Re: git: b44b3ccb00d6 - main - biology/htslib: Update to 1.24

Hi Jason,

This change reintroduces the reversed armv7 bug fixes I removed in 89c7d793.
Can you please check what you are doing?  I now have to fix the port for the
third time.  It seems like you completely ignore what other people do on this
port and just restory the broken state on every update.

Stop wasting my time and leave the port fixed, ok?

Yours,
Robert Clausecker

Am Sat, Jul 11, 2026 at 07:33:23PM +0000 schrieb Jason W. Bacon:
> The branch main has been updated by jwb:
> 
> URL: https://cgit.FreeBSD.org/ports/commit/?id=b44b3ccb00d6f4d1648fcc2355a53d158d295887
> 
> commit b44b3ccb00d6f4d1648fcc2355a53d158d295887
> Author:     Jason W. Bacon <jwb@FreeBSD.org>
> AuthorDate: 2026-07-11 19:21:04 +0000
> Commit:     Jason W. Bacon <jwb@FreeBSD.org>
> CommitDate: 2026-07-11 19:21:04 +0000
> 
>     biology/htslib: Update to 1.24
>     
>     Numerous fixes and enhancements
>     Changes: https://github.com/samtools/htslib/releases
>     
>     Reported by:    portscout
> ---
>  biology/htslib/Makefile                                       |  2 +-
>  biology/htslib/distinfo                                       |  6 +++---
>  .../patch-htscodecs_htscodecs_rANS__static32x16pr__neon.c     | 11 +++++++++++
>  .../files/patch-htscodecs_htscodecs_rANS__static4x16pr.c      | 11 +++++++++++
>  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
> 

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