gnu: Add python-baltica.
* gnu/packages/bioinformatics.scm (python-baltica): New variable.
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@ -5056,6 +5056,54 @@ (define-public edirect-go-programs
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go-golang-org-x-image
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go-golang-org-x-text))))
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(define-public python-baltica
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(package
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(name "python-baltica")
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(version "1.1.2")
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/dieterich-lab/Baltica")
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(commit (string-append "v" version))))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"001ac03v9pbqqzf9pv7v8gf0296ksa4f0v3wdmpa6m9701skqi4r"))))
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(build-system pyproject-build-system)
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(arguments
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(list
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#:phases
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'(modify-phases %standard-phases
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(replace 'check
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(lambda* (#:key tests? #:allow-other-keys)
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(when tests?
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;; The tests need to be run from elsewhere...
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(mkdir-p "/tmp/test")
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(copy-recursively ".tests" "/tmp/test")
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(with-directory-excursion "/tmp/test"
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(invoke "pytest" "-v" "--doctest-modules"))))))))
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(propagated-inputs
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(list gunicorn
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python-anndata
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python-click
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python-flask
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python-flask-wtf
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python-h5py
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python-numpy
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python-psutil
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python-pysam
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python-pyyaml
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python-scipy
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snakemake-7))
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(native-inputs (list python-cython python-pyfakefs python-pytest))
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(home-page "https://github.com/dieterich-lab/Baltica")
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(synopsis "Integrated splice junction usage analysis")
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(description
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"This framework facilitates the execution of @dfn{differential junction
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usage} (DJU) methods. Additionally, it enables the integration of results from
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multiple DJU methods.")
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(license license:expat)))
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(define-public python-bamnostic
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(package
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(name "python-bamnostic")
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