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| author | Ricardo Wurmus <rekado@elephly.net> | 2017-03-16 13:38:39 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2017-03-16 13:38:39 +0100 |
| commit | 558e23074e258202421e8e675927ec35f35db493 (patch) | |
| tree | 2e8720a6d00e4ef1b6dfc4b6ee050ef12dc37e19 | |
| parent | 701111989e446ef2d2ac2d0d67a1ae78c5e1499a (diff) | |
gnu: ncbi-vdb: Override search path for java-ngs.
* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Patch "package.prl"
to ensure that java-ngs is found by the configure script; remove configure
flag "--with-ngs-java-prefix".
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 7 |
1 files changed, 5 insertions, 2 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7238446aaf..eb74da6b28 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4483,6 +4483,11 @@ simultaneously.") (("CFLAGS =" prefix) (string-append prefix "-msse2 "))) + ;; Override search path for ngs-java + (substitute* "setup/package.prl" + (("/usr/local/ngs/ngs-java") + (assoc-ref inputs "java-ngs"))) + ;; The 'configure' script doesn't recognize things like ;; '--enable-fast-install'. (zero? (system* @@ -4494,8 +4499,6 @@ simultaneously.") (assoc-ref inputs "libxml2")) (string-append "--with-ngs-sdk-prefix=" (assoc-ref inputs "ngs-sdk")) - (string-append "--with-ngs-java-prefix=" - (assoc-ref inputs "java-ngs")) (string-append "--with-hdf5-prefix=" (assoc-ref inputs "hdf5"))))))) (add-after 'install 'install-interfaces |