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01/01: gnu: Add muscle.
From: |
Ben Woodcroft |
Subject: |
01/01: gnu: Add muscle. |
Date: |
Sat, 30 Apr 2016 05:46:55 +0000 |
benwoodcroft pushed a commit to branch master
in repository guix.
commit 324efb88880834bbe9bb55387b63dafd600e93e9
Author: Ben Woodcroft <address@hidden>
Date: Sat Jan 16 22:12:23 2016 +1000
gnu: Add muscle.
* gnu/packages/bioinformatics.scm (muscle): New variable.
---
gnu/packages/bioinformatics.scm | 35 +++++++++++++++++++++++++++++++++++
1 file changed, 35 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 620439f..079fd46 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -2548,6 +2548,41 @@ RNA-Seq, the MISO model uses Bayesian inference to
compute the probability
that a read originated from a particular isoform.")
(license license:gpl2)))
+(define-public muscle
+ (package
+ (name "muscle")
+ (version "3.8.1551")
+ (source (origin
+ (method url-fetch/tarbomb)
+ (file-name (string-append name "-" version))
+ (uri (string-append
+ "http://www.drive5.com/muscle/muscle_src_"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "0bj8kj7sdizy3987zx6w7axihk40fk8rn76mpbqqjcnd64i5a367"))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:make-flags (list "LDLIBS = -lm")
+ #:phases
+ (modify-phases %standard-phases
+ (delete 'configure)
+ (replace 'check
+ ;; There are no tests, so just test if it runs.
+ (lambda _ (zero? (system* "./muscle" "-version"))))
+ (replace 'install
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let* ((out (assoc-ref outputs "out"))
+ (bin (string-append out "/bin")))
+ (install-file "muscle" bin)))))))
+ (home-page "http://www.drive5.com/muscle")
+ (synopsis "Multiple sequence alignment program")
+ (description
+ "MUSCLE aims to be a fast and accurate multiple sequence alignment
+program for nucleotide and protein sequences.")
+ ;; License information found in 'muscle -h' and usage.cpp.
+ (license license:public-domain)))
+
(define-public orfm
(package
(name "orfm")