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31/48: gnu: cnvkit: Update to 0.9.10.
From: |
guix-commits |
Subject: |
31/48: gnu: cnvkit: Update to 0.9.10. |
Date: |
Thu, 11 Jan 2024 07:39:05 -0500 (EST) |
rekado pushed a commit to branch wip-python-science
in repository guix.
commit aaa126c07bb2f1edd1423ff2f019d2fd1cb79a36
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Tue Jan 9 13:14:21 2024 +0100
gnu: cnvkit: Update to 0.9.10.
* gnu/packages/bioinformatics.scm (cnvkit): Update to 0.9.10.
[arguments]: Remove.
[inputs]: Add r-minimal.
Change-Id: Iaa27fd3dddc507c7a955441f066d4b0e3b8f1757
---
gnu/packages/bioinformatics.scm | 14 +++-----------
1 file changed, 3 insertions(+), 11 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index b73a6f67f0..89bc519d68 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -17848,7 +17848,7 @@ polymorphisms) and indels with respect to a reference
genome and more.")
(define-public cnvkit
(package
(name "cnvkit")
- (version "0.9.9")
+ (version "0.9.10")
(source
(origin
(method git-fetch)
@@ -17857,17 +17857,8 @@ 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 "1q4l7jhr1k135an3n9aa9wsid5lk6fwxb0hcldrr6v6y76zi4gj1"))))
+ (base32 "0r303pqjg70zpxa564bavbfj99c6di0dafgqqwx2vh4vfsiif94q"))))
(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
@@ -17882,6 +17873,7 @@ polymorphisms) and indels with respect to a reference
genome and more.")
python-scipy
;; R packages
r-dnacopy))
+ (inputs (list r-minimal)) ;for tests
(home-page "https://cnvkit.readthedocs.org/")
(synopsis "Copy number variant detection from targeted DNA sequencing")
(description
- branch wip-python-science created (now 39497b115c), guix-commits, 2024/01/11
- 01/48: gnu: Add python-cython-0.29.35., guix-commits, 2024/01/11
- 04/48: gnu: Add python-pyproject-metadata-0.7., guix-commits, 2024/01/11
- 06/48: gnu: meson-python: Update to 0.15.0., guix-commits, 2024/01/11
- 14/48: gnu: python-scikit-learn: Update to 1.3.2., guix-commits, 2024/01/11
- 12/48: gnu: python-pypng: Update to 0.20220715.0., guix-commits, 2024/01/11
- 13/48: gnu: python-matplotx: Disable test_png test., guix-commits, 2024/01/11
- 21/48: gnu: python-seaborn: Update to 0.13.1., guix-commits, 2024/01/11
- 31/48: gnu: cnvkit: Update to 0.9.10.,
guix-commits <=
- 40/48: gnu: python-hicmatrix: Update to 17.1., guix-commits, 2024/01/11
- 41/48: gnu: python-hicexplorer: Make compatible with latest scipy., guix-commits, 2024/01/11
- 42/48: gnu: python-pint: Add missing input., guix-commits, 2024/01/11
- 09/48: gnu: python-lazy-loader: Update to 0.3., guix-commits, 2024/01/11
- 32/48: gnu: python-plastid: Update to 0.6.1., guix-commits, 2024/01/11
- 02/48: gnu: Add pybind11-2.10., guix-commits, 2024/01/11
- 11/48: gnu: python-scikit-image: Update to 0.22.0., guix-commits, 2024/01/11
- 10/48: gnu: python-imageio: Update to 2.33.1., guix-commits, 2024/01/11
- 08/48: gnu: python-tifffile: Update to 2023.12.9., guix-commits, 2024/01/11
- 15/48: gnu: python-pynndescent: Update to 0.5.11., guix-commits, 2024/01/11