diff options
Diffstat (limited to 'gn/packages/gemma.scm')
| -rw-r--r-- | gn/packages/gemma.scm | 28 |
1 files changed, 21 insertions, 7 deletions
diff --git a/gn/packages/gemma.scm b/gn/packages/gemma.scm index 3c40317..9986bf5 100644 --- a/gn/packages/gemma.scm +++ b/gn/packages/gemma.scm @@ -63,28 +63,42 @@ #:use-module (srfi srfi-1)) (define-public gemma-git ; guix candidate - (let ((commit "5675bdf0422f63f81752bb1fcf7b436bc30bf9b7")) + (let ((commit "c978835c3630286414df6076d38aad16277cdb6b")) (package (name "gemma-git") - (version (string-append "0.95.2a" commit )) + (version (string-append "0.97-" (string-take commit 7))) (source (origin (method git-fetch) (uri (git-reference - (url "https://github.com/xiangzhou/GEMMA") + (url "https://github.com/genenetwork/GEMMA") (commit commit))) (file-name (string-append name "-" commit)) (sha256 (base32 - "0qc8dx8m4cqggnin2vsbc9l91ay6h04l0mpjv8z0wcickqb4lby6")))) + "1hw8y7vka79v84lv5vyhkinx864yjh1wd8vfd16cvqs1bi8qw3n2")))) (inputs `( ("gsl" ,gsl) + ("eigen" ,eigen) ("lapack" ,lapack) + ("openblas" ,openblas) ("zlib" ,zlib) )) + (native-inputs ; for running tests + `(("shunit2" ,shunit2) + ("which" ,which) + )) + (build-system gnu-build-system) (arguments - `(#:make-flags '(" FORCE_DYNAMIC=1") + `(#:make-flags + (list + (string-append "EIGEN_INCLUDE_PATH=" + (assoc-ref %build-inputs "eigen") + "/include/eigen3/") + "FORCE_DYNAMIC=1" + "WITH_OPENBLAS=1") #:phases + ; "/include/eigen3/" (modify-phases %standard-phases (delete 'configure) (add-before 'build 'bin-mkdir @@ -95,8 +109,8 @@ (lambda* (#:key outputs #:allow-other-keys) (let ((out (assoc-ref outputs "out"))) (install-file "bin/gemma" (string-append out "/bin")))))) - #:tests? #f)) - (home-page "") + #:parallel-tests? #f)) + (home-page "http://www.xzlab.org/software.html") (synopsis "Tool for genome-wide efficient mixed model association") (description "GEMMA is the software implementing the Genome-wide Efficient Mixed Model Association algorithm for a standard linear |