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Merge pull request #156 from ModelOriented/CRAN-release
CRAN release
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‎CRAN-SUBMISSION

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Version: 0.9.4
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Date: 2024-08-20 20:00:54 UTC
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SHA: 6269666c0bc2dbb48fd4193adec46b9fbf4fdccd
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Version: 0.9.5
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Date: 2024-09-14 14:14:08 UTC
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SHA: e775f6a245c773e04687d846e06e9aeb24702bac

‎cran-comments.md

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# shapviz 0.9.4
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# shapviz 0.9.5 (RESUBMISSION)
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Dear CRAN team
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Fixed duplicated vignette entry, as pointed out by the automatic checks by CRAN.
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This update mainly ensures that upcoming XGBoost version 2.x.x will work.
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## Original message
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Dear CRAN team
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### Local checks
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This update brings a new vignette, and improvements of the existing documentation.
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Ok, with note
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### Local checks
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Packages which this enhances but not available for checking: 'fastshap', 'h2o'
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0 errors, 0 warnings, 0 notes
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### Winbuilder()
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Status: OK
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## Reverse dependencies (2)
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- fastshap 0.1.1 ── E: 0 | W: 1 | N: 1
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- lowml 0.1.3 ── E: 0 | W: 0 | N: 0
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OK: 2
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BROKEN: 0
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2 OK

‎revdep/README.md

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# Platform
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|field |value |
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|:--------|:--------------------------------------------------------|
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|version |R version 4.4.1 (2024-06-14 ucrt) |
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|os |Windows 11 x64 (build 22631) |
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|system |x86_64, mingw32 |
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|ui |RStudio |
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|language |(EN) |
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|collate |German_Switzerland.utf8 |
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|ctype |German_Switzerland.utf8 |
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|tz |Europe/Zurich |
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|date |2024-08-20 |
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|rstudio |2024.04.2+764 Chocolate Cosmos (desktop) |
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|pandoc |3.1.6 @ C:\Users\Michael\AppData\Local\Pandoc\pandoc.exe |
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|field |value |
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|:--------|:----------------------------------------|
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|version |R version 4.4.1 (2024-06-14 ucrt) |
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|os |Windows 11 x64 (build 22631) |
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|system |x86_64, mingw32 |
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|ui |RStudio |
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|language |(EN) |
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|collate |English_Switzerland.utf8 |
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|ctype |English_Switzerland.utf8 |
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|tz |Europe/Zurich |
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|date |2024-09-13 |
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|rstudio |2024.04.2+764 Chocolate Cosmos (desktop) |
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|pandoc |NA |
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# Dependencies
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|package |old |new |Δ |
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|:------------|:-------|:-------|:--|
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|shapviz |0.9.3 |0.9.4 |* |
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|shapviz |0.9.4 |0.9.5 |* |
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|cli |3.6.3 |3.6.3 | |
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|colorspace |2.1-1 |2.1-1 | |
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|commonmark |1.9.1 |1.9.1 | |
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|curl |5.2.1 |5.2.1 | |
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|data.table |1.15.4 |1.15.4 | |
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|curl |5.2.2 |5.2.2 | |
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|data.table |1.16.0 |1.16.0 | |
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|fansi |1.0.6 |1.0.6 | |
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|farver |2.1.2 |2.1.2 | |
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|ggfittext |0.10.2 |0.10.2 | |
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|gggenes |0.5.1 |0.5.1 | |
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|ggplot2 |3.5.1 |3.5.1 | |
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|ggrepel |0.9.5 |0.9.5 | |
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|ggrepel |0.9.6 |0.9.6 | |
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|glue |1.7.0 |1.7.0 | |
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|gridtext |0.1.5 |0.1.5 | |
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|gtable |0.3.5 |0.3.5 | |
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# Revdeps
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## Failed to check (2)
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|package |version |error |warning |note |
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|:--------|:-------|:-----|:-------|:----|
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|fastshap |0.1.1 |1 | |2 |
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|flowml |? | | | |
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‎revdep/cran.md

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## revdepcheck results
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We checked 2 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.
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We checked 2 reverse dependencies (1 from CRAN + 1 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
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* We saw 0 new problems
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* We failed to check 0 packages
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* We failed to check 1 packages
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Issues with CRAN packages are summarised below.
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### Failed to check
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* fastshap (NA)

‎revdep/failures.md

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*Wow, no problems at all. :)*
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# fastshap
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<details>
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* Version: 0.1.1
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* GitHub: https://github.com/bgreenwell/fastshap
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* Source code: https://github.com/cran/fastshap
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* Date/Publication: 2024-02-22 22:00:02 UTC
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* Number of recursive dependencies: 90
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Run `revdepcheck::revdep_details(, "fastshap")` for more info
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</details>
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## In both
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* R CMD check timed out
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* checking package dependencies ... NOTE
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```
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Package which this enhances but not available for checking: 'lightgbm'
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```
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* checking Rd cross-references ... NOTE
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```
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Package unavailable to check Rd xrefs: 'lightgbm'
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```
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# flowml
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<details>
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* Version:
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* GitHub: https://github.com/ModelOriented/shapviz
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* Source code: NA
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* Number of recursive dependencies: 0
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</details>
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## Error before installation
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### Devel
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```
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There are binary versions available but the source versions are later:
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binary source needs_compilation
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abind 1.4-5 1.4-8 FALSE
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gam 1.22-4 1.22-5 TRUE
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ps 1.7.7 1.8.0 TRUE
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RcppArmadillo 14.0.0-1 14.0.2-1 TRUE
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Binaries will be installed
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package 'ABCanalysis' successfully unpacked and MD5 sums checked
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...
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package 'pls' successfully unpacked and MD5 sums checked
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package 'plyr' successfully unpacked and MD5 sums checked
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package 'png' successfully unpacked and MD5 sums checked
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package 'prettyunits' successfully unpacked and MD5 sums checked
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package 'pROC' successfully unpacked and MD5 sums checked
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package 'processx' successfully unpacked and MD5 sums checked
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package 'prodlim' successfully unpacked and MD5 sums checked
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package 'progress' successfully unpacked and MD5 sums checked
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package 'progressr' successfully unpacked and MD5 sums checked
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package 'promises' successfully unpacked and MD5 sums checked
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4/PACKAGES'
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...
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2: In download.file(url, destfile, method, mode = "wb", ...) :
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downloaded length 247004746 != reported length 266665380
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3: In download.file(url, destfile, method, mode = "wb", ...) :
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URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached
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4: In download.file(url, destfile, method, mode = "wb", ...) :
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URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached
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Warning in download.packages(pkgs, destdir = tmpd, available = available, :
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download of package 'h2o' failed
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Warning in download.packages(pkgs, destdir = tmpd, available = available, :
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download of package 'h2o' failed
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```
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### CRAN
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```
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There are binary versions available but the source versions are later:
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binary source needs_compilation
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abind 1.4-5 1.4-8 FALSE
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gam 1.22-4 1.22-5 TRUE
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ps 1.7.7 1.8.0 TRUE
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RcppArmadillo 14.0.0-1 14.0.2-1 TRUE
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Binaries will be installed
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package 'ABCanalysis' successfully unpacked and MD5 sums checked
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...
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package 'pls' successfully unpacked and MD5 sums checked
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package 'plyr' successfully unpacked and MD5 sums checked
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package 'png' successfully unpacked and MD5 sums checked
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package 'prettyunits' successfully unpacked and MD5 sums checked
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package 'pROC' successfully unpacked and MD5 sums checked
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package 'processx' successfully unpacked and MD5 sums checked
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package 'prodlim' successfully unpacked and MD5 sums checked
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package 'progress' successfully unpacked and MD5 sums checked
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package 'progressr' successfully unpacked and MD5 sums checked
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package 'promises' successfully unpacked and MD5 sums checked
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4/PACKAGES'
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Warning: unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4:
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cannot open URL 'https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4/PACKAGES'
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...
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2: In download.file(url, destfile, method, mode = "wb", ...) :
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downloaded length 247004746 != reported length 266665380
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3: In download.file(url, destfile, method, mode = "wb", ...) :
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URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached
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4: In download.file(url, destfile, method, mode = "wb", ...) :
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URL 'https://cran.rstudio.com/bin/windows/contrib/4.4/h2o_3.44.0.3.zip': Timeout of 60 seconds was reached
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Warning in download.packages(pkgs, destdir = tmpd, available = available, :
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download of package 'h2o' failed
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Warning in download.packages(pkgs, destdir = tmpd, available = available, :
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download of package 'h2o' failed
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```

‎vignettes/tidymodels.Rmd

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link-citations: true
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output: rmarkdown::html_vignette
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vignette: >
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%\VignetteIndexEntry{Geographic Components}
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%\VignetteIndexEntry{Tidymodels and SHAP}
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%\VignetteEncoding{UTF-8}
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%\VignetteEngine{knitr::rmarkdown}
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---

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