diff options
Diffstat (limited to 'gn/packages/hyphy.scm')
| -rw-r--r-- | gn/packages/hyphy.scm | 31 |
1 files changed, 19 insertions, 12 deletions
diff --git a/gn/packages/hyphy.scm b/gn/packages/hyphy.scm index 1a34c98..d0e9127 100644 --- a/gn/packages/hyphy.scm +++ b/gn/packages/hyphy.scm @@ -19,36 +19,43 @@ (define-module (gn packages hyphy) #:use-module ((guix licenses) #:prefix license:) - #:use-module (guix download) + #:use-module (guix git-download) #:use-module (guix build-system cmake) #:use-module (guix packages) #:use-module (gnu packages algebra) + #:use-module (gnu packages curl) #:use-module (gnu packages mpi) - #:use-module (gnu packages python)) + #:use-module (gnu packages python) + #:use-module (gnu packages tls)) +;; TODO: Unbundle sqlite, gtest (define-public hyphy ; guix: check (package (name "hyphy") - (version "2.2.6") + (version "2.5.0") (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")) + (method git-fetch) + (uri (git-reference + (url "https://github.com/veg/hyphy.git") + (commit version))) + (file-name (git-file-name name version)) (sha256 (base32 - "00i3609nywb1xfq50p3kvfbvahql241ciq23jrf67z0yp4y5l5a9")))) + "1fvmwg2rxkz3abhhldiir69vmyc4i85vdvy64bizgxd0g2k2bikm")))) (inputs - `(("python" ,python-2) + `(("curl" ,curl) + ("fftw-openmpi" ,fftw-openmpi) ("openmpi" ,openmpi) - ("fftw-openmpi" ,fftw-openmpi))) + ("openssl" ,openssl) + ("python" ,python-2))) (build-system cmake-build-system) (arguments - '(#:make-flags '("MPI") + '(#:make-flags '("MPI") ; Add "GTEST" for tests, currently fails to compile. #:configure-flags (list "-DCMAKE_BUILD_TYPE=Release" (string-append "-DINSTALL_PREFIX=" (assoc-ref %outputs "out"))) - #:tests? #f)) + #:tests? #f + #:test-target "HYPHYGTEST")) (synopsis "hyphy: an open-source software package for the analysis of genetic sequences using techniques in phylogenetics, molecular evolution, and machine learning.") |