diff options
Diffstat (limited to 'gn/packages/gemma.scm')
| -rw-r--r-- | gn/packages/gemma.scm | 52 |
1 files changed, 52 insertions, 0 deletions
diff --git a/gn/packages/gemma.scm b/gn/packages/gemma.scm index 5e9b4b7..e3a03c6 100644 --- a/gn/packages/gemma.scm +++ b/gn/packages/gemma.scm @@ -31,6 +31,7 @@ #:use-module (gnu packages file) #:use-module (gnu packages gawk) #:use-module (gnu packages gcc) + #:use-module (gnu packages gdb) #:use-module (gnu packages graphviz) #:use-module (gnu packages java) #:use-module (gnu packages ldc) @@ -112,9 +113,11 @@ (define-public openblas-git (let ((commit "893bd14e924fa72a4ed345a75d64c637f1b1c550")) + ; (let ((commit "36aea5ce2d5565e006a027a23e805cd9ff0e2eee")) (package (name "openblas-git") (version (string-append "0.2.20-git-" (string-take commit 7))) + ; (version (string-append "0.3.1-git-" (string-take commit 7))) (source (origin (method git-fetch) (uri (git-reference @@ -124,6 +127,7 @@ (sha256 (base32 "0qv03c2yq46p9sajc3a3f56ijfifyv6f4n51a81wc2hihy4ilcap")))) + ; "1rva61y4lwi6zkja5349r59fxichdhqaqk608kklw5bwk04fjh86")))) (build-system gnu-build-system) (arguments @@ -313,3 +317,51 @@ association studies (GWAS).") (description "Gemma wrapper") (home-page "https://rubygems.org/gems/bio-gemma-wrapper") (license license:gpl3))) + +(define-public gemma-dev-env + (let ((md5 "93e745e9c")) + (package + (name "gemma-dev-env") + (version "0.98") + (source + (origin + (method url-fetch) + (uri "http://biogems.info/genenetwork2-2.0-a8fcff4.svg") ; any old file + (file-name (string-append name "-" md5)) + (sha256 + (base32 "0rir1mcn3a8i1mbw3ppgnjl7wg71mapljik7n3v5i8j5ic95mqr5")))) + (build-system trivial-build-system) + (native-inputs `(("unzip" ,unzip) + ("source" ,source))) + (inputs `(("sassc" ,sassc))) + (propagated-inputs + `(("binutils" ,binutils) ; for ld + ("gemma-gn2" ,gemma-gn2-git) + ; ("gemma-wrapper" ,gemma-wrapper) + ("gcc" ,gcc-7) + ("gdb" ,gdb) + ("gfortran:lib" ,gfortran "lib") + ("glibc" ,glibc) ; for crt1.o + ("gsl" ,gsl) + ("eigen" ,eigen) + ("linux-libre-headers" ,linux-libre-headers) + ("openblas" ,openblas-git) + ("shunit2" ,shunit2) + ("zlib" ,zlib) + )) + (arguments + `(#:modules ((guix build utils)) + #:builder + (begin + (use-modules (guix build utils)) + (let ((target (string-append (assoc-ref %outputs "out") + "/share"))) + (write target) + (mkdir-p target) + ; (copy-recursively (assoc-ref %build-inputs "source") target) + #t)))) + + (home-page "http://github.com/genetics-statistics/") + (synopsis "GEMMA development environment imports build tools, gemma-wrapper and faster-lmm-d") + (description "Gemma-development") + (license license:gpl3)))) |