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author | Pjotr Prins | 2017-12-19 01:31:19 -0600 |
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committer | Pjotr Prins | 2017-12-19 01:31:19 -0600 |
commit | 015b06ae972859aa66efdbaf344afcb0bbb3951f (patch) | |
tree | c0fdcc864dddd7116e947adfc897befc063e0fc0 /gn/packages/gemma.scm | |
parent | a2aac2366893dacd4549b7c535cf45391088e044 (diff) | |
download | guix-bioinformatics-015b06ae972859aa66efdbaf344afcb0bbb3951f.tar.gz |
Openblas
Diffstat (limited to 'gn/packages/gemma.scm')
-rw-r--r-- | gn/packages/gemma.scm | 32 |
1 files changed, 17 insertions, 15 deletions
diff --git a/gn/packages/gemma.scm b/gn/packages/gemma.scm index ab1ac9b..50d2c9d 100644 --- a/gn/packages/gemma.scm +++ b/gn/packages/gemma.scm @@ -61,9 +61,9 @@ #:use-module (gn packages shell) #:use-module (srfi srfi-1)) -(define-public openblas-parallel +(define-public openblas-haswell (package - (name "openblas-parallel") + (name "openblas-haswell") (version "0.2.20") (source (origin @@ -96,10 +96,13 @@ "NUM_THREADS=64" "BINARY=64" "NO_WARMUP=0" - "GEMM_MULTITHREAD_THRESHOLD=4" + ; "GEMM_MULTITHREAD_THRESHOLD=4" "USE_THREAD=1" - "NO_AFFINITY=0" - "NO_LAPACK=1" + ; "NO_AFFINITY=0" + "NO_LAPACK=0" + "COMMON_PROF=" ; disable profiling + "DEBUG=0" + ;; Build the library for all supported CPUs. This allows ;; switching CPU targets at runtime with the environment variable ;; OPENBLAS_CORETYPE=<type>, where "type" is a supported CPU type. @@ -107,9 +110,10 @@ ;; where it leads to failed builds. ,@(let ((system (or (%current-target-system) (%current-system)))) (cond - ((or (string-prefix? "x86_64" system) - (string-prefix? "i686" system)) - '("BINARY=64 NO_WARMUP=0 GEMM_MULTITHREAD_THRESHOLD=4 USE_THREAD=1 NO_AFFINITY=0 NO_LAPACK=1 NUM_THREADS=64")) + ; ((or (string-prefix? "x86_64" system) + ; (string-prefix? "i686" system)) + ((string-prefix? "x86_64" system) + '("TARGET=HASWELL")) ;; On MIPS we force the "SICORTEX" TARGET, as for the other ;; two available MIPS targets special extended instructions ;; for Loongson cores are used. @@ -128,7 +132,7 @@ `(("cunit" ,cunit) ("perl" ,perl))) (home-page "http://www.openblas.net/") - (synopsis "Optimized BLAS library based on GotoBLAS") + (synopsis "Platform optimized BLAS library based on GotoBLAS") (description "OpenBLAS is a BLAS library forked from the GotoBLAS2-1.13 BSD version.") (license license:bsd-3))) @@ -159,7 +163,7 @@ numbers.") (define-public gemma-git-gn2 ; guix candidate - (let ((commit "e69b71e0ea4ee307dca5f48c48a21103129c8635")) + (let ((commit "89690967e33bcde4fd8736fe048d0e9dce5c6266")) (package (name "gemma-git-gn2") (version (string-append "0.97-" (string-take commit 7))) @@ -171,13 +175,13 @@ numbers.") (file-name (string-append name "-" version "-checkout")) (sha256 (base32 - "0xfny3cmh4y78jhhr0dnnyywsc5kx91jvxdnbpsy2xfg2imm46mq")))) + "1kj1vsqdwnszyd2523snfiamgqgjdal65p1m9454p2ck72gxf7kn")))) (inputs `( ("gsl" ,gsl) ("eigen" ,eigen) ("shunit2" ,shunit2) - ("lapack" ,lapack) - ("openblas-parallel" ,openblas-parallel) + ; ("lapack" ,lapack) - included in openblas-haswell + ("openblas-haswell" ,openblas-haswell) ("zlib" ,zlib) )) (native-inputs ; for running tests @@ -192,8 +196,6 @@ numbers.") (string-append "EIGEN_INCLUDE_PATH=" (assoc-ref %build-inputs "eigen") "/include/eigen3/") - "FORCE_DYNAMIC=1" - "DEBUG=1" "fast-check" ) #:phases |