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[bug#60009] [PATCH 07/18] gnu: python-dna-features-viewer: Update to 3.1
From: |
Ricardo Wurmus |
Subject: |
[bug#60009] [PATCH 07/18] gnu: python-dna-features-viewer: Update to 3.1.1. |
Date: |
Mon, 12 Dec 2022 15:27:05 +0100 |
* gnu/packages/bioinformatics.scm (python-dna-features-viewer):
Update to 3.1.1.
[build-system]: Use pyproject-build-system.
[arguments]: Add build phase to fix a compatibility problem with biopython.
[propagated-inputs]: Add python-packaging.
---
gnu/packages/bioinformatics.scm | 23 ++++++++++++++++++-----
1 file changed, 18 insertions(+), 5 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ea33311a2c..371bf1077a 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -16597,18 +16597,31 @@ (define-public python-pybbi
(define-public python-dna-features-viewer
(package
(name "python-dna-features-viewer")
- (version "3.0.3")
+ (version "3.1.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "dna_features_viewer" version))
(sha256
(base32
- "0vci6kg2id6r6rh3cifq7ccnh7j0mb8iqg3hji6rva0ayrdqzafc"))))
- (build-system python-build-system)
- (arguments '(#:tests? #false)) ; there are none
+ "10a5pmh73spdgfml88zjqg1rn2j2zdxn06ir8a5q3arspyqvyqcb"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:tests? #false ;there are none
+ #:phases
+ '(modify-phases %standard-phases
+ ;; See
https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer/issues/73
+ ;; and
https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer/pull/74
+ (add-after 'unpack 'fix-biopython-compatibility
+ (lambda _
+ (substitute* "dna_features_viewer/biotools.py"
+ (("zip\\(aa1 \\+ \"\\*\", aa3 \\+ \\[\"\\*\"\\]\\)")
+ "zip(aa1 + ('*',), aa3 + ('*',))")))))))
(propagated-inputs
- (list python-biopython python-matplotlib))
+ (list python-biopython
+ python-matplotlib
+ python-packaging))
(home-page
"https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer")
(synopsis "Plot features from DNA sequences")
--
2.36.1
- [bug#60009] [PATCH 03/18] gnu: python-biopython: Update to 1.80., (continued)
- [bug#60009] [PATCH 03/18] gnu: python-biopython: Update to 1.80., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 10/18] gnu: python-apsw: Update to 3.40.0.0., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 13/18] gnu: python-marshmallow: Update to 3.19.0., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 04/18] gnu: python-hicmatrix: Update to 16., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 08/18] gnu: python-bokeh: Skip failing PIL test., Ricardo Wurmus, 2022/12/12
[bug#60009] [PATCH 11/18] gnu: python-cgatcore: Update to 0.6.14., Ricardo Wurmus, 2022/12/12
[bug#60009] [PATCH 07/18] gnu: python-dna-features-viewer: Update to 3.1.1.,
Ricardo Wurmus <=
[bug#60009] [PATCH 05/18] gnu: python-pygenometracks: Update to 3.5., Ricardo Wurmus, 2022/12/12
[bug#60009] [PATCH 06/18] gnu: python-hicexplorer: Update to 3.7.2., Ricardo Wurmus, 2022/12/12
[bug#60009] [PATCH 12/18] gnu: python-flask-restful: Update to 0.3.9., Ricardo Wurmus, 2022/12/12
[bug#60009] [PATCH 02/18] gnu: python-hyperopt: Update to 0.2.7., Ricardo Wurmus, 2022/12/12
[bug#60009] [PATCH 09/18] gnu: sqlite-next: Update to 3.40.0., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 09/18] gnu: sqlite-next: Update to 3.40.0., zimoun, 2022/12/12
- [bug#60009] [PATCH 09/18] gnu: sqlite-next: Update to 3.40.0., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 09/18] gnu: sqlite-next: Update to 3.40.0., Simon Tournier, 2022/12/12
- [bug#60009] [PATCH 09/18] gnu: sqlite-next: Update to 3.40.0., Ricardo Wurmus, 2022/12/12
- [bug#60009] [PATCH 09/18] gnu: sqlite-next: Update to 3.40.0., Simon Tournier, 2022/12/12