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gnu: Add python-baltica.

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* gnu/packages/bioinformatics.scm (python-baltica): New variable.
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Navid Afkhami 2023-08-01 13:46:37 +00:00 committed by Ricardo Wurmus
parent 34b56974df
commit 5a293d0830
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1 changed files with 48 additions and 0 deletions
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48
gnu/packages/bioinformatics.scm
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@ -5056,6 +5056,54 @@ (define-public edirect-go-programs
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")