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| author | Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> | 2018-09-05 16:00:04 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2018-09-10 16:50:26 +0200 |
| commit | 5bb9e0af8dce2d4a9e66c9f673daa3af8fbae99b (patch) | |
| tree | 9c650d6f29b3baeaf1724ae3654fcda190c4fcb3 | |
| parent | 80f4db91b17ff5d82260c9194ec09a408f854455 (diff) | |
| download | patches-5bb9e0af8dce2d4a9e66c9f673daa3af8fbae99b.tar patches-5bb9e0af8dce2d4a9e66c9f673daa3af8fbae99b.tar.gz | |
gnu: Add python-cooler.
* gnu/packages/bioinformatics.scm (python-cooler): New variable.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 37 |
1 files changed, 37 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index d66d9ef40e..65da049c79 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -13578,3 +13578,40 @@ bgzipped text file that contains a pair of genomic coordinates per line.") "This package provides procedures for efficient pythonic random access to fasta subsequences.") (license license:bsd-3))) + +(define-public python-cooler + (package + (name "python-cooler") + (version "0.7.11") + (source + (origin + (method url-fetch) + (uri (pypi-uri "cooler" version)) + (sha256 + (base32 + "08k5nxnxa6qsbk15z5z0q01n28042k87wi4905hh95rzqib15mhx")))) + (build-system python-build-system) + (propagated-inputs + `(("python-biopython" ,python-biopython) + ("python-click" ,python-click) + ("python-cytoolz" ,python-cytoolz) + ("python-dask" ,python-dask) + ("python-h5py" ,python-h5py) + ("python-multiprocess" ,python-multiprocess) + ("python-pandas" ,python-pandas) + ("python-pyfaidx" ,python-pyfaidx) + ("python-pypairix" ,python-pypairix) + ("python-pysam" ,python-pysam) + ("python-scipy" ,python-scipy))) + (native-inputs + `(("python-mock" ,python-mock) + ("python-nose" ,python-nose) + ("python-numpydoc" ,python-numpydoc) + ("python-sphinx" ,python-sphinx))) + (home-page "https://github.com/mirnylab/cooler") + (synopsis "Sparse binary format for genomic interaction matrices") + (description + "Cooler is a support library for a sparse, compressed, binary persistent +storage format, called @code{cool}, used to store genomic interaction data, +such as Hi-C contact matrices.") + (license license:bsd-3))) |