71 lines
2.1 KiB
Makefile
71 lines
2.1 KiB
Makefile
# $NetBSD: Makefile,v 1.13 2021/05/24 19:49:10 wiz Exp $
|
|
|
|
DISTNAME= canu-1.8
|
|
PKGREVISION= 10
|
|
CATEGORIES= biology java
|
|
MASTER_SITES= ${MASTER_SITE_GITHUB:=marbl/}
|
|
GITHUB_TAG= v${PKGVERSION_NOREV}
|
|
|
|
MAINTAINER= bacon@NetBSD.org
|
|
HOMEPAGE= https://canu.readthedocs.io/
|
|
COMMENT= Single molecule sequence assembler for genomes large and small
|
|
LICENSE= gnu-gpl-v2
|
|
|
|
DEPENDS+= gnuplot>0:../../graphics/gnuplot
|
|
|
|
# Makefile compiles directly into ${DESTDIR}${PREFIX}
|
|
SUBST_CLASSES+= optimize
|
|
SUBST_STAGE.optimize= pre-configure
|
|
SUBST_SED.optimize+= -e 's|-g3||g'
|
|
SUBST_SED.optimize+= -e 's|-O3||g'
|
|
SUBST_SED.optimize+= -e 's|-O4||g'
|
|
SUBST_SED.optimize+= -e 's|-funroll-loops||g'
|
|
SUBST_SED.optimize+= -e 's|-fexpensive-optimizations||g'
|
|
SUBST_SED.optimize+= -e 's|-finline-functions||g'
|
|
SUBST_FILES.optimize+= Makefile
|
|
|
|
SUBST_CLASSES+= jar
|
|
SUBST_STAGE.jar= pre-configure
|
|
SUBST_SED.jar+= -e 's|\\$$bin/\.\./share/java/classes/mhap-|${PREFIX}/${JAVAJARDIR}/mhap-|g'
|
|
SUBST_FILES.jar+= pipelines/canu/OverlapMhap.pm
|
|
|
|
SUBST_CLASSES+= perl
|
|
SUBST_STAGE.perl= pre-configure
|
|
SUBST_SED.perl+= -e 's|$$FindBin::RealBin/../lib/site_perl|${PREFIX}/${SITE_PERL_REL}|g'
|
|
SUBST_FILES.perl+= pipelines/canu.pl
|
|
|
|
REPLACE_PERL+= *.pl */*.pl
|
|
|
|
# May work on other 64-bit processors, but untested
|
|
ONLY_FOR_PLATFORM= *-*-x86_64
|
|
|
|
USE_LANGUAGES= c c++
|
|
USE_JAVA= run
|
|
USE_JAVA2= 8
|
|
USE_TOOLS+= gmake pax perl
|
|
GCC_REQD+= 4.8
|
|
|
|
WRKSRC= ${WRKDIR}/canu-${PKGVERSION_NOREV}/src
|
|
MAKE_ENV+= DESTDIR=${WRKSRC}
|
|
|
|
TMP_INST= ${WRKSRC}${PREFIX}/${OPSYS}-${MACHINE_ARCH:S/x86_64/amd64/}
|
|
SITE_PERL_REL= lib/perl5/site_perl
|
|
JAVAJARDIR= share/java/classes
|
|
INSTALLATION_DIRS= bin ${JAVAJARDIR}
|
|
|
|
post-extract:
|
|
${CHMOD} -R g-w ${WRKDIR}/${DISTNAME}
|
|
|
|
post-build:
|
|
${MKDIR} ${TMP_INST}/lib/perl5
|
|
${MV} ${TMP_INST}/lib/site_perl ${TMP_INST}/lib/perl5
|
|
${RM} -f ${TMP_INST}/bin/canu.defaults
|
|
|
|
do-install:
|
|
cd ${TMP_INST}/bin && ${PAX} -wr * ${DESTDIR}${PREFIX}/bin
|
|
cd ${TMP_INST}/lib/perl5 && ${PAX} -wr * ${DESTDIR}${PREFIX}/lib/perl5
|
|
cd ${TMP_INST}/share && ${PAX} -wr * ${DESTDIR}${PREFIX}/share
|
|
|
|
.include "../../devel/boost-libs/buildlink3.mk"
|
|
.include "../../lang/perl5/module.mk"
|
|
.include "../../mk/bsd.pkg.mk"
|