diff --git a/biology/htslib/Makefile b/biology/htslib/Makefile index 3d39f202a887..38ef7358c154 100644 --- a/biology/htslib/Makefile +++ b/biology/htslib/Makefile @@ -1,42 +1,42 @@ 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}/ MAINTAINER= jwb@FreeBSD.org COMMENT= C library for high-throughput sequencing data formats WWW= https://www.htslib.org/ LICENSE= BSD3CLAUSE MIT LICENSE_COMB= multi LICENSE_FILE= ${WRKSRC}/LICENSE LIB_DEPENDS= libdeflate.so:archivers/libdeflate TEST_DEPENDS= bash:shells/bash -USES= autoreconf cpe gmake localbase pathfix perl5 shebangfix tar:bzip2 +USES= autoreconf cpe gmake localbase:ldflags pathfix perl5 shebangfix tar:bzip2 USE_PERL5= test USE_LDCONFIG= yes GNU_CONFIGURE= yes GNU_CONFIGURE_MANPREFIX=${PREFIX}/share MAKE_ARGS_armv6= HTS_HAVE_NEON= MAKE_ARGS_armv7= HTS_HAVE_NEON= MAKE_ARGS= ${MAKE_ARGS_${ARCH}} PATHFIX_MAKEFILEIN= Makefile SHEBANG_FILES= test/*.pl OPTIONS_DEFINE= CURL OPTIONS_DEFAULT= CURL CURL_DESC= Use libcurl for network file access (HTTPS and S3 support). CURL_USES= ssl CURL_LIB_DEPENDS= libcurl.so:ftp/curl CURL_CONFIGURE_ENABLE= libcurl PLIST_SUB= PORTVERSION="${PORTVERSION}" TEST_TARGET= test .include 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 @@ -1,45 +1,47 @@ bin/annot-tsv bin/bgzip bin/htsfile +bin/ref-cache bin/tabix include/htslib/bgzf.h include/htslib/cram.h include/htslib/faidx.h include/htslib/hfile.h include/htslib/hts.h include/htslib/hts_defs.h include/htslib/hts_endian.h include/htslib/hts_expr.h include/htslib/hts_log.h include/htslib/hts_os.h include/htslib/kbitset.h include/htslib/kfunc.h include/htslib/khash.h include/htslib/khash_str2int.h include/htslib/klist.h include/htslib/knetfile.h include/htslib/kroundup.h include/htslib/kseq.h include/htslib/ksort.h include/htslib/kstring.h include/htslib/regidx.h include/htslib/sam.h include/htslib/synced_bcf_reader.h include/htslib/tbx.h include/htslib/thread_pool.h include/htslib/vcf.h include/htslib/vcf_sweep.h include/htslib/vcfutils.h lib/libhts.a lib/libhts.so lib/libhts.so.%%PORTVERSION%% lib/libhts.so.3 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 share/man/man5/vcf.5.gz share/man/man7/htslib-s3-plugin.7.gz