guix_mirror_bot pushed a commit to branch python-team
in repository guix.
commit 9ffeea9401d2f37b36f3c1caff79012ad65ede3d
Author: Sharlatan Hellseher <[email protected]>
AuthorDate: Sun Jan 4 21:07:57 2026 +0000
gnu: python-hicmatrix: Update to 17.2.
* gnu/packages/bioinformatics.scm (python-hicmatrix): Update to 17.2.
[arguments] <test-flags>: Skip one test.
<phases>: Remove 'find-blosc2.
[inputs]: Remove c-blosc2.
[native-inputs]: Remove python-wheel.
Change-Id: I45972befc224d9c85858d1c1ac9be885f63cdf01
---
gnu/packages/bioinformatics.scm | 40 +++++++++++++++++-----------------------
1 file changed, 17 insertions(+), 23 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index fa865ed9fd..4f16239805 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -20399,30 +20399,26 @@ includes operations like compartment, insulation or
peak calling.")
(define-public python-hicmatrix
(package
(name "python-hicmatrix")
- (version "17.1")
- (source
- (origin
- ;;Pypi sources do not contain any test
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/deeptools/HiCMatrix";)
- (commit version)))
- (file-name (git-file-name name version))
- (sha256
- (base32
- "14gq7r9b64ff56l5f8h8zc2i2y3xri646jl0anb74japqxrwvlna"))))
+ (version "17.2")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/deeptools/HiCMatrix";)
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "0pksh4k0k21jmiqvczpsb4i9i8ypip3a42s2j3j4z6iypakphakh"))))
(build-system pyproject-build-system)
(arguments
(list
- #:phases
- '(modify-phases %standard-phases
- ;; TODO: this must be fixed in python-tables
- (add-before 'check 'find-blosc2
- (lambda* (#:key inputs #:allow-other-keys)
- (setenv "LD_LIBRARY_PATH"
- (dirname (search-input-file
- inputs "/lib/libblosc2.so"))))))))
- (inputs (list c-blosc2))
+ ;; tests: 51 passed, 1 deselected, 2 xfailed, 1 xpassed, 8 warnings
+ #:test-flags
+ ;; Arrays are not equal
+ #~(list
"--deselect=hicmatrix/test/test_HiCMatrix.py::test_dist_list_to_dict")))
+ (native-inputs
+ (list python-pytest
+ python-setuptools))
(propagated-inputs
(list python-cooler
python-intervaltree
@@ -20430,8 +20426,6 @@ includes operations like compartment, insulation or
peak calling.")
python-pandas
python-scipy
python-tables))
- (native-inputs
- (list python-pytest python-setuptools python-wheel))
(home-page "https://github.com/deeptools/HiCMatrix/";)
(synopsis "HiCMatrix class for HiCExplorer and pyGenomeTracks")
(description
