diff options
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 98 |
1 files changed, 50 insertions, 48 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b52fa1a61a..82d9a3eca6 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -14181,55 +14181,57 @@ some of the details of opening and jumping in tabix-indexed files.") (base32 "0i9d8zrxpiracw3mxzd9siybpy62p06rqz9mc2w93arajgbk45bs")))) (build-system gnu-build-system) (arguments - `(#:tests? #f ; There are no tests to run. - #:make-flags (list (string-append "CXX=" ,(cxx-for-target)) - "libsw.a" "all") + (list + #:tests? #f ; There are no tests to run. + #:make-flags + #~(list (string-append "CXX=" #$(cxx-for-target)) + "libsw.a" "all") #:phases - (modify-phases %standard-phases - (delete 'configure) ; There is no configure phase. - (add-after 'unpack 'patch-source - (lambda _ - (substitute* "Makefile" - (("-c ") "-c -fPIC ")) - ,@(if (%current-target-system) - `((substitute* "Makefile" - (("ld") (string-append ,(%current-target-system) "-ld")) - (("ar") (string-append ,(%current-target-system) "-ar")))) - '()))) - (add-after 'build 'build-dynamic - (lambda _ - (invoke ,(cxx-for-target) - "-shared" "-o" "libsmithwaterman.so" - "smithwaterman.o" "SmithWatermanGotoh.o" - "disorder.o" "BandedSmithWaterman.o" - "LeftAlign.o" "Repeats.o" "IndelAllele.o"))) - (replace 'install - (lambda* (#:key outputs #:allow-other-keys) - (let* ((out (assoc-ref outputs "out")) - (bin (string-append out "/bin")) - (lib (string-append out "/lib"))) - (install-file "smithwaterman" bin) - (for-each - (lambda (file) - (install-file file (string-append out "/include/smithwaterman"))) - (find-files "." "\\.h$")) - (install-file "libsmithwaterman.so" lib) - (install-file "libsw.a" lib) - (mkdir-p (string-append lib "/pkgconfig")) - (with-output-to-file (string-append lib "/pkgconfig/smithwaterman.pc") - (lambda _ - (format #t "prefix=~a~@ - exec_prefix=${prefix}~@ - libdir=${exec_prefix}/lib~@ - includedir=${prefix}/include/smithwaterman~@ - ~@ - ~@ - Name: smithwaterman~@ - Version: ~a~@ - Description: smith-waterman-gotoh alignment algorithm~@ - Libs: -L${libdir} -lsmithwaterman~@ - Cflags: -I${includedir}~%" - out ,version))))))))) + #~(modify-phases %standard-phases + (delete 'configure) ; There is no configure phase. + (add-after 'unpack 'patch-source + (lambda _ + (substitute* "Makefile" + (("-c ") "-c -fPIC ")) + #$@(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 #$(cxx-for-target) + "-shared" "-o" "libsmithwaterman.so" + "smithwaterman.o" "SmithWatermanGotoh.o" + "disorder.o" "BandedSmithWaterman.o" + "LeftAlign.o" "Repeats.o" "IndelAllele.o"))) + (replace 'install + (lambda* (#:key outputs #:allow-other-keys) + (let* ((out (assoc-ref outputs "out")) + (bin (string-append out "/bin")) + (lib (string-append out "/lib"))) + (install-file "smithwaterman" bin) + (for-each + (lambda (file) + (install-file file (string-append out "/include/smithwaterman"))) + (find-files "." "\\.h$")) + (install-file "libsmithwaterman.so" lib) + (install-file "libsw.a" lib) + (mkdir-p (string-append lib "/pkgconfig")) + (with-output-to-file (string-append lib "/pkgconfig/smithwaterman.pc") + (lambda _ + (format #t "prefix=~a~@ + exec_prefix=${prefix}~@ + libdir=${exec_prefix}/lib~@ + includedir=${prefix}/include/smithwaterman~@ + ~@ + ~@ + Name: smithwaterman~@ + Version: ~a~@ + Description: smith-waterman-gotoh alignment algorithm~@ + Libs: -L${libdir} -lsmithwaterman~@ + Cflags: -I${includedir}~%" + out #$version))))))))) (home-page "https://github.com/ekg/smithwaterman") (synopsis "Implementation of the Smith-Waterman algorithm") (description "Implementation of the Smith-Waterman algorithm.") |