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| author | Sharlatan Hellseher <sharlatanus@gmail.com> | 2026-01-02 13:18:53 +0000 |
|---|---|---|
| committer | Rutherther <rutherther@ditigal.xyz> | 2026-01-25 21:20:16 +0100 |
| commit | 9d51f4ba0136a2914a3eb98f3e09d6551cecb76b (patch) | |
| tree | f60e5a220ca8b0809adeec9f4be55b9ae520312a | |
| parent | bbc241a1a43d57db759433d041c980cbbc5d4806 (diff) | |
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
Signed-off-by: Rutherther <rutherther@ditigal.xyz>
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 11 |
1 files changed, 5 insertions, 6 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 3a46cefacb6..cff3efac0d1 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3259,12 +3259,11 @@ 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 @@ -3278,7 +3277,7 @@ 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 |