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+;;; 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)))
+
+
+