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authorRicardo Wurmus <rekado@elephly.net>2022-12-12 11:16:17 +0100
committerRicardo Wurmus <rekado@elephly.net>2022-12-13 00:08:54 +0100
commite84042fdd4ac2f903224e1b5f366537a22b4d593 (patch)
tree4ee4dbdc54a7fa070ae06a2059f071ccacf0e94e /gnu/packages
parent1369b53d49769250cad24683ffc033302f9c5045 (diff)
downloadguix-e84042fdd4ac2f903224e1b5f366537a22b4d593.tar
guix-e84042fdd4ac2f903224e1b5f366537a22b4d593.tar.gz
gnu: cnvkit: Update to 0.9.9.
* gnu/packages/bioinformatics.scm (cnvkit): Update to 0.9.9. [build-system]: Use pyproject-build-system. [arguments]: Relax restriction on python-joblib. [propagated-inputs]: Add python-pomegranate and python-scikit-learn.
Diffstat (limited to 'gnu/packages')
-rw-r--r--gnu/packages/bioinformatics.scm21
1 files changed, 16 insertions, 5 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index e8a8ddc361..5e2e0796a0 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -14225,7 +14225,7 @@ polymorphisms) and indels with respect to a reference genome and more.")
(define-public cnvkit
(package
(name "cnvkit")
- (version "0.9.5")
+ (version "0.9.9")
(source
(origin
(method git-fetch)
@@ -14234,17 +14234,28 @@ polymorphisms) and indels with respect to a reference genome and more.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "0g2f78k68yglmj4fsfmgs8idqv3di9aj53fg0ld0hqljg8chhh82"))))
- (build-system python-build-system)
+ (base32 "1q4l7jhr1k135an3n9aa9wsid5lk6fwxb0hcldrr6v6y76zi4gj1"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:phases
+ '(modify-phases %standard-phases
+ ;; See upstream commit eee0f6eaec57d5c6e58142d661979f3aacc5f76a
+ (add-after 'unpack 'compatibility
+ (lambda _
+ (substitute* "setup.py"
+ (("'joblib.*") "")))))))
(propagated-inputs
(list python-biopython
python-future
python-matplotlib
python-numpy
- python-reportlab
python-pandas
- python-pysam
+ python-pomegranate
python-pyfaidx
+ python-pysam
+ python-reportlab
+ python-scikit-learn
python-scipy
;; R packages
r-dnacopy))