diff options
| author | Ricardo Wurmus <rekado@elephly.net> | 2022-12-13 16:29:48 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-12-13 16:31:55 +0100 |
| commit | b339e181e1f9138c59934cdff330a73cc490cf32 (patch) | |
| tree | 7800bb0dbbc632092024491bda085eb10034b3fc | |
| parent | de30c74b639c8739263973d0e49344b727b2c163 (diff) | |
gnu: python-bx-python: Update to 0.9.0.
* gnu/packages/bioinformatics.scm (python-bx-python): Update to 0.9.0.
[build-system]: Use pyproject-build-system.
[arguments]: Add phase 'build-extensions and 'disable-cython-doctests.
[native-inputs]: Replace python-nose with python-pytest.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 21 |
1 files changed, 16 insertions, 5 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index f9a51910d9..1dae5982ea 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2252,23 +2252,34 @@ off-target reads for a capture method that targets CpG-rich region.") (define-public python-bx-python (package (name "python-bx-python") - (version "0.8.12") + (version "0.9.0") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/bxlab/bx-python") - (commit "f4e6a5c93e719db69b5798b6fdd9b167da358316"))) + (commit "4f4a48d3f227ae390c1b22072867ba86e347bdef"))) (file-name (git-file-name name version)) (sha256 (base32 - "0mclahslz34vq9x424jmzsxk0nmpm1j716fa8h3zwr9ssvch7skc")))) - (build-system python-build-system) + "1c914rw8phiw7zwzngz9i9hdciz5lq53drwdbpl2bd2sf5bj2biy")))) + (build-system pyproject-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + (add-before 'check 'build-extensions + (lambda _ + ;; Cython extensions have to be built before running the tests. + (invoke "python" "setup.py" "build_ext" "--inplace"))) + ;; Unrecognized argument. + (add-after 'unpack 'disable-cython-doctests + (lambda _ (substitute* "pytest.ini" (("--doctest-cython") ""))))))) (propagated-inputs (list python-numpy)) (inputs (list zlib)) (native-inputs - (list python-lzo python-nose python-cython)) + (list python-cython python-lzo python-pytest)) (home-page "https://github.com/bxlab/bx-python") (synopsis "Tools for manipulating biological data") (description |