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aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=mdc-berlin.de header.s=mdc header.b=kVib4pJz; dmarc=fail reason="SPF not aligned (relaxed)" header.from=mdc-berlin.de (policy=none); spf=pass (aspmx1.migadu.com: domain of "guix-patches-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="guix-patches-bounces+larch=yhetil.org@gnu.org" X-Migadu-Spam-Score: 7.61 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=mdc-berlin.de header.s=mdc header.b=kVib4pJz; dmarc=fail reason="SPF not aligned (relaxed)" header.from=mdc-berlin.de (policy=none); spf=pass (aspmx1.migadu.com: domain of "guix-patches-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="guix-patches-bounces+larch=yhetil.org@gnu.org" X-Migadu-Queue-Id: E9ECD3B3CC X-Spam-Score: 7.61 X-Migadu-Scanner: scn0.migadu.com X-TUID: 3ZyvAm3Ohc1M X-Debbugs-Cc: rekado@elephly.net * gnu/packages/bioinformatics.scm (python-cooltools): New variable. --- gnu/packages/bioinformatics.scm | 45 +++++++++++++++++++++++++++++++++ 1 file changed, 45 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1478ba0c46..6f228fb907 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -12977,6 +12977,51 @@ (define-public python-cooler such as Hi-C contact matrices.") (license license:bsd-3))) +(define-public python-cooltools + (package + (name "python-cooltools") + (version "0.5.1") + (source (origin + (method url-fetch) + (uri (pypi-uri "cooltools" version)) + (sha256 + (base32 + "08hyzd3kazr87nvv6rwp5i1g9rwj7jmrly925lqnvippz4wp7k4g")))) + (build-system python-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + (replace 'check + (lambda* (#:key tests? #:allow-other-keys) + (setenv "MPLCONFIGDIR" "/tmp") + (when tests? + (invoke "pytest" "-v"))))))) + (native-inputs + (list python-cython + python-pytest)) + (propagated-inputs + (list python-bioframe + python-click + python-cooler + python-joblib + python-matplotlib + python-multiprocess + python-numba + python-numpy + python-pandas + python-scikit-image + python-scikit-learn + python-scipy)) + (home-page "https://github.com/open2c/cooltools") + (synopsis + "Analysis tools for genomic interaction data stored in .cool format") + (description + "This package provides necessary tools for the analysis of the genomic +interaction data stored in @code{.cool} format. This collection of tools includes +operations like compartment, insulation or peak calling.") + (license license:expat))) + (define-public python-hicmatrix (package (name "python-hicmatrix") -- 2.37.3