git: c8a79b9a3b12 - main - biology/htslib: Update to 1.22

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From: Jason W. Bacon <jwb_at_FreeBSD.org>
Date: Wed, 04 Jun 2025 13:26:13 UTC
The branch main has been updated by jwb:

URL: https://cgit.FreeBSD.org/ports/commit/?id=c8a79b9a3b12785d4c828323dcec8727b71aded6

commit c8a79b9a3b12785d4c828323dcec8727b71aded6
Author:     Jason W. Bacon <jwb@FreeBSD.org>
AuthorDate: 2025-06-04 13:17:54 +0000
Commit:     Jason W. Bacon <jwb@FreeBSD.org>
CommitDate: 2025-06-04 13:26:11 +0000

    biology/htslib: Update to 1.22
    
    Numerous fixes and enhancements
    Changes: https://github.com/samtools/htslib/releases
    Updated by: Hayzam Sherif
    Tested all dependent ports, no breaking API/ABI changes
    
    Reported by:    portscout
---
 biology/htslib/Makefile  | 4 ++--
 biology/htslib/distinfo  | 6 +++---
 biology/htslib/pkg-plist | 2 ++
 3 files changed, 7 insertions(+), 5 deletions(-)

diff --git a/biology/htslib/Makefile b/biology/htslib/Makefile
index 3d39f202a887..38ef7358c154 100644
--- a/biology/htslib/Makefile
+++ b/biology/htslib/Makefile
@@ -1,5 +1,5 @@
 PORTNAME=	htslib
-DISTVERSION=	1.21
+DISTVERSION=	1.22
 CATEGORIES=	biology devel
 # Github generated distfiles are incomplete, so use custom tarball
 MASTER_SITES=	https://github.com/samtools/htslib/releases/download/${DISTVERSION}/
@@ -15,7 +15,7 @@ LICENSE_FILE=	${WRKSRC}/LICENSE
 LIB_DEPENDS=	libdeflate.so:archivers/libdeflate
 TEST_DEPENDS=	bash:shells/bash
 
-USES=		autoreconf cpe gmake localbase pathfix perl5 shebangfix tar:bzip2
+USES=		autoreconf cpe gmake localbase:ldflags pathfix perl5 shebangfix tar:bzip2
 USE_PERL5=	test
 USE_LDCONFIG=	yes
 
diff --git a/biology/htslib/distinfo b/biology/htslib/distinfo
index f035bfd3f3d0..fbe2d5f9d13e 100644
--- a/biology/htslib/distinfo
+++ b/biology/htslib/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1727437235
-SHA256 (htslib-1.21.tar.bz2) = 84b510e735f4963641f26fd88c8abdee81ff4cb62168310ae716636aac0f1823
-SIZE (htslib-1.21.tar.bz2) = 4781943
+TIMESTAMP = 1748951113
+SHA256 (htslib-1.22.tar.bz2) = 6250c1df297db477516e60ac8df45ed75a652d1f25b0f37f12f5b17269eafde9
+SIZE (htslib-1.22.tar.bz2) = 4830206
diff --git a/biology/htslib/pkg-plist b/biology/htslib/pkg-plist
index 1d4e538f1e47..1825cfff6daf 100644
--- a/biology/htslib/pkg-plist
+++ b/biology/htslib/pkg-plist
@@ -1,6 +1,7 @@
 bin/annot-tsv
 bin/bgzip
 bin/htsfile
+bin/ref-cache
 bin/tabix
 include/htslib/bgzf.h
 include/htslib/cram.h
@@ -38,6 +39,7 @@ libdata/pkgconfig/htslib.pc
 share/man/man1/annot-tsv.1.gz
 share/man/man1/bgzip.1.gz
 share/man/man1/htsfile.1.gz
+share/man/man1/ref-cache.1.gz
 share/man/man1/tabix.1.gz
 share/man/man5/faidx.5.gz
 share/man/man5/sam.5.gz