/SMAC-Group/simts/issues -* Date/Publication: 2019-07-21 22:20:02 UTC -* Number of recursive dependencies: 53 -Run `revdep_details(,"simts")` for more info -
-## In both +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/RClickhouse/old/RClickhouse.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘RClickhouse/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘RClickhouse’ version ‘0.5.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dbplyr’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether package ‘simts’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/simts/new/simts.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel -``` -* installing *source* package ‘simts’ ... -** package ‘simts’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c additional_moments.cpp -o additional_moments.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c analytical_matrix_derivatives.cpp -o analytical_matrix_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c arima_gmwm.cpp -o arima_gmwm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c armadillo_manipulations.cpp -o armadillo_manipulations.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c automatic_models.cpp -o automatic_models.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bootstrappers.cpp -o bootstrappers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c complex_tools.cpp -o complex_tools.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c covariance_matrix.cpp -o covariance_matrix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c dwt.cpp -o dwt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gen_process.cpp -o gen_process.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gmwm_logic.cpp -o gmwm_logic.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c guess_values.cpp -o guess_values.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c idf_example.cpp -o idf_example.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c inference.cpp -o inference.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c lm.cpp -o lm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c model_selection.cpp -o model_selection.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c obj_mod.cpp -o obj_mod.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c objective_functions.cpp -o objective_functions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c polyroot.cpp -o polyroot.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c process_to_wv.cpp -o process_to_wv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c read_imu.cpp -o read_imu.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c robust_components.cpp -o robust_components.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rtoarmadillo.cpp -o rtoarmadillo.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rtruncated_normal.cpp -o rtruncated_normal.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sampler.cpp -o sampler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sarma.cpp -o sarma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c summary_inf_mod.cpp -o summary_inf_mod.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c transform_data.cpp -o transform_data.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ts_checks.cpp -o ts_checks.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ts_model_cpp.cpp -o ts_model_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c wave_variance.cpp -o wave_variance.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c wv_filters.cpp -o wv_filters.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o simts.so RcppExports.o additional_moments.o analytical_matrix_derivatives.o arima_gmwm.o armadillo_manipulations.o automatic_models.o bootstrappers.o complex_tools.o covariance_matrix.o dwt.o gen_process.o gmwm_logic.o guess_values.o idf_example.o inference.o lm.o model_selection.o obj_mod.o objective_functions.o polyroot.o process_to_wv.o read_imu.o robust_components.o rtoarmadillo.o rtruncated_normal.o sampler.o sarma.o summary_inf_mod.o transform_data.o ts_checks.o ts_model_cpp.o wave_variance.o wv_filters.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [simts.so] Error 1 -ERROR: compilation failed for package ‘simts’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/simts/new/simts.Rcheck/simts’ -``` -### CRAN ``` -* installing *source* package ‘simts’ ... -** package ‘simts’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c additional_moments.cpp -o additional_moments.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c analytical_matrix_derivatives.cpp -o analytical_matrix_derivatives.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c arima_gmwm.cpp -o arima_gmwm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c armadillo_manipulations.cpp -o armadillo_manipulations.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c automatic_models.cpp -o automatic_models.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bootstrappers.cpp -o bootstrappers.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c complex_tools.cpp -o complex_tools.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c covariance_matrix.cpp -o covariance_matrix.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c dwt.cpp -o dwt.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gen_process.cpp -o gen_process.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c gmwm_logic.cpp -o gmwm_logic.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c guess_values.cpp -o guess_values.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c idf_example.cpp -o idf_example.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c inference.cpp -o inference.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c lm.cpp -o lm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c model_selection.cpp -o model_selection.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c obj_mod.cpp -o obj_mod.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c objective_functions.cpp -o objective_functions.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c polyroot.cpp -o polyroot.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c process_to_wv.cpp -o process_to_wv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c read_imu.cpp -o read_imu.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c robust_components.cpp -o robust_components.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rtoarmadillo.cpp -o rtoarmadillo.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c rtruncated_normal.cpp -o rtruncated_normal.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sampler.cpp -o sampler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sarma.cpp -o sarma.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c summary_inf_mod.cpp -o summary_inf_mod.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c transform_data.cpp -o transform_data.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ts_checks.cpp -o ts_checks.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ts_model_cpp.cpp -o ts_model_cpp.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c wave_variance.cpp -o wave_variance.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/simts/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c wv_filters.cpp -o wv_filters.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o simts.so RcppExports.o additional_moments.o analytical_matrix_derivatives.o arima_gmwm.o armadillo_manipulations.o automatic_models.o bootstrappers.o complex_tools.o covariance_matrix.o dwt.o gen_process.o gmwm_logic.o guess_values.o idf_example.o inference.o lm.o model_selection.o obj_mod.o objective_functions.o polyroot.o process_to_wv.o read_imu.o robust_components.o rtoarmadillo.o rtruncated_normal.o sampler.o sarma.o summary_inf_mod.o transform_data.o ts_checks.o ts_model_cpp.o wave_variance.o wv_filters.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [simts.so] Error 1 -ERROR: compilation failed for package ‘simts’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/simts/old/simts.Rcheck/simts’ - -``` -# SpaCCr +# RCzechia
-* Version: 0.1.0 -* Source code: https://github.com/cran/SpaCCr -* Date/Publication: 2016-11-23 09:38:35 -* Number of recursive dependencies: 55 +* Version: 1.5.0 +* Source code: https://github.com/cran/RCzechia +* URL: https://github.com/jlacko/RCzechia +* BugReports: https://github.com/jlacko/RCzechia/issues +* Date/Publication: 2020-05-04 11:40:12 UTC +* Number of recursive dependencies: 111 -Run `revdep_details(,"SpaCCr")` for more info +Run `cloud_details(, "RCzechia")` for more info
-## In both - -* checking whether package ‘SpaCCr’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SpaCCr/new/SpaCCr.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘SpaCCr’ ... -** package ‘SpaCCr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SpaCCr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SpaCCr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SpaCCr/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SpaCCr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c SpaCC.cpp -o SpaCC.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o SpaCCr.so RcppExports.o SpaCC.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [SpaCCr.so] Error 1 -ERROR: compilation failed for package ‘SpaCCr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SpaCCr/new/SpaCCr.Rcheck/SpaCCr’ +* using log directory ‘/tmp/workdir/RCzechia/new/RCzechia.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘RCzechia/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘RCzechia’ version ‘1.5.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘SpaCCr’ ... -** package ‘SpaCCr’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SpaCCr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/SpaCCr/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c SpaCC.cpp -o SpaCC.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o SpaCCr.so RcppExports.o SpaCC.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [SpaCCr.so] Error 1 -ERROR: compilation failed for package ‘SpaCCr’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/SpaCCr/old/SpaCCr.Rcheck/SpaCCr’ +* using log directory ‘/tmp/workdir/RCzechia/old/RCzechia.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘RCzechia/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘RCzechia’ version ‘1.5.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` -# stcos +# rdflib
-* Version: 0.2.1 -* Source code: https://github.com/cran/stcos -* URL: https://github.com/holans/ST-COS -* Date/Publication: 2019-12-06 06:10:02 UTC -* Number of recursive dependencies: 33 +* Version: 0.2.3 +* Source code: https://github.com/cran/rdflib +* URL: https://github.com/ropensci/rdflib +* BugReports: https://github.com/ropensci/rdflib/issues +* Date/Publication: 2020-01-10 04:10:02 UTC +* Number of recursive dependencies: 80 -Run `revdep_details(,"stcos")` for more info +Run `cloud_details(, "rdflib")` for more info
## In both -* checking whether package ‘stcos’ can be installed ... ERROR +* checking whether package ‘rdflib’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/stcos/new/stcos.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/rdflib/new/rdflib.Rcheck/00install.out’ for details. ``` ## Installation @@ -10367,70 +5618,59 @@ Run `revdep_details(,"stcos")` for more info ### Devel ``` -* installing *source* package ‘stcos’ ... -** package ‘stcos’ successfully unpacked and MD5 sums checked +* installing *source* package ‘rdflib’ ... +** package ‘rdflib’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bisquare_basis.cpp -o bisquare_basis.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c eig.cpp -o eig.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pinv.cpp -o pinv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sample_Gamma0_VAR1.cpp -o sample_Gamma0_VAR1.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c seq_int.cpp -o seq_int.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o stcos.so RcppExports.o bisquare_basis.o eig.o pinv.o sample_Gamma0_VAR1.o seq_int.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [stcos.so] Error 1 -ERROR: compilation failed for package ‘stcos’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/stcos/new/stcos.Rcheck/stcos’ +** R +** inst +** byte-compile and prepare package for lazy loading +Error in dyn.load(file, DLLpath = DLLpath, ...) : + unable to load shared object '/opt/R/3.6.3/lib/R/library/redland/libs/redland.so': + librdf.so.0: cannot open shared object file: No such file or directory +Calls: ... asNamespace -> loadNamespace -> library.dynam -> dyn.load +Execution halted +ERROR: lazy loading failed for package ‘rdflib’ +* removing ‘/tmp/workdir/rdflib/new/rdflib.Rcheck/rdflib’ ``` ### CRAN ``` -* installing *source* package ‘stcos’ ... -** package ‘stcos’ successfully unpacked and MD5 sums checked +* installing *source* package ‘rdflib’ ... +** package ‘rdflib’ successfully unpacked and MD5 sums checked ** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c bisquare_basis.cpp -o bisquare_basis.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c eig.cpp -o eig.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c pinv.cpp -o pinv.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c sample_Gamma0_VAR1.cpp -o sample_Gamma0_VAR1.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/stcos/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c seq_int.cpp -o seq_int.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o stcos.so RcppExports.o bisquare_basis.o eig.o pinv.o sample_Gamma0_VAR1.o seq_int.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [stcos.so] Error 1 -ERROR: compilation failed for package ‘stcos’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/stcos/old/stcos.Rcheck/stcos’ - -``` -# TCGAbiolinks +** R +** inst +** byte-compile and prepare package for lazy loading +Error in dyn.load(file, DLLpath = DLLpath, ...) : + unable to load shared object '/opt/R/3.6.3/lib/R/library/redland/libs/redland.so': + librdf.so.0: cannot open shared object file: No such file or directory +Calls: ... asNamespace -> loadNamespace -> library.dynam -> dyn.load +Execution halted +ERROR: lazy loading failed for package ‘rdflib’ +* removing ‘/tmp/workdir/rdflib/old/rdflib.Rcheck/rdflib’ + +``` +# RDML
-* Version: 2.16.0 -* Source code: https://github.com/cran/TCGAbiolinks -* URL: https://github.com/BioinformaticsFMRP/TCGAbiolinks -* BugReports: https://github.com/BioinformaticsFMRP/TCGAbiolinks/issues -* Date/Publication: 2020-05-06 -* Number of recursive dependencies: 293 +* Version: 1.0 +* Source code: https://github.com/cran/RDML +* URL: https://github.com/kablag/RDML +* Date/Publication: 2019-06-25 11:40:10 UTC +* Number of recursive dependencies: 122 -Run `revdep_details(,"TCGAbiolinks")` for more info +Run `cloud_details(, "RDML")` for more info
## In both -* checking whether package ‘TCGAbiolinks’ can be installed ... ERROR +* checking whether package ‘RDML’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/RDML/new/RDML.Rcheck/00install.out’ for details. ``` ## Installation @@ -10438,58 +5678,58 @@ Run `revdep_details(,"TCGAbiolinks")` for more info ### Devel ``` -* installing *source* package ‘TCGAbiolinks’ ... +* installing *source* package ‘RDML’ ... +** package ‘RDML’ successfully unpacked and MD5 sums checked ** using staged installation ** R -** data -*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘DESeq’ +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘stringi’ Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted -ERROR: lazy loading failed for package ‘TCGAbiolinks’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/TCGAbiolinks’ +ERROR: lazy loading failed for package ‘RDML’ +* removing ‘/tmp/workdir/RDML/new/RDML.Rcheck/RDML’ ``` ### CRAN ``` -* installing *source* package ‘TCGAbiolinks’ ... +* installing *source* package ‘RDML’ ... +** package ‘RDML’ successfully unpacked and MD5 sums checked ** using staged installation ** R -** data -*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘DESeq’ +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘stringi’ Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted -ERROR: lazy loading failed for package ‘TCGAbiolinks’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TCGAbiolinks/old/TCGAbiolinks.Rcheck/TCGAbiolinks’ +ERROR: lazy loading failed for package ‘RDML’ +* removing ‘/tmp/workdir/RDML/old/RDML.Rcheck/RDML’ ``` -# TCGAbiolinksGUI +# SDLfilter
-* Version: 1.14.0 -* Source code: https://github.com/cran/TCGAbiolinksGUI -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 325 +* Version: 2.0.0 +* Source code: https://github.com/cran/SDLfilter +* URL: https://github.com/TakahiroShimada/SDLfilter +* BugReports: https://github.com/TakahiroShimada/SDLfilter/issues +* Date/Publication: 2020-05-04 13:40:06 UTC +* Number of recursive dependencies: 116 -Run `revdep_details(,"TCGAbiolinksGUI")` for more info +Run `cloud_details(, "SDLfilter")` for more info
## In both -* checking whether package ‘TCGAbiolinksGUI’ can be installed ... ERROR +* checking whether package ‘SDLfilter’ can be installed ... ERROR ``` Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TCGAbiolinksGUI/new/TCGAbiolinksGUI.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/SDLfilter/new/SDLfilter.Rcheck/00install.out’ for details. ``` ## Installation @@ -10497,2232 +5737,272 @@ Run `revdep_details(,"TCGAbiolinksGUI")` for more info ### Devel ``` -* installing *source* package ‘TCGAbiolinksGUI’ ... +* installing *source* package ‘SDLfilter’ ... +** package ‘SDLfilter’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called 'DESeq' +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘FNN’ Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted -ERROR: lazy loading failed for package ‘TCGAbiolinksGUI’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TCGAbiolinksGUI/new/TCGAbiolinksGUI.Rcheck/TCGAbiolinksGUI’ +ERROR: lazy loading failed for package ‘SDLfilter’ +* removing ‘/tmp/workdir/SDLfilter/new/SDLfilter.Rcheck/SDLfilter’ ``` ### CRAN ``` -* installing *source* package ‘TCGAbiolinksGUI’ ... +* installing *source* package ‘SDLfilter’ ... +** package ‘SDLfilter’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called 'DESeq' +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘FNN’ Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted -ERROR: lazy loading failed for package ‘TCGAbiolinksGUI’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TCGAbiolinksGUI/old/TCGAbiolinksGUI.Rcheck/TCGAbiolinksGUI’ +ERROR: lazy loading failed for package ‘SDLfilter’ +* removing ‘/tmp/workdir/SDLfilter/old/SDLfilter.Rcheck/SDLfilter’ ``` -# telefit +# SimDesign
-* Version: 1.0.3 -* Source code: https://github.com/cran/telefit -* Date/Publication: 2020-02-03 21:00:02 UTC -* Number of recursive dependencies: 78 +* Version: 2.0.1 +* Source code: https://github.com/cran/SimDesign +* URL: https://github.com/philchalmers/SimDesign, https://github.com/philchalmers/SimDesign/wiki +* Date/Publication: 2020-01-20 19:00:02 UTC +* Number of recursive dependencies: 88 -Run `revdep_details(,"telefit")` for more info +Run `cloud_details(, "SimDesign")` for more info
-## In both - -* checking whether package ‘telefit’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/telefit/new/telefit.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘telefit’ ... -** package ‘telefit’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c GibbsSampler.cpp -o GibbsSampler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c RWSampler.cpp -o RWSampler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c covs.cpp -o covs.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c distributions.cpp -o distributions.o -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c glm_gmrf.cpp -o glm_gmrf.o -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c mcstat.cpp -o mcstat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c numAlg.cpp -o numAlg.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c stpglmmod.cpp -o stpglmmod.o -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c stpmod.cpp -o stpmod.o -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -stpmod.cpp:470:32: warning: private field 'R' is not used [-Wunused-private-field] - double CProposed_logdet, one, R; - ^ -18 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c stpnotation.cpp -o stpnotation.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c svcMod.cpp -o svcMod.o -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c svcPredict.cpp -o svcPredict.o -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c transformations.cpp -o transformations.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o telefit.so GibbsSampler.o RWSampler.o RcppExports.o covs.o distributions.o glm_gmrf.o mcstat.o numAlg.o stpglmmod.o stpmod.o stpnotation.o svcMod.o svcPredict.o transformations.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [telefit.so] Error 1 -ERROR: compilation failed for package ‘telefit’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/telefit/new/telefit.Rcheck/telefit’ +* using log directory ‘/tmp/workdir/SimDesign/new/SimDesign.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘SimDesign/DESCRIPTION’ ... OK +* this is package ‘SimDesign’ version ‘2.0.1’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘doMPI’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘telefit’ ... -** package ‘telefit’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c GibbsSampler.cpp -o GibbsSampler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c RWSampler.cpp -o RWSampler.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c covs.cpp -o covs.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c distributions.cpp -o distributions.o -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from distributions.cpp:1: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c glm_gmrf.cpp -o glm_gmrf.o -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from glm_gmrf.cpp:1: -In file included from ./glm_gmrf.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c mcstat.cpp -o mcstat.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c numAlg.cpp -o numAlg.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c stpglmmod.cpp -o stpglmmod.o -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpglmmod.cpp:9: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c stpmod.cpp -o stpmod.o -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from stpmod.cpp:4: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -stpmod.cpp:470:32: warning: private field 'R' is not used [-Wunused-private-field] - double CProposed_logdet, one, R; - ^ -18 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c stpnotation.cpp -o stpnotation.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c svcMod.cpp -o svcMod.o -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcMod.cpp:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c svcPredict.cpp -o svcPredict.o -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from svcPredict.cpp:9: -In file included from ./distributions.h:8: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/telefit/RcppEigen/include' -I/usr/local/include -fPIC -Wall -O3 -c transformations.cpp -o transformations.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o telefit.so GibbsSampler.o RWSampler.o RcppExports.o covs.o distributions.o glm_gmrf.o mcstat.o numAlg.o stpglmmod.o stpmod.o stpnotation.o svcMod.o svcPredict.o transformations.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [telefit.so] Error 1 -ERROR: compilation failed for package ‘telefit’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/telefit/old/telefit.Rcheck/telefit’ - -``` -# TestDimorph +* using log directory ‘/tmp/workdir/SimDesign/old/SimDesign.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘SimDesign/DESCRIPTION’ ... OK +* this is package ‘SimDesign’ version ‘2.0.1’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘doMPI’ -
+The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -* Version: 0.3.1 -* Source code: https://github.com/cran/TestDimorph -* URL: https://github.com/bassam-abulnoor/TestDimorph -* BugReports: https://github.com/bassam-abulnoor/TestDimorph/issues -* Date/Publication: 2020-04-23 12:40:02 UTC -* Number of recursive dependencies: 185 +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -Run `revdep_details(,"TestDimorph")` for more info -
-## In both -* checking whether package ‘TestDimorph’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TestDimorph/new/TestDimorph.Rcheck/00install.out’ for details. - ``` -## Installation + +``` +# SupMZ + +
+ +* Version: 0.2.0 +* Source code: https://github.com/cran/SupMZ +* URL: https://github.com/myaseen208/SupMZ, https://myaseen208.github.io/SupMZ/ +* Date/Publication: 2020-01-16 15:40:02 UTC +* Number of recursive dependencies: 36 + +Run `cloud_details(, "SupMZ")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘TestDimorph’ ... -** package ‘TestDimorph’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/TestDimorph/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/TestDimorph/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/TestDimorph/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load -Execution halted -ERROR: lazy loading failed for package ‘TestDimorph’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TestDimorph/new/TestDimorph.Rcheck/TestDimorph’ +* using log directory ‘/tmp/workdir/SupMZ/new/SupMZ.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘SupMZ/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘SupMZ’ version ‘0.2.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘SupMZ’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking examples ... OK +* DONE +Status: OK + + + + + ``` ### CRAN ``` -* installing *source* package ‘TestDimorph’ ... -** package ‘TestDimorph’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/TestDimorph/gmm/libs/gmm.so': - dlopen(/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/TestDimorph/gmm/libs/gmm.so, 6): Library not loaded: /usr/local/gfortran/lib/libgomp.1.dylib - Referenced from: /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/TestDimorph/gmm/libs/gmm.so - Reason: image not found -Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load +* using log directory ‘/tmp/workdir/SupMZ/old/SupMZ.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘SupMZ/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘SupMZ’ version ‘0.2.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘SupMZ’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... WARNING +Error: package or namespace load failed for ‘SupMZ’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): + there is no package called ‘lifecycle’ Execution halted -ERROR: lazy loading failed for package ‘TestDimorph’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/TestDimorph/old/TestDimorph.Rcheck/TestDimorph’ + +It looks like this package has a loading problem when not on .libPaths: +see the messages for details. +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking examples ... OK +* DONE +Status: 1 WARNING + + + + + ``` -# tidybulk +# Tcomp
-* Version: -* Source code: ??? -* URL: https://dplyr.tidyverse.org, https://github.com/tidyverse/dplyr -* BugReports: https://github.com/tidyverse/dplyr/issues -* Number of recursive dependencies: 0 +* Version: 1.0.1 +* Source code: https://github.com/cran/Tcomp +* BugReports: https://github.com/ellisp/Tcomp-r-package/issues +* Date/Publication: 2018-06-05 22:40:16 UTC +* Number of recursive dependencies: 80 -Run `revdep_details(,"")` for more info +Run `cloud_details(, "Tcomp")` for more info
@@ -12731,20 +6011,30 @@ Run `revdep_details(,"")` for more info ### Devel ``` +* using log directory ‘/tmp/workdir/Tcomp/new/Tcomp.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘Tcomp/DESCRIPTION’ ... OK +* this is package ‘Tcomp’ version ‘1.0.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘Tcomp’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/Tcomp/new/Tcomp.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR - There are binary versions available but the source versions are later: - binary source needs_compilation -GO.db 3.11.1 3.11.4 FALSE -httpuv 1.5.2 1.5.3.1 TRUE -nlme 3.1-147 3.1-148 TRUE -org.Hs.eg.db 3.11.1 3.11.4 FALSE -org.Rn.eg.db 3.11.1 3.11.4 FALSE -reticulate 1.15 1.16 TRUE - - Binaries will be installed -installing the source packages ‘GO.db’, ‘org.Hs.eg.db’, ‘org.Rn.eg.db’ @@ -12752,1209 +6042,624 @@ installing the source packages ‘GO.db’, ‘org.Hs.eg.db’, ‘org.Rn.eg.db ### CRAN ``` +* using log directory ‘/tmp/workdir/Tcomp/old/Tcomp.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘Tcomp/DESCRIPTION’ ... OK +* this is package ‘Tcomp’ version ‘1.0.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘Tcomp’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/Tcomp/old/Tcomp.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR - There are binary versions available but the source versions are later: - binary source needs_compilation -GO.db 3.11.1 3.11.4 FALSE -httpuv 1.5.2 1.5.3.1 TRUE -nlme 3.1-147 3.1-148 TRUE -org.Hs.eg.db 3.11.1 3.11.4 FALSE -org.Rn.eg.db 3.11.1 3.11.4 FALSE -reticulate 1.15 1.16 TRUE - Binaries will be installed -installing the source packages ‘GO.db’, ‘org.Hs.eg.db’, ‘org.Rn.eg.db’ - ``` -# ToxicoGx +# trackdf
-* Version: 0.1.1 -* Source code: https://github.com/cran/ToxicoGx -* Date/Publication: 2020-01-20 17:00:24 UTC -* Number of recursive dependencies: 163 +* Version: 0.2.1 +* Source code: https://github.com/cran/trackdf +* URL: https://swarm-lab.github.io/trackdf/, https://github.com/swarm-lab/trackdf +* BugReports: https://github.com/swarm-lab/trackdf/issues +* Date/Publication: 2019-08-04 14:20:02 UTC +* Number of recursive dependencies: 130 -Run `revdep_details(,"ToxicoGx")` for more info +Run `cloud_details(, "trackdf")` for more info
-## In both - -* checking whether package ‘ToxicoGx’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ToxicoGx/new/ToxicoGx.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘ToxicoGx’ ... -** package ‘ToxicoGx’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: object ‘cSetName’ is not exported by 'namespace:CoreGx' -Execution halted -ERROR: lazy loading failed for package ‘ToxicoGx’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ToxicoGx/new/ToxicoGx.Rcheck/ToxicoGx’ +* using log directory ‘/tmp/workdir/trackdf/new/trackdf.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘trackdf/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘trackdf’ version ‘0.2.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘moveVis’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘ToxicoGx’ ... -** package ‘ToxicoGx’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: object ‘cSetName’ is not exported by 'namespace:CoreGx' -Execution halted -ERROR: lazy loading failed for package ‘ToxicoGx’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/ToxicoGx/old/ToxicoGx.Rcheck/ToxicoGx’ +* using log directory ‘/tmp/workdir/trackdf/old/trackdf.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘trackdf/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘trackdf’ version ‘0.2.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘moveVis’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` -# VarSelLCM +# trackr
-* Version: 2.1.3 -* Source code: https://github.com/cran/VarSelLCM -* URL: http://varsellcm.r-forge.r-project.org/ -* Date/Publication: 2018-08-29 10:24:28 UTC -* Number of recursive dependencies: 73 +* Version: 0.10.6 +* Source code: https://github.com/cran/trackr +* Date/Publication: 2020-02-29 05:40:07 UTC +* Number of recursive dependencies: 106 -Run `revdep_details(,"VarSelLCM")` for more info +Run `cloud_details(, "trackr")` for more info
-## In both - -* checking whether package ‘VarSelLCM’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/VarSelLCM/new/VarSelLCM.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘VarSelLCM’ ... -** package ‘VarSelLCM’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Algorithm.cpp -o Algorithm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmCategorical.cpp -o AlgorithmCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmContinuous.cpp -o AlgorithmContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmInteger.cpp -o AlgorithmInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmMixed.cpp -o AlgorithmMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataCategorical.cpp -o DataCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataContinuous.cpp -o DataContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataInteger.cpp -o DataInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataMixed.cpp -o DataMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamCategorical.cpp -o ParamCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamContinuous.cpp -o ParamContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamInteger.cpp -o ParamInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamMixed.cpp -o ParamMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c VarSelLCMmixte.cpp -o VarSelLCMmixte.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEM.cpp -o XEM.o -XEM.cpp:63:14: warning: unused variable 'indicebest' [-Wunused-variable] - double indicebest = (loglikeSmall).max(index); - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMCategorical.cpp -o XEMCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMContinuous.cpp -o XEMContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMInteger.cpp -o XEMInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMMixed.cpp -o XEMMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMPen.cpp -o XEMPen.o -XEMPen.cpp:176:10: warning: unused variable 'repere' [-Wunused-variable] - int repere=0; - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o VarSelLCM.so Algorithm.o AlgorithmCategorical.o AlgorithmContinuous.o AlgorithmInteger.o AlgorithmMixed.o DataCategorical.o DataContinuous.o DataInteger.o DataMixed.o ParamCategorical.o ParamContinuous.o ParamInteger.o ParamMixed.o RcppExports.o VarSelLCMmixte.o XEM.o XEMCategorical.o XEMContinuous.o XEMInteger.o XEMMixed.o XEMPen.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [VarSelLCM.so] Error 1 -ERROR: compilation failed for package ‘VarSelLCM’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/VarSelLCM/new/VarSelLCM.Rcheck/VarSelLCM’ +* using log directory ‘/tmp/workdir/trackr/new/trackr.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘trackr/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘trackr’ version ‘0.10.6’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: + 'histry', 'CodeDepends', 'rsolr', 'roprov' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘VarSelLCM’ ... -** package ‘VarSelLCM’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c Algorithm.cpp -o Algorithm.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmCategorical.cpp -o AlgorithmCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmContinuous.cpp -o AlgorithmContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmInteger.cpp -o AlgorithmInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c AlgorithmMixed.cpp -o AlgorithmMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataCategorical.cpp -o DataCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataContinuous.cpp -o DataContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataInteger.cpp -o DataInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c DataMixed.cpp -o DataMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamCategorical.cpp -o ParamCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamContinuous.cpp -o ParamContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamInteger.cpp -o ParamInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c ParamMixed.cpp -o ParamMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c VarSelLCMmixte.cpp -o VarSelLCMmixte.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEM.cpp -o XEM.o -XEM.cpp:63:14: warning: unused variable 'indicebest' [-Wunused-variable] - double indicebest = (loglikeSmall).max(index); - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMCategorical.cpp -o XEMCategorical.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMContinuous.cpp -o XEMContinuous.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMInteger.cpp -o XEMInteger.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMMixed.cpp -o XEMMixed.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/VarSelLCM/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c XEMPen.cpp -o XEMPen.o -XEMPen.cpp:176:10: warning: unused variable 'repere' [-Wunused-variable] - int repere=0; - ^ -1 warning generated. -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o VarSelLCM.so Algorithm.o AlgorithmCategorical.o AlgorithmContinuous.o AlgorithmInteger.o AlgorithmMixed.o DataCategorical.o DataContinuous.o DataInteger.o DataMixed.o ParamCategorical.o ParamContinuous.o ParamInteger.o ParamMixed.o RcppExports.o VarSelLCMmixte.o XEM.o XEMCategorical.o XEMContinuous.o XEMInteger.o XEMMixed.o XEMPen.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [VarSelLCM.so] Error 1 -ERROR: compilation failed for package ‘VarSelLCM’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/VarSelLCM/old/VarSelLCM.Rcheck/VarSelLCM’ - -``` -# vlad +* using log directory ‘/tmp/workdir/trackr/old/trackr.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘trackr/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘trackr’ version ‘0.10.6’ +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: + 'histry', 'CodeDepends', 'rsolr', 'roprov' -
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* Version: 0.2.0 -* Source code: https://github.com/cran/vlad -* BugReports: https://github.com/wittenberg/vlad/issues -* Date/Publication: 2018-12-06 08:50:03 UTC -* Number of recursive dependencies: 67 -Run `revdep_details(,"vlad")` for more info -
-## In both -* checking whether package ‘vlad’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/vlad/new/vlad.Rcheck/00install.out’ for details. - ``` -## Installation +``` +# TrafficBDE + +
+ +* Version: 0.1.0 +* Source code: https://github.com/cran/TrafficBDE +* URL: https://github.com/okgreece/TrafficBDE +* BugReports: https://github.com/okgreece/TrafficBDE/issues +* Date/Publication: 2018-03-01 16:23:44 UTC +* Number of recursive dependencies: 94 + +Run `cloud_details(, "TrafficBDE")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘vlad’ ... -** package ‘vlad’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c eocusum_sim.cpp -o eocusum_sim.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c racusum_mc.cpp -o racusum_mc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c racusum_sim.cpp -o racusum_sim.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o vlad.so RcppExports.o eocusum_sim.o racusum_mc.o racusum_sim.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [vlad.so] Error 1 -ERROR: compilation failed for package ‘vlad’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/vlad/new/vlad.Rcheck/vlad’ +* using log directory ‘/tmp/workdir/TrafficBDE/new/TrafficBDE.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘TrafficBDE/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘TrafficBDE’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘vlad’ ... -** package ‘vlad’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c eocusum_sim.cpp -o eocusum_sim.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c racusum_mc.cpp -o racusum_mc.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/vlad/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c racusum_sim.cpp -o racusum_sim.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o vlad.so RcppExports.o eocusum_sim.o racusum_mc.o racusum_sim.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [vlad.so] Error 1 -ERROR: compilation failed for package ‘vlad’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/vlad/old/vlad.Rcheck/vlad’ - -``` -# walker +* using log directory ‘/tmp/workdir/TrafficBDE/old/TrafficBDE.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘TrafficBDE/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘TrafficBDE’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘ggplot2’ -
+The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. -* Version: 0.3.1-1 -* Source code: https://github.com/cran/walker -* URL: https://github.com/helske/walker -* BugReports: https://github.com/helske/walker/issues -* Date/Publication: 2020-01-23 15:50:02 UTC -* Number of recursive dependencies: 96 +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -Run `revdep_details(,"walker")` for more info -
-## In both -* checking whether package ‘walker’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/walker/new/walker.Rcheck/00install.out’ for details. - ``` -## Installation + +``` +# UniprotR + +
+ +* Version: 1.3.0 +* Source code: https://github.com/cran/UniprotR +* URL: https://github.com/Proteomicslab57357/UniprotR +* BugReports: https://github.com/Proteomicslab57357/UniprotR/issues +* Date/Publication: 2020-05-26 22:40:08 UTC +* Number of recursive dependencies: 135 + +Run `cloud_details(, "UniprotR")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘walker’ ... -** package ‘walker’ successfully unpacked and MD5 sums checked -** using staged installation -** libs - - -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include' -I/usr/local/include -fPIC -Wall -g -O2 -c Modules.cpp -o Modules.o -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/test_gradients.hpp:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/log_prob_grad.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/mat.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core.hpp:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints.hpp:14:13: warning: unused function 'set_zero_all_adjoints' [-Wunused-function] -static void set_zero_all_adjoints() { - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/test_gradients.hpp:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/log_prob_grad.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/mat.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core.hpp:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints_nested.hpp:17:13: warning: 'static' function 'set_zero_all_adjoints_nested' declared in header file should be declared 'static inline' [-Wunneeded-internal-declaration] -static void set_zero_all_adjoints_nested() { - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/test_gradients.hpp:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/log_prob_grad.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/mat.hpp:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/prim/mat.hpp:336: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_log.hpp:5: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_lpmf.hpp:64:59: warning: unused typedef 'T_alpha_val' [-Wunused-local-typedef] - typename partials_return_type::type>::type T_alpha_val; - ^ -In file included from Modules.cpp:3: -./include/models.hpp:560:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:1384:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:2539:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:4561:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:7010:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -25 warnings generated. - - -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. - - -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include' -I/usr/local/include -fPIC -Wall -g -O2 -c predict.cpp -o predict.o -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o walker.so Modules.o RcppExports.o predict.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [walker.so] Error 1 -ERROR: compilation failed for package ‘walker’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/walker/new/walker.Rcheck/walker’ +* using log directory ‘/tmp/workdir/UniprotR/new/UniprotR.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘UniprotR/DESCRIPTION’ ... OK +* this is package ‘UniprotR’ version ‘1.3.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` ### CRAN ``` -* installing *source* package ‘walker’ ... -** package ‘walker’ successfully unpacked and MD5 sums checked -** using staged installation -** libs - - -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include' -I/usr/local/include -fPIC -Wall -g -O2 -c Modules.cpp -o Modules.o -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:22: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/test_gradients.hpp:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/log_prob_grad.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/mat.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core.hpp:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints.hpp:14:13: warning: unused function 'set_zero_all_adjoints' [-Wunused-function] -static void set_zero_all_adjoints() { - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/test_gradients.hpp:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/log_prob_grad.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/mat.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core.hpp:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints_nested.hpp:17:13: warning: 'static' function 'set_zero_all_adjoints_nested' declared in header file should be declared 'static inline' [-Wunneeded-internal-declaration] -static void set_zero_all_adjoints_nested() { - ^ -In file included from Modules.cpp:3: -In file included from ./include/models.hpp:18: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/rstaninc.hpp:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include/rstan/stan_fit.hpp:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/test_gradients.hpp:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src/stan/model/log_prob_grad.hpp:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/rev/mat.hpp:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/prim/mat.hpp:336: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_log.hpp:5: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_lpmf.hpp:64:59: warning: unused typedef 'T_alpha_val' [-Wunused-local-typedef] - typename partials_return_type::type>::type T_alpha_val; - ^ -In file included from Modules.cpp:3: -./include/models.hpp:560:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:1384:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:2539:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:4561:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -./include/models.hpp:7010:24: warning: unused typedef 'local_scalar_t__' [-Wunused-local-typedef] - typedef double local_scalar_t__; - ^ -25 warnings generated. - - -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:1: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Core:535: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:2: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/LU:47: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:12: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Jacobi:29: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:3: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Cholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:4: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/QR:17: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Householder:27: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SVD:48: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:6: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Geometry:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:30: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Dense:7: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Eigenvalues:58: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:26: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCore:66: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:27: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/OrderingMethods:71: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:29: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseCholesky:43: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/SparseQR:35: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:31: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/Sparse:33: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/IterativeLinearSolvers:46: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:32: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/CholmodSupport:45: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:35: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:39: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/Polynomials:135: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -In file included from RcppExports.cpp:5: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigen.h:25: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/RcppEigenForward.h:40: -In file included from /Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/SparseExtra:51: -/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] - #pragma clang diagnostic pop - ^ -17 warnings generated. - - -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/StanHeaders/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/rstan/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/BH/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppArmadillo/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/walker/RcppEigen/include' -I/usr/local/include -fPIC -Wall -g -O2 -c predict.cpp -o predict.o -clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o walker.so Modules.o RcppExports.o predict.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [walker.so] Error 1 -ERROR: compilation failed for package ‘walker’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/walker/old/walker.Rcheck/walker’ - -``` -# weibulltools +* using log directory ‘/tmp/workdir/UniprotR/old/UniprotR.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘UniprotR/DESCRIPTION’ ... OK +* this is package ‘UniprotR’ version ‘1.3.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ggplot2’ -
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* Version: 1.0.1 -* Source code: https://github.com/cran/weibulltools -* Date/Publication: 2019-01-29 16:10:03 UTC -* Number of recursive dependencies: 110 -Run `revdep_details(,"weibulltools")` for more info -
-## In both -* checking whether package ‘weibulltools’ can be installed ... ERROR - ``` - Installation failed. - See ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/weibulltools/new/weibulltools.Rcheck/00install.out’ for details. - ``` -## Installation +``` +# VarSelLCM + +
+ +* Version: 2.1.3 +* Source code: https://github.com/cran/VarSelLCM +* URL: http://varsellcm.r-forge.r-project.org/ +* Date/Publication: 2018-08-29 10:24:28 UTC +* Number of recursive dependencies: 73 + +Run `cloud_details(, "VarSelLCM")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘weibulltools’ ... -** package ‘weibulltools’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c em_mixture.cpp -o em_mixture.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c johnson_ranks.cpp -o johnson_ranks.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o weibulltools.so RcppExports.o em_mixture.o johnson_ranks.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [weibulltools.so] Error 1 -ERROR: compilation failed for package ‘weibulltools’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/weibulltools/new/weibulltools.Rcheck/weibulltools’ +* using log directory ‘/tmp/workdir/VarSelLCM/new/VarSelLCM.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘VarSelLCM/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘VarSelLCM’ version ‘2.1.3’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘VarSelLCM’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 16.5Mb + sub-directories of 1Mb or more: + libs 15.7Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... NOTE +Found the following sources/headers not terminated with a newline: + inst/include/Algorithm.h + inst/include/AlgorithmCategorical.h + inst/include/AlgorithmContinuous.h + inst/include/AlgorithmInteger.h + inst/include/AlgorithmMixed.h + inst/include/Data.h + inst/include/DataCategorical.h + inst/include/DataContinuous.h + inst/include/DataInteger.h + inst/include/DataMixed.h + inst/include/Param.h + inst/include/ParamCategorical.h + inst/include/ParamContinuous.h + inst/include/ParamInteger.h + inst/include/ParamMixed.h + inst/include/XEM.h + inst/include/XEMCategorical.h + inst/include/XEMContinuous.h + inst/include/XEMInteger.h + inst/include/XEMMixed.h + inst/include/XEMPen.h +Some compilers warn on such files. +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘VarSelLCM.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 2 NOTEs + + + + + ``` ### CRAN ``` -* installing *source* package ‘weibulltools’ ... -** package ‘weibulltools’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c RcppExports.cpp -o RcppExports.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c em_mixture.cpp -o em_mixture.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/dplyr/old/Rcpp/include' -I'/Users/romainfrancois/git/revdep/dplyr/revdep/library.noindex/weibulltools/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -O3 -c johnson_ranks.cpp -o johnson_ranks.o -clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o weibulltools.so RcppExports.o em_mixture.o johnson_ranks.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation -ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0' -ld: warning: directory not found for option '-L/usr/local/gfortran/lib' -ld: library not found for -lgfortran -clang: error: linker command failed with exit code 1 (use -v to see invocation) -make: *** [weibulltools.so] Error 1 -ERROR: compilation failed for package ‘weibulltools’ -* removing ‘/Users/romainfrancois/git/revdep/dplyr/revdep/checks.noindex/weibulltools/old/weibulltools.Rcheck/weibulltools’ - -``` -# XBSeq +* using log directory ‘/tmp/workdir/VarSelLCM/old/VarSelLCM.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘VarSelLCM/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘VarSelLCM’ version ‘2.1.3’ +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘VarSelLCM’ can be installed ... OK +* checking installed package size ... NOTE + installed size is 16.5Mb + sub-directories of 1Mb or more: + libs 15.7Mb +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking line endings in C/C++/Fortran sources/headers ... NOTE +Found the following sources/headers not terminated with a newline: + inst/include/Algorithm.h + inst/include/AlgorithmCategorical.h + inst/include/AlgorithmContinuous.h + inst/include/AlgorithmInteger.h + inst/include/AlgorithmMixed.h + inst/include/Data.h + inst/include/DataCategorical.h + inst/include/DataContinuous.h + inst/include/DataInteger.h + inst/include/DataMixed.h + inst/include/Param.h + inst/include/ParamCategorical.h + inst/include/ParamContinuous.h + inst/include/ParamInteger.h + inst/include/ParamMixed.h + inst/include/XEM.h + inst/include/XEMCategorical.h + inst/include/XEMContinuous.h + inst/include/XEMInteger.h + inst/include/XEMMixed.h + inst/include/XEMPen.h +Some compilers warn on such files. +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking compiled code ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘VarSelLCM.Rmd’using ‘UTF-8’... OK +* checking re-building of vignette outputs ... SKIPPED +* DONE +Status: 2 NOTEs + + + + + + +``` +# wrswoR
-* Version: 1.20.0 -* Source code: https://github.com/cran/XBSeq -* URL: https://github.com/Liuy12/XBSeq -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 111 +* Version: 1.1 +* Source code: https://github.com/cran/wrswoR +* URL: http://krlmlr.github.io/wrswoR +* BugReports: https://github.com/krlmlr/wrswoR/issues +* Date/Publication: 2018-02-02 18:26:36 UTC +* Number of recursive dependencies: 125 -Run `revdep_details(,"XBSeq")` for more info +Run `cloud_details(, "wrswoR")` for more info
-## In both +## Error before installation -* R CMD check timed out - +### Devel -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘DESeq’ - ``` +``` +* using log directory ‘/tmp/workdir/wrswoR/new/wrswoR.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘wrswoR/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘wrswoR’ version ‘1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘metap’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -* checking whether the namespace can be loaded with stated dependencies ... NOTE - ``` - Warning: no function found corresponding to methods exports from ‘XBSeq’ for: ‘conditions’, ‘conditions<-’, ‘dispTable’ - - A namespace must be able to be loaded with just the base namespace - loaded: otherwise if the namespace gets loaded by a saved object, the - session will be unable to start. - - Probably some imports need to be declared in the NAMESPACE file. - ``` -* checking R code for possible problems ... NOTE - ``` - ... - estimateRealCount,XBSeqDataSet: no visible global function definition - for ‘assay’ - estimateRealCount,XBSeqDataSet: no visible global function definition - for ‘assay<-’ - estimateSCV,XBSeqDataSet: no visible global function definition for - ‘conditions’ - estimateSCV,XBSeqDataSet: no visible global function definition for - ‘dispTable<-’ - Undefined global functions or variables: - ..count.. DataFrame Gamma Group Sample SummarizedExperiment assay - assay<- assays baseMean coefficients complete.cases conditions cor - data ddelap dispTable dispTable<- dnbinom dpois formula glm - log2FoldChange median optim p.adjust pbeta predict qbeta quantile - rnbinom scvBiasCorrectionFits - Consider adding - importFrom("stats", "Gamma", "coefficients", "complete.cases", "cor", - "dnbinom", "dpois", "formula", "glm", "median", "optim", - "p.adjust", "pbeta", "predict", "qbeta", "quantile", - "rnbinom") - importFrom("utils", "data") - to your NAMESPACE file. - ``` + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/wrswoR/old/wrswoR.Rcheck’ +* using R version 3.6.3 (2020-02-29) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-manual --no-build-vignettes’ +* checking for file ‘wrswoR/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘wrswoR’ version ‘1.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package suggested but not available: ‘metap’ + +The suggested packages are required for a complete check. +Checking can be attempted without them by setting the environment +variable _R_CHECK_FORCE_SUGGESTS_ to a false value. + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + + +``` diff --git a/revdep/dplyr/problems.md b/revdep/dplyr/problems.md index 55bb6a0696790dad95e434962f91026b9e66786c..141f3192588b21b4fb771440aa47df4e907c1d41 100644 GIT binary patch literal 128519 zcmeFa-E!MVwk|lgQ%{klstQwX5hVC8j_nv({wa0YvX7*y+P&326i9*+ERtXWpe5Dr z+0k)gF3#n-=(A%_#JQe#nAfQ%nQyJk1QH}bf|Bj>)-H9mNdlP*i9}-M`u)~7!kI*0 zef7Wn@%P6J{4oQ6%)lQr@W%}NF#~_hz#lX4#|->21AolGA2aaB4E!+z_jd-ou{*TB z68L-Ngpsi8V(d-bQ1~O^&!gEq>heh;&YVFscg8(=^h`|sNVvbuy${aVokk+^#hH6O za|e+-Jd*^47|er!PI@6XAA4a`9($LrBB?%p`^Vq$pQu~nh2xFqf!h^l;lK~vo--Tv zW&@|!54_>Id!|N2@19&DC~A;fjjgDQT%W-o@k@9tsiJ@ z>0);!-fG3fKjsQllcPSK2Z0}SlhrbxdU$29c0w`2nskKZPbGH}yy}h>wy{FG! 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