diff options
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 26 |
1 files changed, 12 insertions, 14 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 0ac4db05440..baa3014188c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -20191,35 +20191,33 @@ bgzipped text file that contains a pair of genomic coordinates per line.") (define-public python-pyfaidx (package (name "python-pyfaidx") - (version "0.7.2.1") + (version "0.9.0.3") (source (origin (method url-fetch) (uri (pypi-uri "pyfaidx" version)) (sha256 (base32 - "182ia2zg026lgphv68agxm9imw7649z9pdhfn8zkalrxkq5d5w1h")))) + "0yaa64n5m4wxc02lxw6j9dzjk65rxdbak21dlvwhdjwdv4l4p2v4")))) (build-system pyproject-build-system) (arguments (list - #:test-flags - ;; These tests require the download of large fasta.gz files. - '(list "--ignore=tests/test_Fasta_bgzip.py") + ;; tests: 107 failed, 54 passed, 8 skipped, 7 xfailed, 14 errors + #:tests? #f ;most of them need remote data #:phases #~(modify-phases %standard-phases - (add-after 'unpack 'fix-version + (add-before 'build 'set-version (lambda _ - (substitute* "pyproject.toml" - (("dynamic = \\[\"version\"\\]") - (string-append "version = \"" #$version "\"")))))))) + (setenv "SETUPTOOLS_SCM_PRETEND_VERSION" #$version)))))) (native-inputs - (list (libc-utf8-locales-for-target) ;tests need "en_US.utf8" + (list python-biopython python-fsspec - python-mock python-numpy + ;; python-pyfasta python-pytest - python-pytest-cov - python-wheel)) - (propagated-inputs (list python-setuptools)) + python-setuptools + python-setuptools-scm)) + (propagated-inputs + (list python-packaging)) (home-page "http://mattshirley.com") (synopsis "Random access to fasta subsequences") (description |