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| author | Sharlatan Hellseher <sharlatanus@gmail.com> | 2026-02-05 13:52:00 +0000 |
|---|---|---|
| committer | Andreas Enge <andreas@enge.fr> | 2026-02-07 12:28:59 +0100 |
| commit | bc70d27edc22ccdac70289babdf28432ce1fec6e (patch) | |
| tree | 2ba2044669a7fd3f547e3cedd020c01e7e5eb0d4 /gnu/packages | |
| parent | 189b7542de884baaa5c1a01c6ba9642ea1172823 (diff) | |
gnu: python-ikarus: Update to 0.0.3.
* gnu/packages/bioinformatics.scm (python-ikarus): Update to 0.0.3. Use
G-Expressions.
[arguments] <test-backend, test-flags>: Use custom.
<phases>: Remove 'fix-issue-12; reallocate 'set-numba-cache-dir.
[native-inputs]: Remove python-wheel.
Change-Id: I4bf1b5bbda56373fd632f31aca59d473ab37252a
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 39 |
1 files changed, 19 insertions, 20 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 15e3f8b3145..c9b6da13d24 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -22139,35 +22139,34 @@ single-cell RNA-seq data.") (define-public python-ikarus (package (name "python-ikarus") - (version "0.0.2") + (version "0.0.3") (source (origin (method url-fetch) (uri (pypi-uri "ikarus" version)) (sha256 - (base32 "086czpvj4yafz4vrq5rx2gy0bj2l8nzwnkk0gw8qvy4w133xjysy")))) + (base32 "1nzhy1a4mnr23wnxg7sy0pgyydfiavvk8b53cyxh1z8s6wqq1yqj")))) (build-system pyproject-build-system) (arguments - `(#:tests? #f - #:phases (modify-phases %standard-phases - ;; See https://github.com/BIMSBbioinfo/ikarus/issues/12 - (add-after 'unpack 'fix-issue-12 - (lambda _ - (substitute* "ikarus/classifier.py" - (("pyscenic.genesig") - "ctxcore.genesig")))) - ;; Numba needs a writable dir to cache functions. - (add-before 'check 'set-numba-cache-dir - (lambda _ - (setenv "NUMBA_CACHE_DIR" "/tmp")))))) - (propagated-inputs (list python-numpy + (list + #:test-backend #~'custom + #:test-flags + ;; There are no actual tests, it is a step from GitHub Actions. + #~(list "-c" "'from ikarus import classifier, utils, data'") + #:phases + #~(modify-phases %standard-phases + ;; Numba needs a writable dir to cache functions. + (add-before 'build 'set-numba-cache-dir + (lambda _ + (setenv "NUMBA_CACHE_DIR" "/tmp")))))) + (propagated-inputs (list pyscenic + python-anndata + python-ctxcore + python-numpy python-pandas - python-scipy python-scanpy - python-anndata - python-ctxcore ;because of issue 12 - pyscenic)) - (native-inputs (list python-setuptools python-wheel)) + python-scipy)) + (native-inputs (list python-setuptools)) (home-page "https://github.com/BIMSBbioinfo/ikarus") (synopsis "Machine learning classifier of tumor cells") (description |