[PATCH] gnu: Add clustal omega.

[PATCH] gnu: Add clustal omega.

[Ricardo Wurmus]

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Hi Guix,

here's yet another sequence aligner with a funny name.  This package
depends on argtable, for which I just submitted a patch.

~~ Ricardo


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From 9c5b3c537f42d0ea97f8421e26ca036d9c2ba5f9 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
Date: Fri, 27 Mar 2015 10:09:10 +0100
Subject: [PATCH] gnu: Add clustal omega.

* gnu/packages/bioinformatics.scm (clustal-omega): New variable.
---
 gnu/packages/bioinformatics.scm | 25 +++++++++++++++++++++++++
 1 file changed, 25 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index c8e6b48..18bc3a9 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -34,6 +34,7 @@
   #:use-module (gnu packages ncurses)
   #:use-module (gnu packages perl)
   #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages popt)
   #:use-module (gnu packages python)
   #:use-module (gnu packages statistics)
   #:use-module (gnu packages swig)
@@ -364,6 +365,30 @@ multiple sequence alignments.")
      "CLIPper is a tool to define peaks in CLIP-seq datasets.")
     (license license:gpl2)))
 
+(define-public clustal-omega
+  (package
+    (name "clustal-omega")
+    (version "1.2.1")
+    (source (origin
+              (method url-fetch)
+              (uri (string-append
+                    "http://www.clustal.org/omega/clustal-omega-"
+                    version ".tar.gz"))
+              (sha256
+               (base32
+                "02ibkx0m0iwz8nscg998bh41gg251y56cgh86bvyrii5m8kjgwqf"))))
+    (build-system gnu-build-system)
+    (inputs
+     `(("argtable" ,argtable)))
+    (home-page "http://www.clustal.org/omega/")
+    (synopsis "Multiple sequence aligner for protein and DNA/RNA")
+    (description
+     "Clustal-Omega is a general purpose multiple sequence alignment (MSA)
+program for protein and DNA/RNA.  It produces high quality MSAs and is capable
+of handling data-sets of hundreds of thousands of sequences in reasonable
+time.")
+    (license license:gpl2+)))
+
 (define-public crossmap
   (package
     (name "crossmap")
-- 
2.1.0

Re: [PATCH] gnu: Add clustal omega.

[Ludovic Courtès]

Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> skribis:

> From 9c5b3c537f42d0ea97f8421e26ca036d9c2ba5f9 Mon Sep 17 00:00:00 2001
> From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
> Date: Fri, 27 Mar 2015 10:09:10 +0100
> Subject: [PATCH] gnu: Add clustal omega.
>
> * gnu/packages/bioinformatics.scm (clustal-omega): New variable.

LGTM!

Ludo’.