guix_mirror_bot pushed a commit to branch python-team
in repository guix.
commit bff8e4795cbb61841f0f6b27431217a209750ddf
Author: Sharlatan Hellseher <[email protected]>
AuthorDate: Fri Jan 2 13:18:53 2026 +0000
gnu: python-metacells: Simplify.
* gnu/packages/bioinformatics.scm (python-metacells):
[arguments] <phases>: Merge 'set-numba-cache-dir and 'build-extension
into 'pre-check and just remove local source to prevent rebuilding
expansions for tests, it saves some compute time with the same output.
[native-inputs]: Add pybind11.
Change-Id: I95e6706813cc5d3167593440c714c5091303cb00
---
gnu/packages/bioinformatics.scm | 11 +++++------
1 file changed, 5 insertions(+), 6 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 0e23f579a0..d6946e1a5d 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3258,12 +3258,11 @@ and gene expression visualization.")
(lambda _
;; Without this they pass -march=native to the compiler.
(setenv "WHEEL" "1")))
- ;; Numba needs a writable dir to cache functions.
- (add-before 'check 'set-numba-cache-dir
- (lambda _ (setenv "NUMBA_CACHE_DIR" "/tmp")))
- (add-before 'build 'build-extensions
+ (add-before 'check 'pre-check
(lambda _
- (invoke "python" "setup.py" "build_ext" "--inplace"))))))
+ ;; Numba needs a writable dir to cache functions.
+ (setenv "NUMBA_CACHE_DIR" "/tmp")
+ (delete-file-recursively "metacells"))))))
(propagated-inputs (list python-anndata
python-cvxpy
python-fastcluster
@@ -3277,7 +3276,7 @@ and gene expression visualization.")
python-scipy
python-threadpoolctl
python-umap-learn))
- (native-inputs (list python-pytest python-setuptools))
+ (native-inputs (list pybind11 python-pytest python-setuptools))
(home-page "https://github.com/tanaylab/metacells.git";)
(synopsis "Single-cell RNA Sequencing Analysis")
(description "The metacells package implements the improved metacell
