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# $NetBSD: Makefile,v 1.14 2022/02/26 23:11:43 bacon Exp $
DISTNAME= samtools-1.15
CATEGORIES= biology
MASTER_SITES= ${MASTER_SITE_GITHUB:=samtools/}
MAINTAINER= bacon@NetBSD.org
HOMEPAGE= https://www.htslib.org/
COMMENT= Tools for manipulating sequence alignment maps
LICENSE= mit
USE_TOOLS+= autoconf automake autoreconf bash gmake perl
GNU_CONFIGURE= yes
SUBST_CLASSES+= version
SUBST_STAGE.version= pre-configure
SUBST_SED.version+= -e "s|m4_esyscmd_s(\[./version.sh 2>/dev/null\])|[${PKGVERSION_NOREV}]|"
SUBST_FILES.version+= configure.ac
SUBST_CLASSES+= bash
SUBST_STAGE.bash= pre-configure
SUBST_SED.bash+= -e "s|'bash'|'${TOOLS_PATH.bash}'|"
SUBST_SED.bash+= -e 's|\\/bin\\/bash|${TOOLS_PATH.bash:S,/,\\\/,g}|'
SUBST_FILES.bash+= test/test.pl
REPLACE_PERL+= misc/*.pl
REPLACE_PERL+= test/*.pl
REPLACE_PERL+= misc/plot-bamstats misc/plot-ampliconstats
REPLACE_LUA+= misc/*.lua
CONFIGURE_ARGS+= --with-htslib=system
TEST_TARGET= test
pre-configure:
cd ${WRKSRC} && autoreconf -if
.include "../../biology/htslib/buildlink3.mk"
.include "../../devel/zlib/buildlink3.mk"
.include "../../lang/python/application.mk"
.include "../../mk/curses.buildlink3.mk"
.include "../../mk/bsd.pkg.mk"
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