gnu: Add bppsuite.

* gnu/packages/bioinformatics.scm (bppsuite): New variable.
This commit is contained in:
Ben Woodcroft 2016-07-12 16:04:02 +10:00
parent 159a701678
commit db7a344427
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1 changed files with 42 additions and 0 deletions

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@ -52,12 +52,14 @@
#:use-module (gnu packages gcc) #:use-module (gnu packages gcc)
#:use-module (gnu packages gd) #:use-module (gnu packages gd)
#:use-module (gnu packages gtk) #:use-module (gnu packages gtk)
#:use-module (gnu packages groff)
#:use-module (gnu packages image) #:use-module (gnu packages image)
#:use-module (gnu packages imagemagick) #:use-module (gnu packages imagemagick)
#:use-module (gnu packages java) #:use-module (gnu packages java)
#:use-module (gnu packages linux) #:use-module (gnu packages linux)
#:use-module (gnu packages logging) #:use-module (gnu packages logging)
#:use-module (gnu packages machine-learning) #:use-module (gnu packages machine-learning)
#:use-module (gnu packages man)
#:use-module (gnu packages maths) #:use-module (gnu packages maths)
#:use-module (gnu packages mpi) #:use-module (gnu packages mpi)
#:use-module (gnu packages ncurses) #:use-module (gnu packages ncurses)
@ -73,6 +75,7 @@
#:use-module (gnu packages statistics) #:use-module (gnu packages statistics)
#:use-module (gnu packages tbb) #:use-module (gnu packages tbb)
#:use-module (gnu packages tex) #:use-module (gnu packages tex)
#:use-module (gnu packages texinfo)
#:use-module (gnu packages textutils) #:use-module (gnu packages textutils)
#:use-module (gnu packages time) #:use-module (gnu packages time)
#:use-module (gnu packages tls) #:use-module (gnu packages tls)
@ -659,6 +662,45 @@ analysis, phylogenetics, molecular evolution and population genetics. This
library provides sequence-related modules.") library provides sequence-related modules.")
(license license:cecill-c)))) (license license:cecill-c))))
(define-public bppsuite
;; 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 "c516147f57aa50961121cd505bed52cd7603698b"))
(package
(name "bppsuite")
(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/bppsuite")
(commit commit)))
(file-name (string-append name "-" version "-checkout"))
(sha256
(base32
"1y87pxvw0jxjizhq2dr9g2r91md45k1p9ih2sl1yy1y3p934l2kb"))))
(build-system cmake-build-system)
(arguments
`(#:parallel-build? #f
#:tests? #f)) ; There are no tests.
(native-inputs
`(("groff" ,groff)
("man-db" ,man-db)
("texinfo" ,texinfo)))
(inputs
`(("bpp-core" ,bpp-core)
("bpp-seq" ,bpp-seq)
("bpp-phyl" ,bpp-phyl)
("bpp-phyl" ,bpp-popgen)
("gcc" ,gcc-5)))
(home-page "http://biopp.univ-montp2.fr")
(synopsis "Bioinformatics tools written with the Bio++ libraries")
(description
"Bio++ is a set of C++ libraries for Bioinformatics, including sequence
analysis, phylogenetics, molecular evolution and population genetics. This
package provides command line tools using the Bio++ library.")
(license license:cecill-c))))
(define-public blast+ (define-public blast+
(package (package
(name "blast+") (name "blast+")