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author | Ricardo Wurmus <rekado@elephly.net> | 2020-04-17 15:50:22 +0200 |
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committer | Ricardo Wurmus <rekado@elephly.net> | 2020-04-17 15:53:03 +0200 |
commit | d8fce2362bbd4d35c1b4b7dfb5babdf9a86bc4bb (patch) | |
tree | dbdcce1c8b7e00262c4336cabba1959e92a765d1 /gnu/packages | |
parent | c55beaecd8c5a36052b628cbd429da9ab7803c8d (diff) | |
download | guix-patches-d8fce2362bbd4d35c1b4b7dfb5babdf9a86bc4bb.tar guix-patches-d8fce2362bbd4d35c1b4b7dfb5babdf9a86bc4bb.tar.gz |
gnu: Add python-hicmatrix.
* gnu/packages/bioinformatics.scm (python-hicmatrix): New variable.
Diffstat (limited to 'gnu/packages')
-rw-r--r-- | gnu/packages/bioinformatics.scm | 40 |
1 files changed, 40 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 6fcabb6f9e..a2c168b01c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -13677,6 +13677,46 @@ storage format, called @code{cool}, used to store genomic interaction data, such as Hi-C contact matrices.") (license license:bsd-3))) +(define-public python-hicmatrix + (package + (name "python-hicmatrix") + (version "12") + (source + (origin + ;; Version 12 is not available on pypi. + (method git-fetch) + (uri (git-reference + (url "https://github.com/deeptools/HiCMatrix.git") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1xhdyx16f3brgxgxybixdi64ki8nbbkq5vk4h9ahi11pzpjfn1pj")))) + (build-system python-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'relax-requirements + (lambda _ + (substitute* '("requirements.txt" + "setup.py") + (("cooler *=+ *0.8.5") + "cooler==0.8.*")) + #t))))) + (propagated-inputs + `(("python-cooler" ,python-cooler) + ("python-intervaltree" ,python-intervaltree) + ("python-numpy" ,python-numpy) + ("python-pandas" ,python-pandas) + ("python-scipy" ,python-scipy) + ("python-tables" ,python-tables))) + (home-page "https://github.com/deeptools/HiCMatrix/") + (synopsis "HiCMatrix class for HiCExplorer and pyGenomeTracks") + (description + "This helper package implements the @code{HiCMatrix} class for +the HiCExplorer and pyGenomeTracks packages.") + (license license:gpl3+))) + (define-public python-hicexplorer (package (name "python-hicexplorer") |