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authorRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2015-04-15 17:46:35 +0200
committerRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2015-04-20 15:23:23 +0200
commit85c37e29a47b3c01db014fdbffc8f45905628903 (patch)
tree785870a4104434fc716e98ba761aa61c8eef170f /gnu/packages/bioinformatics.scm
parent40b084a32679a59061f736b8f199f86eda42fd1f (diff)
downloadpatches-85c37e29a47b3c01db014fdbffc8f45905628903.tar
patches-85c37e29a47b3c01db014fdbffc8f45905628903.tar.gz
gnu: Add Biopython.
* gnu/packages/bioinformatics.scm (python-biopython, python2-biopython): New variables.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r--gnu/packages/bioinformatics.scm33
1 files changed, 33 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index b1258220b4..551da4eafc 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -185,6 +185,39 @@ pybedtools extends BEDTools by offering feature-level manipulations from with
Python.")
(license license:gpl2+)))
+(define-public python-biopython
+ (package
+ (name "python-biopython")
+ (version "1.65")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append
+ "http://biopython.org/DIST/biopython-"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "13m8s9jkrw40zvdp1rl709n6lmgdh4f52aann7gzr6sfp0fwhg26"))))
+ (build-system python-build-system)
+ (inputs
+ `(("python-numpy" ,python-numpy)))
+ (native-inputs
+ `(("python-setuptools" ,python2-setuptools)))
+ (home-page "http://biopython.org/")
+ (synopsis "Tools for biological computation in Python")
+ (description
+ "Biopython is a set of tools for biological computation including parsers
+for bioinformatics files into Python data structures; interfaces to common
+bioinformatics programs; a standard sequence class and tools for performing
+common operations on them; code to perform data classification; code for
+dealing with alignments; code making it easy to split up parallelizable tasks
+into separate processes; and more.")
+ (license (license:non-copyleft "http://www.biopython.org/DIST/LICENSE"))))
+
+(define-public python2-biopython
+ (package (inherit (package-with-python2 python-biopython))
+ (inputs
+ `(("python2-numpy" ,python2-numpy)))))
+
(define-public bowtie
(package
(name "bowtie")