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| author | Sharlatan Hellseher <sharlatanus@gmail.com> | 2026-01-02 23:02:15 +0000 |
|---|---|---|
| committer | Rutherther <rutherther@ditigal.xyz> | 2026-01-25 21:21:00 +0100 |
| commit | 80ea353362328b8891b339c6b7fce6c76946d52e (patch) | |
| tree | b48ce29f729e0b1bedf2a6ac8e803fccc0ada7dc | |
| parent | 8cd522db2b3e2b95b1397d0e398b8615158eab9c (diff) | |
gnu: python-presto: Improve package, fix tests.
* gnu/packages/bioinformatics.scm (python-presto): Refresh package style.
[arguments] <test-flags>: Skip 3 tests.
[native-inputs]: Remove python-wheel.
Change-Id: I5992e127fd653aa04711647cf0a458586029b3d4
Signed-off-by: Rutherther <rutherther@ditigal.xyz>
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 36 |
1 files changed, 22 insertions, 14 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 2475162a0cd..0ac4db05440 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4779,18 +4779,35 @@ in a modular way.") (package (name "python-presto") (version "0.7.6") - (home-page "https://github.com/immcantation/presto") (source (origin (method git-fetch) (uri (git-reference - (url home-page) + (url "https://github.com/immcantation/presto") (commit version))) (file-name (git-file-name name version)) (sha256 - (base32 - "1mcngwrxiw8r1j26r5crf7j0dscvhg3b8g1is3j3vq5jpnyn8jmz")))) + (base32 "1mcngwrxiw8r1j26r5crf7j0dscvhg3b8g1is3j3vq5jpnyn8jmz")))) (build-system pyproject-build-system) + (arguments + (list + #:build-backend "setuptools.build_meta" + ;; tests: 29 passed, 6 skipped, 3 deselected, 8 warnings + #:test-flags + ;; FileNotFoundError: [Errno 2] No such file or directory: 'cd-hit-est' + #~(list "--ignore=tests/test_ClusterSets.py" + ;; TypeError: seq argument should be a Seq or MutableSeq object + #$@(map (lambda (test) (string-append "--deselect=" + "tests/" + "test_EstimateError.py::" + "TestEstimateError::" + test)) + (list "test_calculateDistances" + "test_countMismatches" + "test_initializeMismatchDictionary"))))) + (native-inputs + (list python-pytest + python-setuptools)) (propagated-inputs (list muscle python-biopython @@ -4799,16 +4816,7 @@ in a modular way.") python-pyyaml python-scipy vsearch)) - (native-inputs - (list python-pytest - python-setuptools - python-wheel)) - (arguments - (list - #:build-backend "setuptools.build_meta" - #:test-flags - ;; FileNotFoundError: [Errno 2] No such file or directory: 'cd-hit-est' - '(list "--ignore=tests/test_ClusterSets.py"))) + (home-page "https://github.com/immcantation/presto") (synopsis "The REpertoire Sequencing TOolkit") (description "Presto is a python toolkit for processing raw reads from high-throughput sequencing of B cell and T cell repertoires.") |