diff options
author | Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> | 2015-02-20 17:43:08 +0100 |
---|---|---|
committer | Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> | 2015-03-02 11:32:10 +0100 |
commit | a2fb1492afe9e22102ee2404f1b546ee655ec7ac (patch) | |
tree | b2d32b02228d8f226e9b8a3470dd6e4b102ea1a4 /gnu/packages/bioinformatics.scm | |
parent | 8d12be1eb1226d795e260558168a9756b6900259 (diff) | |
download | guix-a2fb1492afe9e22102ee2404f1b546ee655ec7ac.tar.gz |
gnu: Add pybedtools.
* gnu/packages/bioinformatics.scm (python2-pybedtools): New variable.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r-- | gnu/packages/bioinformatics.scm | 33 |
1 files changed, 33 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b64dab73cd..a919da8b51 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -141,6 +141,39 @@ intervals from multiple files in widely-used genomic file formats such as BAM, BED, GFF/GTF, VCF.") (license license:gpl2))) +(define-public python2-pybedtools + (package + (name "python2-pybedtools") + (version "0.6.9") + (source (origin + (method url-fetch) + (uri (string-append + "https://pypi.python.org/packages/source/p/pybedtools/pybedtools-" + version ".tar.gz")) + (sha256 + (base32 + "1ldzdxw1p4y3g2ignmggsdypvqkcwqwzhdha4rbgpih048z5p4an")))) + (build-system python-build-system) + (arguments `(#:python ,python-2)) ; no Python 3 support + (inputs + `(("python-cython" ,python2-cython) + ("python-matplotlib" ,python2-matplotlib))) + (propagated-inputs + `(("bedtools" ,bedtools) + ("samtools" ,samtools))) + (native-inputs + `(("python-pyyaml" ,python2-pyyaml) + ("python-nose" ,python2-nose) + ("python-setuptools" ,python2-setuptools))) + (home-page "https://pythonhosted.org/pybedtools/") + (synopsis "Python wrapper for BEDtools programs") + (description + "pybedtools is a Python wrapper for Aaron Quinlan's BEDtools programs, +which are widely used for genomic interval manipulation or \"genome algebra\". +pybedtools extends BEDTools by offering feature-level manipulations from with +Python.") + (license license:gpl2+))) + (define-public bowtie (package (name "bowtie") |