scipy 1.13.1

kevinrue · Sep 26, 2024 · 4bc323c · 4bc323c
1 parent c683e52
commit 4bc323c
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Showing 3 changed files with 5 additions and 6 deletions.
diff --git a/R/basilisk.R b/R/basilisk.R
@@ -763,7 +763,7 @@
     'rich==13.8.1',
     'scanpy==1.10.3',
     'scikit-learn==1.1.3',
-    'scipy==1.14.1',
+    'scipy==1.13.1',
     'scvelo==0.3.2',
     'scvi-tools==1.1.6.post1',
     'seaborn==0.13.2',

diff --git a/R/scvelo.R b/R/scvelo.R
@@ -107,10 +107,9 @@
 #' As of the latest \pkg{velociraptor} update (24 May 2024):
 #' 
 #' \describe{
-#' \item{Linux}{\pkg{scVelo} v0.2.2 from bioconda is used.
-#' This is NOT the latest version available to date.
-#' Instead, it is the latest version successfully tested in a complete Conda environment.
-#' Note that pinned dependencies were obtained from \code{zellkonverter::AnnDataDependencies()}.
+#' \item{Linux}{\pkg{scVelo} v0.3.2 from bioconda is used.
+#' \pkg{libtiff} is pinned to v4.5.1 and \pkg{pillow} is pinned to v10.0.0 (\url{https://github.com/conda-forge/libtiff-feedstock/issues/104#issuecomment-2375893029}),
+#' \pkg{scipy} is pinned to v1.13.1 (\url{https://github.com/theislab/scvelo/issues/1260}).
 #' }
 #' \item{MacOS Arm}{\pkg{scVelo} v0.3.2 from conda-forge is used.
 #' This is the latest version available to date.

diff --git a/inst/envs/Linux_x86_64.yaml b/inst/envs/Linux_x86_64.yaml
@@ -184,7 +184,7 @@ dependencies:
 - rich=13.8.1=pyhd8ed1ab_0
 - scanpy=1.10.3=pyhd8ed1ab_0
 - scikit-learn=1.1.3=py311h3b52e38_1
-- scipy=1.14.1=py311he1f765f_0
+- scipy=1.13.1=py311h517d4fd_0
 - scvelo=0.3.2=pyhd8ed1ab_1
 - scvi-tools=1.1.6.post1=pyhd8ed1ab_0
 - seaborn=0.13.2=hd8ed1ab_2