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authorpjotrp2016-02-14 15:47:37 +0000
committerpjotrp2016-02-14 15:47:37 +0000
commit69080d41172a67e0a356634e094f6e32aadccaf2 (patch)
treee175f27928cf7cc3063eefcb058796ecc733ef5c /gn
parent949a3b406233e43f7889d2486b4446c2414ed060 (diff)
downloadguix-bioinformatics-69080d41172a67e0a356634e094f6e32aadccaf2.tar.gz
plink2 installs with patched Makefile
Diffstat (limited to 'gn')
-rw-r--r--gn/packages/bioinformatics.scm20
1 files changed, 9 insertions, 11 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm
index f30266d..2f588d8 100644
--- a/gn/packages/bioinformatics.scm
+++ b/gn/packages/bioinformatics.scm
@@ -22,6 +22,7 @@
#:use-module (gnu packages databases)
#:use-module (gnu packages cpio)
#:use-module (gnu packages file)
+ #:use-module (gnu packages gcc)
#:use-module (gnu packages graphviz)
#:use-module (gnu packages java)
#:use-module (gnu packages linux)
@@ -173,30 +174,27 @@ confidence region for the location of a putative QTL.")
(patches (list (search-patch "plink-ng-Makefile-zlib.patch")))))
(build-system gnu-build-system)
(arguments
- '(#:tests? #t ;no "check" target
- #:make-flags (list (string-append "LIB_LAPACK="
- (assoc-ref %build-inputs "lapack")
- "/lib/liblapack.so")
- "WITH_LAPACK=1"
- "FORCE_DYNAMIC=1"
- ;; disable phoning home
- "WITH_WEBCHECK=")
+ '(#:tests? #f ;no "check" target
#:phases
(modify-phases %standard-phases
(delete 'configure)
(replace 'build
(lambda _
- (system* "make" "-f" "Makefile.std")
+ (zero? (system* "make" "-f" "Makefile.std"))
))
(replace 'install
(lambda* (#:key outputs #:allow-other-keys)
(let ((bin (string-append (assoc-ref outputs "out")
"/bin/")))
- (install-file "plink" bin)
+ (install-file "plink2" bin)
#t))))))
(inputs
`(("zlib" ,zlib)
- ("lapack" ,lapack)))
+ ("openblas" ,openblas)
+ ("atlas" ,atlas)
+ ("lapack" ,lapack)
+ ("gfortran" ,gfortran)
+ ))
(native-inputs
`(("unzip" ,unzip)))
(home-page "https://www.cog-genomics.org/plink2")