guix_mirror_bot pushed a commit to branch python-team
in repository guix.
commit 6f5eea259b994c5f31963602e4bf1ddf8d4de1a5
Author: Sharlatan Hellseher <[email protected]>
AuthorDate: Fri Jan 2 15:25:36 2026 +0000
gnu: python-graphtools: Update to 2.1.0.
* gnu/packages/graph.scm (python-graphtools): Update to 2.1.0.
[arguments]<phases>: Remove 'patch-tets; use default 'check; add
'fix-pytest-config.
[native-inputs]: Remove util-linux, python-pynose, and python-nose2; add
python-pytest and python-setuptools.
Change-Id: If5561d5c4de1a9c78e7d4baa7011bd0ad622c4ef
---
gnu/packages/graph.scm | 40 +++++++++++++---------------------------
1 file changed, 13 insertions(+), 27 deletions(-)
diff --git a/gnu/packages/graph.scm b/gnu/packages/graph.scm
index 44cc0a6751..6f1dc1088c 100644
--- a/gnu/packages/graph.scm
+++ b/gnu/packages/graph.scm
@@ -333,38 +333,25 @@ algorithm for community detection in large networks.")
(define-public python-graphtools
(package
(name "python-graphtools")
- (version "1.5.3")
+ (version "2.1.0")
(source
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/KrishnaswamyLab/graphtools";)
- (commit (string-append "v" version))))
+ (url "https://github.com/KrishnaswamyLab/graphtools";)
+ (commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "1aaxhij4y5z2vvc34qnb5py6nw3ciz35a3z4lfr223f9kvfpqgak"))))
+ (base32 "03zbdaqkg2ply7d0zr75rfjncg6xk45bamn1z6xpaqs9nh69hvk8"))))
(build-system pyproject-build-system)
(arguments
(list
+ ;; tests: 231 passed, 2 warnings
#:phases
- '(modify-phases %standard-phases
- (add-after 'unpack 'patch-tests
- (lambda _
- ;; The warning message has changed in numpy.
- (substitute* "test/test_data.py"
- (("\"A sparse matrix was passed, but.*array.\",")
- "\"Sparse data was passed, but dense data is required. Use
'.toarray()' to convert to a dense numpy array.\",")
- ;; anndata prints a warning that causes the test to fail.
- (("import warnings" m)
- (string-append m "\nwarnings.filterwarnings(\"ignore\")")))))
- (replace 'check
- (lambda* (#:key tests? #:allow-other-keys)
- (when tests?
- ;; Incompatibility with sklearn.
- ;; 'kNNLandmarkGraph' object has no attribute '_landmark_op'
- (delete-file "test/test_landmark.py")
- (setenv "LOKY_MAX_CPU_COUNT" "1")
- (invoke "nose2" "-v")))))))
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'fix-pytest-config
+ (lambda _
+ (delete-file "pytest.ini"))))))
(propagated-inputs
(list python-deprecated
python-future
@@ -374,13 +361,12 @@ algorithm for community detection in large networks.")
python-scipy
python-tasklogger))
(native-inputs
- (list util-linux ;for lscpu
- python-anndata
- python-pynose
- python-nose2
+ (list python-anndata
+ python-igraph
python-pandas
python-parameterized
- python-igraph))
+ python-pytest
+ python-setuptools))
(home-page "https://github.com/KrishnaswamyLab/graphtools";)
(synopsis "Tools for building and manipulating graphs in Python")
(description "This package provides tools for building and manipulating
