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| author | Ricardo Wurmus <rekado@elephly.net> | 2024-12-02 10:49:06 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2024-12-02 10:49:06 +0100 |
| commit | 2756c660fb2d9e2fe3e1fd0898e4d7038c8273c7 (patch) | |
| tree | 8d3fcb3c0a5111616e0b3a932dd8ebbd1e0bffb5 | |
| parent | 207c69e40d3dca947137dbfcd0564e610b17832d (diff) | |
| download | guix-2756c660fb2d9e2fe3e1fd0898e4d7038c8273c7.tar guix-2756c660fb2d9e2fe3e1fd0898e4d7038c8273c7.tar.gz | |
gnu: python-pairtools: Update to 1.1.0-fix.
* gnu/packages/bioinformatics.scm (python-pairtools): Update to 1.1.0-fix.
[build-system]: Use pyproject-build-system.
[arguments]: Add phase 'patch-setup.py.
[native-inputs]: Add python-pytest-cov, python-setuptools, and python-wheel.
Change-Id: Ifa3c12de228420d8fdd7b0053bb9da80b9b3efe4
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 24 |
1 files changed, 17 insertions, 7 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 82d4e84b6c..4e850ab562 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3572,20 +3572,26 @@ e.g. microbiome samples, genomes, metagenomes.") (define-public python-pairtools (package (name "python-pairtools") - (version "1.0.2") + (version "1.1.0-fix") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/open2c/pairtools") - (commit (string-append "v" version)))) + (commit (string-append "pairtools-v" version)))) (file-name (git-file-name name version)) (sha256 (base32 - "0xn4cg4jq3rfn42h8rfwg0k6xkvihjrv32gwldb9y0jp05lzw9cs")))) - (build-system python-build-system) + "0983vw4kb6frjncsnml4ahw3l7sixg1paz80s119iah2i086cw06")))) + (build-system pyproject-build-system) (arguments - `(#:phases - (modify-phases %standard-phases + (list + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'patch-setup.py + (lambda _ + ;; __NUMPY_SETUP__ is undefined. + (substitute* "setup.py" + ((".*__builtins__.__NUMPY_SETUP.*") "")))) (add-after 'unpack 'fix-references (lambda _ (substitute* '("pairtools/cli/header.py" @@ -3598,7 +3604,11 @@ e.g. microbiome samples, genomes, metagenomes.") (with-directory-excursion "/tmp" (invoke "pytest" "-v")))))))) (native-inputs - (list python-cython python-pytest)) + (list python-cython + python-pytest + python-pytest-cov + python-setuptools + python-wheel)) (propagated-inputs (list htslib ; for bgzip, looked up in PATH samtools ; looked up in PATH |