diff --git a/biology/bowtie2/Makefile b/biology/bowtie2/Makefile index 14777fb43760..88d57745908b 100644 --- a/biology/bowtie2/Makefile +++ b/biology/bowtie2/Makefile @@ -1,64 +1,65 @@ PORTNAME= bowtie2 DISTVERSIONPREFIX= v -DISTVERSION= 2.5.1 +DISTVERSION= 2.5.2 CATEGORIES= biology perl5 python MAINTAINER= jwb@FreeBSD.org COMMENT= Ultrafast, memory-efficient short read aligner WWW= https://github.com/BenLangmead/bowtie2 LICENSE= GPLv3+ LICENSE_FILE= ${WRKSRC}/LICENSE -# Requires a 64-bit processor and depends on hard-coded asm instructions ONLY_FOR_ARCHS= aarch64 amd64 powerpc64 powerpc64le +ONLY_FOR_ARCHS_REASON= Requires a 64-bit processor + RUN_DEPENDS= bash:shells/bash USES= gmake localbase:ldflags perl5 python shebangfix USE_PERL5= run USE_GITHUB= yes SHEBANG_FILES= bowtie2 bowtie2-build bowtie2-inspect \ scripts/bowtie2-hbb.sh scripts/*.pl GH_ACCOUNT= BenLangmead GH_TUPLE= simd-everywhere:simde-no-tests:f6a0b3b:simde OPTIONS_DEFINE= DOCS EXAMPLES SUB_FILES= bowtie2-test .include .if ${ARCH} != amd64 post-extract: (cd ${WRKSRC_simde}; \ ${COPYTREE_SHARE} . ${WRKSRC}/third_party/simde/) MAKE_ENV= POPCNT_CAPABILITY=0 .endif pre-configure: @${REINPLACE_CMD} \ -e 's|^RELEASE_FLAGS|# RELEASE_FLAGS|' \ -e 's|tbbmalloc_proxy|tbbmalloc|' \ ${WRKSRC}/Makefile post-install: @${MKDIR} ${STAGEDIR}${DATADIR}/scripts ${INSTALL_PROGRAM} \ ${WRKSRC}/bowtie2*-s \ ${WRKSRC}/bowtie2*-l \ ${STAGEDIR}${PREFIX}/bin ${INSTALL_SCRIPT} \ ${WRKSRC}/scripts/*.sh \ ${WRKSRC}/scripts/*.pl \ ${STAGEDIR}${DATADIR}/scripts ${INSTALL_SCRIPT} ${WRKDIR}/bowtie2-test ${STAGEDIR}${PREFIX}/bin post-install-DOCS-on: (cd ${WRKSRC}/doc && ${COPYTREE_SHARE} . ${STAGEDIR}${DOCSDIR}) post-install-EXAMPLES-on: (cd ${WRKSRC}/example && ${COPYTREE_SHARE} . ${STAGEDIR}${EXAMPLESDIR}) .include diff --git a/biology/bowtie2/distinfo b/biology/bowtie2/distinfo index 69c8b6900f9a..fd7a62f2ce84 100644 --- a/biology/bowtie2/distinfo +++ b/biology/bowtie2/distinfo @@ -1,5 +1,5 @@ -TIMESTAMP = 1674338476 -SHA256 (BenLangmead-bowtie2-v2.5.1_GH0.tar.gz) = 3fe00f4f89b5dd85fd9317e2168ec93f30dbb75d7950a08516c767d21eca7c27 -SIZE (BenLangmead-bowtie2-v2.5.1_GH0.tar.gz) = 10598627 +TIMESTAMP = 1697555094 +SHA256 (BenLangmead-bowtie2-v2.5.2_GH0.tar.gz) = 2f86dbfbf3dcb8521d559f830594fe28ac6e4c40d81313a8c2bfb17c82a501e0 +SIZE (BenLangmead-bowtie2-v2.5.2_GH0.tar.gz) = 10632647 SHA256 (simd-everywhere-simde-no-tests-f6a0b3b_GH0.tar.gz) = 9874f22afe8a6cd92770aa194df47db3d0963d80ea233a502b0d557f59763eb8 SIZE (simd-everywhere-simde-no-tests-f6a0b3b_GH0.tar.gz) = 397743