Patchwork [19/22] gnu: Add exonerate.

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Submitter Ben Woodcroft
Date July 27, 2016, 12:54 p.m.
Message ID <bad9befd01d59dee6ed1068a8322648404d3891c.1469622379.git.donttrustben@gmail.com>
Download mbox | patch
Permalink /patch/14045/
State New
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Comments

Ben Woodcroft - July 27, 2016, 12:54 p.m.
* gnu/packages/bioinformatics.scm (exonerate): New variable.
---
 gnu/packages/bioinformatics.scm | 29 +++++++++++++++++++++++++++++
 1 file changed, 29 insertions(+)
Leo Famulari - July 28, 2016, 10:22 p.m.
On Wed, Jul 27, 2016 at 10:54:20PM +1000, Ben Woodcroft wrote:
> * gnu/packages/bioinformatics.scm (exonerate): New variable.

> +    (version "2.2.0")

I see versions 2.3.0 and 2.4.0 are available. Why package the older version?

Patch

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 5ea2240..14ac57f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -51,6 +51,7 @@ 
   #:use-module (gnu packages gawk)
   #:use-module (gnu packages gcc)
   #:use-module (gnu packages gd)
+  #:use-module (gnu packages glib)
   #:use-module (gnu packages groff)
   #:use-module (gnu packages image)
   #:use-module (gnu packages java)
@@ -1917,6 +1918,34 @@  in structured XML format.  This can eliminate the need for writing custom
 software to answer ad hoc questions.")
     (license license:public-domain)))
 
+(define-public exonerate
+  (package
+    (name "exonerate")
+    (version "2.2.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri
+        (string-append
+         "http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/"
+         "exonerate-" version ".tar.gz"))
+       (sha256
+        (base32
+         "1zz5dxhpkrv5k892kcjp3wqsw5ml54qg88lmi2gk5yl82c5p58hf"))))
+    (build-system gnu-build-system)
+    (native-inputs
+     `(("pkg-config" ,pkg-config)))
+    (inputs
+     `(("glib" ,glib)))
+    (home-page
+     "https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate")
+    (synopsis "Generic tool for biological sequence alignment")
+    (description
+     "Exonerate is a generic tool for pairwise sequence comparison.  It allows
+the alignment of sequences using a many alignment models, either exhaustive
+dynamic programming or a variety of heuristics.")
+    (license license:gpl3)))
+
 (define-public express
   (package
     (name "express")