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authorRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2018-09-05 16:00:02 +0200
committerRicardo Wurmus <rekado@elephly.net>2018-09-10 16:50:26 +0200
commit1f41f01c1499fb0aa5933b9b60d2a18c2bef9d5c (patch)
tree2e32df007af0de2cec71fc4e9a0728ace86eb0ac /gnu
parenta9d496b353e71f22e5ace5bff9319fc74dfb6643 (diff)
downloadpatches-1f41f01c1499fb0aa5933b9b60d2a18c2bef9d5c.tar
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gnu: Add python-pypairix.
* gnu/packages/bioinformatics.scm (python-pypairix): New variable.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm24
1 files changed, 24 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index dd8ed725d8..9b047c21b8 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -13532,3 +13532,27 @@ range envelopment. This library was designed to allow tagging text and time
intervals, where the intervals include the lower bound but not the upper
bound.")
(license license:asl2.0)))
+
+(define-public python-pypairix
+ (package
+ (name "python-pypairix")
+ (version "0.3.6")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "pypairix" version))
+ (sha256
+ (base32
+ "0zs92b74s5v4xy2h16s15f3z6l4nnbw8x8zyif7xx5xpafjn0xss"))))
+ (build-system python-build-system)
+ ;; FIXME: the tests fail because test.support cannot be loaded:
+ ;; ImportError: cannot import name 'support'
+ (arguments '(#:tests? #f))
+ (inputs
+ `(("zlib" ,zlib)))
+ (home-page "https://github.com/4dn-dcic/pairix")
+ (synopsis "Support for querying pairix-indexed bgzipped text files")
+ (description
+ "Pypairix is a Python module for fast querying on a pairix-indexed
+bgzipped text file that contains a pair of genomic coordinates per line.")
+ (license license:expat)))