guix_mirror_bot pushed a commit to branch python-team
in repository guix.
commit d0b356179656cc64e0c8c47fb889ea8c56c1d621
Author: Sharlatan Hellseher <[email protected]>
AuthorDate: Sat Jan 3 00:33:08 2026 +0000
gnu: cnvkit: Update to 0.9.12-0.52f367b.
* gnu/packages/bioinformatics.scm (cnvkit): Update to
52f367bd0edbf55cabaaa2fbcf68c8742dc97b4c commit.
[native-inputs]: Remove python-wheel.
Change-Id: I1d26ac113414b0d6428678b61acefa058d0af6f7
---
gnu/packages/bioinformatics.scm | 15 ++++++++++-----
1 file changed, 10 insertions(+), 5 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index dee0d59558..ef4847cc31 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -21143,20 +21143,25 @@ polymorphisms) and indels with respect to a reference
genome and more.")
(define-public cnvkit
(package
(name "cnvkit")
- (version "0.9.12")
+ ;; XXX: Compatability with NumPy 2 and Pomegranate 1.
+ (properties '((commit . "52f367bd0edbf55cabaaa2fbcf68c8742dc97b4c")
+ (revision . "0")))
+ (version (git-version "0.9.12"
+ (assoc-ref properties 'revision)
+ (assoc-ref properties 'commit)))
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/etal/cnvkit";)
- (commit (string-append "v" version))))
+ (commit (assoc-ref properties 'commit))))
(file-name (git-file-name name version))
(sha256
- (base32 "090yh17symcahddx399kcx0mcw4gdrcc2jil3p8lb92r8c8kglb5"))))
+ (base32 "0kr5r2nvvlip6mylwczck7ddn31l2xh9aal1xjzx036h71agrv27"))))
(build-system pyproject-build-system)
(arguments
(list
- ;; tests: 70 passed, 1 warning
+ ;; tests: 70 passed, 211 warnings
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'fix-pytest-config
@@ -21178,7 +21183,7 @@ polymorphisms) and indels with respect to a reference
genome and more.")
;; R packages
r-dnacopy))
(inputs (list r-minimal)) ;for tests
- (native-inputs (list python-pytest python-setuptools python-wheel))
+ (native-inputs (list python-pytest python-setuptools))
(home-page "https://cnvkit.readthedocs.org/";)
(synopsis "Copy number variant detection from targeted DNA sequencing")
(description
