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gnu: smithwaterman: Use new style for phases.

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* gnu/packages/bioinformatics.scm (smithwaterman)[arguments]: Use list
of G-Expressions.
This commit is contained in:
Efraim Flashner 2022-04-04 22:45:37 +03:00
parent 855c8d9d41
commit c1fc65ecb6
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1 changed files with 50 additions and 48 deletions
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@ -14181,24 +14181,26 @@ some of the details of opening and jumping in tabix-indexed files.")
(base32 "0i9d8zrxpiracw3mxzd9siybpy62p06rqz9mc2w93arajgbk45bs")))) (base32 "0i9d8zrxpiracw3mxzd9siybpy62p06rqz9mc2w93arajgbk45bs"))))
(build-system gnu-build-system) (build-system gnu-build-system)
(arguments (arguments
`(#:tests? #f ; There are no tests to run. (list
#:make-flags (list (string-append "CXX=" ,(cxx-for-target)) #:tests? #f ; There are no tests to run.
#:make-flags
#~(list (string-append "CXX=" #$(cxx-for-target))
"libsw.a" "all") "libsw.a" "all")
#:phases #:phases
(modify-phases %standard-phases #~(modify-phases %standard-phases
(delete 'configure) ; There is no configure phase. (delete 'configure) ; There is no configure phase.
(add-after 'unpack 'patch-source (add-after 'unpack 'patch-source
(lambda _ (lambda _
(substitute* "Makefile" (substitute* "Makefile"
(("-c ") "-c -fPIC ")) (("-c ") "-c -fPIC "))
,@(if (%current-target-system) #$@(if (%current-target-system)
`((substitute* "Makefile" #~((substitute* "Makefile"
(("ld") (string-append ,(%current-target-system) "-ld")) (("ld") (string-append #$(%current-target-system) "-ld"))
(("ar") (string-append ,(%current-target-system) "-ar")))) (("ar") (string-append #$(%current-target-system) "-ar"))))
'()))) '())))
(add-after 'build 'build-dynamic (add-after 'build 'build-dynamic
(lambda _ (lambda _
(invoke ,(cxx-for-target) (invoke #$(cxx-for-target)
"-shared" "-o" "libsmithwaterman.so" "-shared" "-o" "libsmithwaterman.so"
"smithwaterman.o" "SmithWatermanGotoh.o" "smithwaterman.o" "SmithWatermanGotoh.o"
"disorder.o" "BandedSmithWaterman.o" "disorder.o" "BandedSmithWaterman.o"
@ -14229,7 +14231,7 @@ some of the details of opening and jumping in tabix-indexed files.")
Description: smith-waterman-gotoh alignment algorithm~@ Description: smith-waterman-gotoh alignment algorithm~@
Libs: -L${libdir} -lsmithwaterman~@ Libs: -L${libdir} -lsmithwaterman~@
Cflags: -I${includedir}~%" Cflags: -I${includedir}~%"
out ,version))))))))) out #$version)))))))))
(home-page "https://github.com/ekg/smithwaterman") (home-page "https://github.com/ekg/smithwaterman")
(synopsis "Implementation of the Smith-Waterman algorithm") (synopsis "Implementation of the Smith-Waterman algorithm")
(description "Implementation of the Smith-Waterman algorithm.") (description "Implementation of the Smith-Waterman algorithm.")