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31/59: gnu: cnvkit: Update to 0.9.10.
From: |
guix-commits |
Subject: |
31/59: gnu: cnvkit: Update to 0.9.10. |
Date: |
Tue, 16 Jan 2024 07:16:28 -0500 (EST) |
rekado pushed a commit to branch master
in repository guix.
commit 3a58a3ef053558bf229530c1792de23ef2651c44
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 953a886270..8ae2b249a9 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -17907,7 +17907,7 @@ 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)
@@ -17916,17 +17916,8 @@ 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
@@ -17941,6 +17932,7 @@ 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
- 07/59: gnu: python-scipy: Update to 1.11.4., (continued)
- 07/59: gnu: python-scipy: Update to 1.11.4., guix-commits, 2024/01/16
- 05/59: gnu: Add python-pydevtool., guix-commits, 2024/01/16
- 02/59: gnu: Add pybind11-2.10., guix-commits, 2024/01/16
- 06/59: gnu: meson-python: Update to 0.15.0., guix-commits, 2024/01/16
- 12/59: gnu: python-pypng: Update to 0.20220715.0., guix-commits, 2024/01/16
- 18/59: gnu: python-kiwisolver: Update to 1.4.5., guix-commits, 2024/01/16
- 27/59: gnu: tadbit: Add missing input., guix-commits, 2024/01/16
- 28/59: gnu: python-pyani: Disable tests., guix-commits, 2024/01/16
- 15/59: gnu: python-pynndescent: Update to 0.5.11., guix-commits, 2024/01/16
- 25/59: gnu: python-poliastro: Make compatible with latest matplotlib., guix-commits, 2024/01/16
- 31/59: gnu: cnvkit: Update to 0.9.10.,
guix-commits <=
- 32/59: gnu: python-plastid: Update to 0.6.1., guix-commits, 2024/01/16
- 39/59: gnu: python-scikit-optimize: Make compatible with latest sklearn., guix-commits, 2024/01/16
- 37/59: gnu: scvelo: Make compatible with latest matplotlib., guix-commits, 2024/01/16
- 38/59: gnu: python-fit-nbinom: Disable tests., guix-commits, 2024/01/16
- 40/59: gnu: python-hicmatrix: Update to 17.1., guix-commits, 2024/01/16
- 42/59: gnu: python-pint: Add missing input., guix-commits, 2024/01/16
- 41/59: gnu: python-hicexplorer: Make compatible with latest scipy., guix-commits, 2024/01/16
- 44/59: gnu: Add python-asyncinject., guix-commits, 2024/01/16
- 52/59: gnu: python-xarray: Update to 2023.12.0., guix-commits, 2024/01/16
- 53/59: gnu: python-dask: Propagate click., guix-commits, 2024/01/16