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Diffstat (limited to 'gn/packages/hyphy.scm')
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1 files changed, 84 insertions, 0 deletions
diff --git a/gn/packages/hyphy.scm b/gn/packages/hyphy.scm new file mode 100644 index 0000000..fea73a4 --- /dev/null +++ b/gn/packages/hyphy.scm @@ -0,0 +1,84 @@ +;;; GNU Guix --- Functional package management for GNU +;;; Copyright © 2016 Dennis Mungai <dmngaie@gmail.com> +;;; +;;; This file is part of GNU Guix. +;;; +;;; GNU Guix is free software; you can redistribute it and/or modify it +;;; under the terms of the GNU General Public License as published by +;;; the Free Software Foundation; either version 3 of the License, or (at +;;; your option) any later version. +;;; +;;; GNU Guix is distributed in the hope that it will be useful, but +;;; WITHOUT ANY WARRANTY; without even the implied warranty of +;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the +;;; GNU General Public License for more details. +;;; +;;; You should have received a copy of the GNU General Public License +;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>. + +(define-module (gn packages hyphy) + #:use-module ((guix licenses) #:prefix license:) + #:use-module (guix download) + #:use-module (guix build-system gnu) + #:use-module (guix build-system cmake) + #:use-module (guix packages) + #:use-module (gnu packages algebra) + #:use-module (gnu packages autotools) + #:use-module (gnu packages curl) + #:use-module (gnu packages gawk) + #:use-module (gnu packages cmake) + #:use-module (gnu packages boost) + #:use-module (gnu packages glib) + #:use-module (gnu packages image) + #:use-module (gnu packages video) + #:use-module (gnu packages textutils) + #:use-module (gnu packages gl) + #:use-module (gnu packages pkg-config) + #:use-module (gnu packages maths) + #:use-module (gnu packages web) + #:use-module (gnu packages databases) + #:use-module (gnu packages python) + #:use-module (gnu packages xorg) + #:use-module (gnu packages version-control) + #:use-module (gnu packages linux)) + +(define-public hyphy + (package + (name "hyphy") + (version "2.2.6") + (source (origin + (method url-fetch) + (uri (string-append "https://github.com/veg/hyphy/archive/" version + ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "00i3609nywb1xfq50p3kvfbvahql241ciq23jrf67z0yp4y5l5a9")))) + (inputs + `(("python" ,python-2) + ("fftw-openmpi" ,fftw-openmpi))) + (build-system cmake-build-system) + (arguments + '(#:phases (modify-phases %standard-phases + (add-after 'unpack `bootstrap + (lambda _ + (zero? (system* "make" "MPI"))))))) + (arguments + `(#:configure-flags '("-DCMAKE_BUILD_TYPE=Release") + #:tests? #f)) + (synopsis "hyphy: an open-source software package for the analysis +of genetic sequences using techniques in phylogenetics, molecular +evolution, and machine learning.") + (description "HyPhy is an open-source software package for the +analysis of genetic sequences using techniques in phylogenetics, +molecular evolution, and machine learning. It features a complete +graphical user interface (GUI) and a rich scripting language for +limitless customization of analyses. Additionally, HyPhy features +support for parallel computing environments (via message passing +interface (MPI)) and it can be compiled as a shared library and called +from other programming environments such as Python and R. ") + (home-page "http://hyphy.org") + (license license:expat))) + + + |