diff options
| author | Jason W. Bacon <jwb@FreeBSD.org> | 2026-07-11 19:21:04 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2026-07-11 19:21:04 +0000 |
| commit | b44b3ccb00d6f4d1648fcc2355a53d158d295887 (patch) | |
| tree | 085da23d52709b96f05c1c640a99fe3a0f911c61 | |
| parent | ba4d25929c804fce4cf29a638504d38560ac1b6f (diff) | |
biology/htslib: Update to 1.24
Numerous fixes and enhancements
Changes: https://github.com/samtools/htslib/releases
Reported by: portscout
| -rw-r--r-- | biology/htslib/Makefile | 2 | ||||
| -rw-r--r-- | biology/htslib/distinfo | 6 | ||||
| -rw-r--r-- | biology/htslib/files/patch-htscodecs_htscodecs_rANS__static32x16pr__neon.c | 11 | ||||
| -rw-r--r-- | biology/htslib/files/patch-htscodecs_htscodecs_rANS__static4x16pr.c | 11 | ||||
| -rw-r--r-- | biology/htslib/pkg-plist | 1 |
5 files changed, 27 insertions, 4 deletions
diff --git a/biology/htslib/Makefile b/biology/htslib/Makefile index aa4f02a37d15..e600db8cec64 100644 --- a/biology/htslib/Makefile +++ b/biology/htslib/Makefile @@ -1,5 +1,5 @@ PORTNAME= htslib -DISTVERSION= 1.23.1 +DISTVERSION= 1.24 CATEGORIES= biology devel # Github generated distfiles are incomplete, so use custom tarball MASTER_SITES= https://github.com/samtools/htslib/releases/download/${DISTVERSION}/ diff --git a/biology/htslib/distinfo b/biology/htslib/distinfo index 257fe618a524..388227740105 100644 --- a/biology/htslib/distinfo +++ b/biology/htslib/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1774783712 -SHA256 (htslib-1.23.1.tar.bz2) = f8a3f36effeec38f043c53ab1f2d9ed45064f14205c5ef8e3c815763b90803c4 -SIZE (htslib-1.23.1.tar.bz2) = 4987046 +TIMESTAMP = 1783681751 +SHA256 (htslib-1.24.tar.bz2) = 28a8de191381c7a97a35675ceac76fa1ea95e7b678d6a2e9d600a7874e4077de +SIZE (htslib-1.24.tar.bz2) = 5004265 diff --git a/biology/htslib/files/patch-htscodecs_htscodecs_rANS__static32x16pr__neon.c b/biology/htslib/files/patch-htscodecs_htscodecs_rANS__static32x16pr__neon.c new file mode 100644 index 000000000000..434edf03f411 --- /dev/null +++ b/biology/htslib/files/patch-htscodecs_htscodecs_rANS__static32x16pr__neon.c @@ -0,0 +1,11 @@ +--- htscodecs/htscodecs/rANS_static32x16pr_neon.c.orig 2024-10-09 21:43:35 UTC ++++ htscodecs/htscodecs/rANS_static32x16pr_neon.c +@@ -32,7 +32,7 @@ + */ + + #include "config.h" +-#if defined(__ARM_NEON) && defined(__aarch64__) ++#if defined(__ARM_NEON) + #include <arm_neon.h> + + #include <limits.h> diff --git a/biology/htslib/files/patch-htscodecs_htscodecs_rANS__static4x16pr.c b/biology/htslib/files/patch-htscodecs_htscodecs_rANS__static4x16pr.c new file mode 100644 index 000000000000..3eaebe7ae36d --- /dev/null +++ b/biology/htslib/files/patch-htscodecs_htscodecs_rANS__static4x16pr.c @@ -0,0 +1,11 @@ +--- htscodecs/htscodecs/rANS_static4x16pr.c.orig 2024-10-09 21:44:38 UTC ++++ htscodecs/htscodecs/rANS_static4x16pr.c +@@ -1030,7 +1030,7 @@ unsigned char *(*rans_dec_func(int do_simd, int order) + } + } + +-#elif defined(__ARM_NEON) && defined(__aarch64__) ++#elif defined(__ARM_NEON) + + #if defined(__linux__) || defined(__FreeBSD__) + #include <sys/auxv.h> diff --git a/biology/htslib/pkg-plist b/biology/htslib/pkg-plist index 1825cfff6daf..1b33a6a4a67f 100644 --- a/biology/htslib/pkg-plist +++ b/biology/htslib/pkg-plist @@ -8,6 +8,7 @@ include/htslib/cram.h include/htslib/faidx.h include/htslib/hfile.h include/htslib/hts.h +include/htslib/hts_alloc.h include/htslib/hts_defs.h include/htslib/hts_endian.h include/htslib/hts_expr.h |