biology/htslib: import htslib-1.8

HTSlib is an implementation of a unified C library for accessing common file
formats, such as SAM, CRAM, VCF, and BCF, used for high-throughput sequencing
data. It is the core library used by samtools and bcftools.


(bacon)

HTSlib is an implementation of a unified C library for accessing common file
formats, such as SAM, CRAM, VCF, and BCF, used for high-throughput sequencing
data. It is the core library used by samtools and bcftools.

# $NetBSD: Makefile,v 1.1 2018/04/30 16:51:54 bacon Exp $

DISTNAME=	htslib-1.8
CATEGORIES=	biology
MASTER_SITES=	${MASTER_SITE_GITHUB:=samtools/}
GITHUB_PROJECT=	htslib
GITHUB_TAG=	${PKGVERSION_NOREV}

MAINTAINER=	bacon@NetBSD.org
HOMEPAGE=	http://www.htslib.org/
COMMENT=	C library for high-throughput sequencing data formats
LICENSE=	mit

USE_TOOLS+=	autoconf automake autoreconf gmake perl
GNU_CONFIGURE=	yes
REPLACE_PERL=	test/compare_sam.pl test/test.pl

SUBST_CLASSES+=		version
SUBST_STAGE.version=	post-patch
SUBST_SED.version=	-e "s|m4_esyscmd_s(\[make print-version\])|[${PKGVERSION_NOREV}]|"
SUBST_FILES.version=	${WRKSRC}/configure.ac

PKGCONFIG_OVERRIDE=	htslib.pc.in

pre-configure:
	cd ${WRKSRC} && autoreconf

.include "../../devel/zlib/buildlink3.mk"
.include "../../archivers/bzip2/buildlink3.mk"
.include "../../archivers/xz/buildlink3.mk"
.include "../../mk/bsd.pkg.mk"

@comment $NetBSD: PLIST,v 1.1 2018/04/30 16:51:54 bacon Exp $
bin/bgzip
bin/htsfile
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_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/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.${PKGVERSION}
lib/libhts.so.2
lib/pkgconfig/htslib.pc
man/man1/bgzip.1
man/man1/htsfile.1
man/man1/tabix.1
man/man5/faidx.5
man/man5/sam.5
man/man5/vcf.5

# $NetBSD: buildlink3.mk,v 1.1 2018/04/30 16:51:54 bacon Exp $

BUILDLINK_TREE+=	htslib

.if !defined(HTSLIB_BUILDLINK3_MK)
HTSLIB_BUILDLINK3_MK:=

BUILDLINK_API_DEPENDS.htslib+=	htslib>=1.8
BUILDLINK_PKGSRCDIR.htslib?=	../../wip/htslib

.endif	# HTSLIB_BUILDLINK3_MK

BUILDLINK_TREE+=	-htslib

$NetBSD: distinfo,v 1.1 2018/04/30 16:51:54 bacon Exp $

SHA1 (htslib-1.8.tar.gz) = bc9dd2ca08de99b0b30bb7f5d64bfa0e8c3d35fd
RMD160 (htslib-1.8.tar.gz) = 400ee0a4994c01e314394bd6a2dceedaa93ec7af
SHA512 (htslib-1.8.tar.gz) = 888c815d5b202a624cfc99dfe4f795825defd4dcd2420153314096c8fe79532e0a21e0be6bd3b5a4f86dfa1e7c4524271b3f960ab871812abe5a1961d05d568c
Size (htslib-1.8.tar.gz) = 1262465 bytes