From e8cffdb9e7a2447657b3f700b2f0beb00ad0f98e Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
Date: Wed, 3 Jun 2015 17:44:20 +0200
Subject: [PATCH] gnu: Add BioPerl.

* gnu/packages/bioinformatics.scm (bioperl-minimal): New variable.
---
 gnu/packages/bioinformatics.scm | 36 ++++++++++++++++++++++++++++++++++++
 1 file changed, 36 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index fd1c1dd..8d59768 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -225,6 +225,42 @@ pybedtools extends BEDTools by offering feature-level manipulations from with
 Python.")
     (license license:gpl2+)))
 
+(define-public bioperl-minimal
+  (package
+    (name "bioperl-minimal")
+    (version "1.6.924")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "mirror://cpan/authors/id/C/CJ/CJFIELDS/BioPerl-"
+                           version ".tar.gz"))
+       (sha256
+        (base32
+         "1l3npcvvvwjlhkna9dndpfv1hklhrgva013kw96m0n1wpd37ask1"))))
+    (build-system perl-build-system)
+    (inputs
+     `(("perl-module-build" ,perl-module-build)
+       ("perl-data-stag" ,perl-data-stag)
+       ("perl-libwww" ,perl-libwww)
+       ("perl-uri" ,perl-uri)))
+    (native-inputs
+     `(("perl-test-most" ,perl-test-most)))
+    (native-search-paths (list (search-path-specification
+                                (variable "PERL5LIB")
+                                (files '("lib/perl5/site_perl")))))
+    (home-page "http://search.cpan.org/dist/BioPerl")
+    (synopsis "Bioinformatics toolkit")
+    (description
+     "BioPerl is the product of a community effort to produce Perl code which
+is useful in biology.  Examples include Sequence objects, Alignment objects
+and database searching objects.  These objects not only do what they are
+advertised to do in the documentation, but they also interact - Alignment
+objects are made from the Sequence objects, Sequence objects have access to
+Annotation and SeqFeature objects and databases, Blast objects can be
+converted to Alignment objects, and so on.  This means that the objects
+provide a coordinated and extensible framework to do computational biology.")
+    (license (package-license perl))))
+
 (define-public python-biopython
   (package
     (name "python-biopython")
-- 
2.1.0