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authorPjotr Prins2017-12-18 11:11:31 -0600
committerPjotr Prins2017-12-18 11:11:31 -0600
commita2aac2366893dacd4549b7c535cf45391088e044 (patch)
tree90775212da3bead7c385a3599174dde5730460ac /gn
parenta2a200402b91a352dbdede01eec85accb892b8e1 (diff)
downloadguix-bioinformatics-a2aac2366893dacd4549b7c535cf45391088e044.tar.gz
Blas testing
Diffstat (limited to 'gn')
-rw-r--r--gn/packages/gemma.scm20
1 files changed, 16 insertions, 4 deletions
diff --git a/gn/packages/gemma.scm b/gn/packages/gemma.scm
index 05010a8..ab1ac9b 100644
--- a/gn/packages/gemma.scm
+++ b/gn/packages/gemma.scm
@@ -76,7 +76,10 @@
"1bd03c5xni0bla0wg1wba841b36b0sg13sjja955kn5xzvy4i61a"))))
(build-system gnu-build-system)
(arguments
- `(#:tests? #f ;no "check" target
+
+ `(
+ #:tests? #f ;no "check" target
+
;; DYNAMIC_ARCH is only supported on x86. When it is disabled and no
;; TARGET is specified, OpenBLAS will tune itself to the build host, so
;; we need to disable substitutions.
@@ -87,8 +90,16 @@
(string-prefix? "mips" system)
(string-prefix? "aarch64" system)))
#:make-flags
- (list (string-append "PREFIX=" (assoc-ref %outputs "out"))
+ (list (string-append
+ "PREFIX=" (assoc-ref %outputs "out"))
"SHELL=bash"
+ "NUM_THREADS=64"
+ "BINARY=64"
+ "NO_WARMUP=0"
+ "GEMM_MULTITHREAD_THRESHOLD=4"
+ "USE_THREAD=1"
+ "NO_AFFINITY=0"
+ "NO_LAPACK=1"
;; 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.
@@ -98,7 +109,7 @@
(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"))
+ '("BINARY=64 NO_WARMUP=0 GEMM_MULTITHREAD_THRESHOLD=4 USE_THREAD=1 NO_AFFINITY=0 NO_LAPACK=1 NUM_THREADS=64"))
;; On MIPS we force the "SICORTEX" TARGET, as for the other
;; two available MIPS targets special extended instructions
;; for Loongson cores are used.
@@ -183,6 +194,7 @@ numbers.")
"/include/eigen3/")
"FORCE_DYNAMIC=1"
"DEBUG=1"
+ "fast-check"
)
#:phases
; "/include/eigen3/"
@@ -196,7 +208,7 @@ numbers.")
(lambda* (#:key outputs #:allow-other-keys)
(let ((out (assoc-ref outputs "out")))
(install-file "bin/gemma" (string-append out "/bin"))))))
- ; #:tests? #f
+ #:tests? #f
#:parallel-tests? #f))
(home-page "http://www.xzlab.org/software.html")
(synopsis "Tool for genome-wide efficient mixed model association")