diff options
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 54 |
1 files changed, 32 insertions, 22 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1af7e21245a..c08339bfd33 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -14426,36 +14426,46 @@ quality control are provided.") (define-public gdc-client (package (name "gdc-client") - (version "1.6.0") + (version "2.3") (source (origin (method git-fetch) (uri (git-reference - (url "https://github.com/NCI-GDC/gdc-client.git") - (commit version))) + (url "https://github.com/NCI-GDC/gdc-client.git") + (commit version))) (file-name (git-file-name name version)) (sha256 - (base32 "0cagawlzjwj3wam10lv64xgbfx4zcnzxi5sjpsdhq7rn4z24mzc2")))) + (base32 "1yzd8j3p7w9x00qj6mx8kvlv253063pdnf7ixpkqmmwzbjhv072s")))) (build-system pyproject-build-system) (arguments - `(#:phases (modify-phases %standard-phases - (add-after 'unpack 'relax-requirements - (lambda _ - (substitute* "requirements.txt" - (("==") - ">="))))))) - (inputs (list python-cryptography - python-intervaltree - python-jsonschema - python-lxml - python-ndg-httpsclient - python-progressbar2 - python-pyasn1 - python-pyopenssl - python-pyyaml - python-requests - python-termcolor)) - (native-inputs (list python-setuptools python-wheel)) + (list + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'relax-requirements + (lambda _ + (substitute* "setup.cfg" + (("intervaltree~=3.0.2") "intervaltree") + (("termcolor~=1.1.0") "termcolor")))) + (add-after 'unpack 'fix-pytest-config + (lambda _ + (substitute* "pyproject.toml" + ((" --cov=gdc_client --cov-report term") ""))))))) + (native-inputs + (list python-flask + python-httmock + python-moto + python-pytest + python-requests-mock + python-setuptools)) + (inputs + (list python-importlib-metadata + python-intervaltree + python-jsonschema + python-lxml + python-progressbar2 + python-pyyaml + python-requests + python-termcolor)) (home-page "https://gdc.nci.nih.gov/access-data/gdc-data-transfer-tool") (synopsis "GDC data transfer tool") (description |