guix_mirror_bot pushed a commit to branch master
in repository guix.
commit 5571db77815e74bba861f8a105ca10b520579feb
Author: Sharlatan Hellseher <[email protected]>
AuthorDate: Thu Oct 23 08:55:48 2025 +0100
gnu: instrain: Update to 1.10.0-0.6180be7.
* gnu/packages/bioinformatics.scm (instrain): Update to
6180be7b49a61b7e1ffe9f1489da5c6aa2ff9ac3 commit.
[arguments]: Use G-Expressions.
<phases>: Add 'relax-requirements.
[native-inputs]: Remove python-boto3, python-pytest, and python-wheel.
Change-Id: I5cf37e5128a962007aa9d4e8a8ffa3da474e7c6f
---
gnu/packages/bioinformatics.scm | 32 +++++++++++++++++++-------------
1 file changed, 19 insertions(+), 13 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 067fb5cb86..41a0ead9d0 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -20178,26 +20178,31 @@ set.")
(define-public instrain
(package
(name "instrain")
- (version "1.9.0")
+ ;; Git repository does not tag releases, use the latest commit from master
+ ;; branch.
+ (properties '((commit . "6180be7b49a61b7e1ffe9f1489da5c6aa2ff9ac3")
+ (revision . "0")))
+ (version (git-version "1.10.0"
+ (assoc-ref properties 'revision)
+ (assoc-ref properties 'commit)))
(source
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/MrOlm/instrain";)
- ;; There are no tags.
- (commit "168f3f777b45139a9f6099f68974105b45e2d8ba")))
+ (url "https://github.com/MrOlm/instrain";)
+ (commit (assoc-ref properties 'commit))))
(file-name (git-file-name name version))
(sha256
- (base32
- "1wc69ggyiacm1slb678239lqmf1g5dlb4alwsbp14gi6393gj9fg"))))
+ (base32 "1njsxjf3248121yw3q1ig6asf6b3wa5fgjfyc6dkgk6nd4ih8wni"))))
(build-system pyproject-build-system)
(arguments
(list
;; Tests assume that test files exist (they don't) and are located in
- ;; the developer's home directory.
+ ;; the developer's home directory, see:
+ ;; <https://github.com/MrOlm/inStrain/issues/218>.
#:tests? #false
#:phases
- '(modify-phases %standard-phases
+ #~(modify-phases %standard-phases
(add-after 'unpack 'patch-relative-imports
(lambda _
(substitute* (find-files "test/tests" "test_.*\\.py")
@@ -20208,7 +20213,11 @@ set.")
(("from s3_utils")
"from .s3_utils")
(("from job_utils")
- "from .job_utils")))))))
+ "from .job_utils"))))
+ (add-after 'unpack 'relax-requirements
+ (lambda _
+ (substitute* "setup.py"
+ ((".*pytest.*") "")))))))
(propagated-inputs
(list python-biopython-1.73
python-h5py
@@ -20222,10 +20231,7 @@ set.")
python-seaborn
python-tqdm))
(native-inputs
- (list python-boto3
- python-pytest
- python-setuptools
- python-wheel))
+ (list python-setuptools))
(home-page "https://github.com/MrOlm/inStrain";)
(synopsis "Calculation of strain-level metrics")
(description
