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| author | Jason W. Bacon <jwb@FreeBSD.org> | 2021-12-01 14:55:49 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2021-12-01 14:56:30 +0000 |
| commit | c74d9767d204035f671225a70227a2b24ecb2491 (patch) | |
| tree | c1fd842637b238cbf3dbffa286c6c83f01c57e80 /biology | |
| parent | ae9c01a00d6ae5884b1f2911884ceb55bb3dc20c (diff) | |
| download | ports-c74d9767d204035f671225a70227a2b24ecb2491.tar.gz ports-c74d9767d204035f671225a70227a2b24ecb2491.zip | |
biology/bwa: Unbreak on most non-x86 platforms using simde
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/bwa/Makefile | 11 | ||||
| -rw-r--r-- | biology/bwa/files/patch-ksw.c | 13 |
2 files changed, 17 insertions, 7 deletions
diff --git a/biology/bwa/Makefile b/biology/bwa/Makefile index a6302394411c..5075bda611bc 100644 --- a/biology/bwa/Makefile +++ b/biology/bwa/Makefile @@ -1,6 +1,7 @@ PORTNAME= bwa PORTVERSION= 0.7.17 DISTVERSIONPREFIX=v +PORTREVISION= 1 CATEGORIES= biology PATCH_SITES= https://github.com/lh3/bwa/commit/ @@ -11,16 +12,12 @@ COMMENT= Burrows-Wheeler sequence aligner LICENSE= GPLv3 -# From 0.7.9a: Recheck for 0.7.17. -BROKEN_aarch64= fails to compile: invalid conversion between vector type and integer type -BROKEN_armv6= fails to compile: invalid conversion between vector type and integer type -BROKEN_armv7= fails to compile: invalid conversion between vector type and integer type BROKEN_mips= fails to compile: cc1: unrecognized command line option "-msse2" BROKEN_mips64= fails to compile: cc1: unrecognized command line option "-msse2" -BROKEN_powerpc64= fails to compile: ksw.c: emmintrin.h: No such file or directory -BROKEN_riscv64= fails to compile: invalid conversion between vector type and integer type -USES= gmake perl5 shebangfix tar:bzip2 +BUILD_DEPENDS= simde>0:devel/simde + +USES= gmake localbase perl5 shebangfix tar:bzip2 SHEBANG_FILES= qualfa2fq.pl xa2multi.pl USE_PERL5= run diff --git a/biology/bwa/files/patch-ksw.c b/biology/bwa/files/patch-ksw.c new file mode 100644 index 000000000000..c86cabf2e497 --- /dev/null +++ b/biology/bwa/files/patch-ksw.c @@ -0,0 +1,13 @@ +--- ksw.c.orig 2021-12-01 13:48:35 UTC ++++ ksw.c +@@ -26,7 +26,9 @@ + #include <stdlib.h> + #include <stdint.h> + #include <assert.h> +-#include <emmintrin.h> ++// #include <emmintrin.h> ++#define SIMDE_ENABLE_NATIVE_ALIASES ++#include <simde/x86/sse2.h> + #include "ksw.h" + + #ifdef USE_MALLOC_WRAPPERS |