Patchwork [15/22] gnu: Add bpp-seq.

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Submitter Ben Woodcroft
Date July 27, 2016, 12:54 p.m.
Message ID <bb8877cdc27385d02432ea93e7d6a9879bb59488.1469622379.git.donttrustben@gmail.com>
Download mbox | patch
Permalink /patch/14039/
State New
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Ben Woodcroft - July 27, 2016, 12:54 p.m.
* gnu/packages/bioinformatics.scm (bpp-seq): New variable.
---
 gnu/packages/bioinformatics.scm | 34 ++++++++++++++++++++++++++++++++++
 1 file changed, 34 insertions(+)

Patch

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 4fb23a4..4ca890c 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -503,6 +503,40 @@  Bio++ intends to help programmers to write computer expensive programs, by
 providing them a set of re-usable tools.")
       (license license:cecill-c))))
 
+(define-public bpp-seq
+  ;; The last release was in 2014 and the recommended way to install from source
+  ;; is to clone the git repository, so we do this.
+  ;; http://biopp.univ-montp2.fr/wiki/index.php/Main_Page
+  (let ((commit "6cfa07965ce152e5598a89df2fa80a75973bfa33"))
+    (package
+      (name "bpp-seq")
+      (version (string-append "2.2.0-1." (string-take commit 7)))
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "http://biopp.univ-montp2.fr/git/bpp-seq")
+                      (commit commit)))
+                (file-name (string-append name "-" version "-checkout"))
+                (sha256
+                 (base32
+                  "1nys5jq7jqvdg40d91wsmj3q2yzy4276cp7sp44n67p468f27zf2"))))
+      (build-system cmake-build-system)
+      (arguments
+       `(#:parallel-build? #f
+         ;; If out-of-source, test data is not copied into the build directory
+         ;; so the tests fail.
+         #:out-of-source? #f))
+      (inputs
+       `(("bpp-core" ,bpp-core)
+         ("gcc" ,gcc-5))) ; Use GCC 5 as per 'bpp-core'.
+      (home-page "http://biopp.univ-montp2.fr")
+      (synopsis "Bio++ sequence library")
+      (description
+       "Bio++ is a set of C++ libraries for Bioinformatics, including sequence
+analysis, phylogenetics, molecular evolution and population genetics.  This
+library provides sequence-related modules.")
+      (license license:cecill-c))))
+
 (define-public blast+
   (package
     (name "blast+")