Simon Tournier wrote 11 months ago
(address . guix-patches@gnu.org)(name . Simon Tournier)(address . zimon.toutoune@gmail.com)
7ce52e967f67a161bbfc172e6494863a3355f8ab.1712580113.git.zimon.toutoune@gmail.com
* gnu/packages/bioinformatics.scm (python-deeptools): Update to 3.5.5.
[build-system]: Replace by pyproject-build-system.
[arguments]: Add phase that fixes 'test/test_tools.py'.
Change-Id: Ibb51939275c96df2c4a1e248a03d683f2f4904ac
---
gnu/packages/bioinformatics.scm | 23 +++++++++++++++++++----
1 file changed, 19 insertions(+), 4 deletions(-)
Toggle diff (52 lines)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 7861987704..452ec1d829 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4615,7 +4615,7 @@ (define-public python-deeptoolsintervals
(define-public python-deeptools
(package
(name "python-deeptools")
- (version "3.4.3")
+ (version "3.5.5")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -4624,8 +4624,23 @@ (define-public python-deeptools
(file-name (git-file-name name version))
(sha256
(base32
- "0l09vyynz6s6w7fnyd94rpys4a6aja6kp4gli64pngdxdz3md1nl"))))
- (build-system python-build-system)
+ "0mgcs03amrd5157drbm6ikdg0m0szrn9xbflariz2zrrnqpsai6s"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'fix-test
+ (lambda _
+ (substitute* "deeptools/test/test_tools.py"
+ (("e_ver = _p")
+ "e_ver = \".\" + _p + \"-real\""))
+ (substitute* "deeptools/multiBigwigSummary.py"
+ (("version='multiBigwigSummary")
+ "version='%(prog)s"))
+ (substitute* "deeptools/plotCoverage.py"
+ (("version='plotCoverage")
+ "version='%(prog)s")))))))
(native-inputs
(list python-mock python-nose))
(propagated-inputs
@@ -4637,7 +4652,7 @@ (define-public python-deeptools
python-pysam
python-scipy
python-deeptoolsintervals
- python-plotly-2.4.1))
+ python-plotly))
(home-page "https://pypi.org/project/deepTools/")
(synopsis "Useful tools for exploring deep sequencing data")
(description "This package addresses the challenge of handling large amounts
base-commit: cd45294d576975a3bff2f755764a3f46f09ea6f9
--
2.41.0