diff options
| author | Navid Afkhami <navid.afkhami@mdc-berlin.de> | 2023-08-01 13:46:37 +0000 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-08-01 16:24:29 +0200 |
| commit | 5a293d0830aa9369e388d37fe767d5bf98af01b7 (patch) | |
| tree | e8bb01bb55c4278c823da61d0ad9e2f65c954cd6 /gnu/packages/bioinformatics.scm | |
| parent | 34b56974dfe720e5e30f04409ac216747d7e3f5c (diff) | |
gnu: Add python-baltica.
* gnu/packages/bioinformatics.scm (python-baltica): New variable.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 48 |
1 files changed, 48 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 6080c899af..d47940e0e2 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5056,6 +5056,54 @@ software to answer ad hoc questions.") go-golang-org-x-image go-golang-org-x-text)))) +(define-public python-baltica + (package + (name "python-baltica") + (version "1.1.2") + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/dieterich-lab/Baltica") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "001ac03v9pbqqzf9pv7v8gf0296ksa4f0v3wdmpa6m9701skqi4r")))) + (build-system pyproject-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + (replace 'check + (lambda* (#:key tests? #:allow-other-keys) + (when tests? + ;; The tests need to be run from elsewhere... + (mkdir-p "/tmp/test") + (copy-recursively ".tests" "/tmp/test") + (with-directory-excursion "/tmp/test" + (invoke "pytest" "-v" "--doctest-modules")))))))) + (propagated-inputs + (list gunicorn + python-anndata + python-click + python-flask + python-flask-wtf + python-h5py + python-numpy + python-psutil + python-pysam + python-pyyaml + python-scipy + snakemake-7)) + (native-inputs (list python-cython python-pyfakefs python-pytest)) + (home-page "https://github.com/dieterich-lab/Baltica") + (synopsis "Integrated splice junction usage analysis") + (description + "This framework facilitates the execution of @dfn{differential junction +usage} (DJU) methods. Additionally, it enables the integration of results from +multiple DJU methods.") + (license license:expat))) + (define-public python-bamnostic (package (name "python-bamnostic") |