summaryrefslogtreecommitdiff
path: root/gnu/packages/bioinformatics.scm
diff options
context:
space:
mode:
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r--gnu/packages/bioinformatics.scm21
1 files changed, 11 insertions, 10 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 0c12e7c874..b0ec57bda2 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -13238,18 +13238,14 @@ in RNA-seq data.")
(define-public python-scanpy
(package
(name "python-scanpy")
- (version "1.4")
- ;; Fetch from git because the pypi tarball does not include tests.
+ (version "1.4.5.1")
(source
(origin
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/theislab/scanpy.git")
- (commit version)))
- (file-name (git-file-name name version))
+ (method url-fetch)
+ (uri (pypi-uri "scanpy" version))
(sha256
(base32
- "0zn6x6c0cnm1a20i6isigwb51g3pr9zpjk8r1minjqnxi5yc9pm4"))))
+ "14kh1ji70xxhmri5q8sgcibsidhr6f221wxrcw8a5xvibj5da17j"))))
(build-system python-build-system)
(arguments
`(#:phases
@@ -13276,18 +13272,23 @@ in RNA-seq data.")
("python-igraph" ,python-igraph)
("python-joblib" ,python-joblib)
("python-louvain" ,python-louvain)
+ ("python-legacy-api-wrap" ,python-legacy-api-wrap)
("python-matplotlib" ,python-matplotlib)
("python-natsort" ,python-natsort)
("python-networkx" ,python-networkx)
("python-numba" ,python-numba)
+ ("python-packaging" ,python-packaging)
("python-pandas" ,python-pandas)
+ ("python-patsy" ,python-patsy)
("python-scikit-learn" ,python-scikit-learn)
("python-scipy" ,python-scipy)
("python-seaborn" ,python-seaborn)
("python-statsmodels" ,python-statsmodels)
- ("python-tables" ,python-tables)))
+ ("python-tables" ,python-tables)
+ ("python-umap-learn" ,python-umap-learn)))
(native-inputs
- `(("python-pytest" ,python-pytest)))
+ `(("python-pytest" ,python-pytest)
+ ("python-setuptools-scm" ,python-setuptools-scm)))
(home-page "https://github.com/theislab/scanpy")
(synopsis "Single-Cell Analysis in Python.")
(description "Scanpy is a scalable toolkit for analyzing single-cell gene