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| author | Efraim Flashner <efraim@flashner.co.il> | 2022-04-04 22:41:54 +0300 |
|---|---|---|
| committer | Efraim Flashner <efraim@flashner.co.il> | 2022-04-04 22:41:54 +0300 |
| commit | 855c8d9d41ef2f5d8c9a2fc952a27eda32105585 (patch) | |
| tree | 3ae8b6e44a2c21f0a297478345f1dc6015513477 /gnu/packages/bioinformatics.scm | |
| parent | 9bd4ed3dded7b770f1989f6084d565f7086fdcd3 (diff) | |
| download | guix-855c8d9d41ef2f5d8c9a2fc952a27eda32105585.tar guix-855c8d9d41ef2f5d8c9a2fc952a27eda32105585.tar.gz | |
gnu: smithwaterman: Fix cross-compiling.
* gnu/packages/bioinformatics.scm (smithwaterman)[arguments]: Add
make-flag to use cxx-for-target. Adjust custom 'patch-source and
'build-dynamic phases to use cross toolchain binaries when cross
compiling. Remove trailing #t from phases.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 14 |
1 files changed, 9 insertions, 5 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index fd7d70c6b4..b52fa1a61a 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -14182,7 +14182,8 @@ some of the details of opening and jumping in tabix-indexed files.") (build-system gnu-build-system) (arguments `(#:tests? #f ; There are no tests to run. - #:make-flags '("libsw.a" "all") + #:make-flags (list (string-append "CXX=" ,(cxx-for-target)) + "libsw.a" "all") #:phases (modify-phases %standard-phases (delete 'configure) ; There is no configure phase. @@ -14190,10 +14191,14 @@ some of the details of opening and jumping in tabix-indexed files.") (lambda _ (substitute* "Makefile" (("-c ") "-c -fPIC ")) - #t)) + ,@(if (%current-target-system) + `((substitute* "Makefile" + (("ld") (string-append ,(%current-target-system) "-ld")) + (("ar") (string-append ,(%current-target-system) "-ar")))) + '()))) (add-after 'build 'build-dynamic (lambda _ - (invoke "g++" + (invoke ,(cxx-for-target) "-shared" "-o" "libsmithwaterman.so" "smithwaterman.o" "SmithWatermanGotoh.o" "disorder.o" "BandedSmithWaterman.o" @@ -14224,8 +14229,7 @@ some of the details of opening and jumping in tabix-indexed files.") Description: smith-waterman-gotoh alignment algorithm~@ Libs: -L${libdir} -lsmithwaterman~@ Cflags: -I${includedir}~%" - out ,version)))) - #t))))) + out ,version))))))))) (home-page "https://github.com/ekg/smithwaterman") (synopsis "Implementation of the Smith-Waterman algorithm") (description "Implementation of the Smith-Waterman algorithm.") |