guix_mirror_bot pushed a commit to branch python-team
in repository guix.
commit 1420e17594e1f8630d414f8cbed7b4f75f73c797
Author: Sharlatan Hellseher <[email protected]>
AuthorDate: Thu Feb 5 13:52:00 2026 +0000
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
---
gnu/packages/bioinformatics.scm | 39 +++++++++++++++++++--------------------
1 file changed, 19 insertions(+), 20 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 15e3f8b314..c9b6da13d2 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
