Index: biology/bowtie2/Makefile =================================================================== --- biology/bowtie2/Makefile +++ biology/bowtie2/Makefile @@ -1,25 +1,28 @@ # Created by: Jason Bacon # $FreeBSD$ -PORTNAME= bowtie2 -PORTVERSION= 2.2.8 -DISTVERSIONPREFIX= v -CATEGORIES= biology +PORTNAME= bowtie2 +PORTVERSION= 2.2.9 +DISTVERSIONPREFIX=v +CATEGORIES= biology MAINTAINER= bacon4000@gmail.com COMMENT= Ultrafast, memory-efficient short read aligner -LICENSE= GPLv3 +LICENSE= GPLv3+ +LICENSE_FILE= ${WRKSRC}/LICENSE # May also work on other 64-bit platforms, but untested ONLY_FOR_ARCHS= amd64 -USES= gmake perl5 shebangfix +USES= gmake perl5 python shebangfix USE_PERL5= run -SHEBANG_FILES= scripts/*.pl +SHEBANG_FILES= bowtie2-build bowtie2-inspect scripts/*.pl USE_GITHUB= yes GH_ACCOUNT= BenLangmead +OPTIONS_DEFINE= DOCS EXAMPLES + post-install: ${MKDIR} ${STAGEDIR}${DATADIR}/scripts ${INSTALL_PROGRAM} \ @@ -30,11 +33,11 @@ ${WRKSRC}/scripts/*.sh \ ${WRKSRC}/scripts/*.pl \ ${STAGEDIR}${DATADIR}/scripts - cd ${WRKSRC}/example && ${COPYTREE_SHARE} \ - 'index reads reference' \ - ${STAGEDIR}${EXAMPLESDIR} - cd ${WRKSRC}/doc && ${COPYTREE_SHARE} \ - \* \ - ${STAGEDIR}${DOCSDIR} + +post-install-DOCS-on: + (cd ${WRKSRC}/doc && ${COPYTREE_SHARE} . ${STAGEDIR}${DOCSDIR}) + +post-install-EXAMPLES-on: + (cd ${WRKSRC}/example && ${COPYTREE_SHARE} . ${STAGEDIR}${EXAMPLESDIR}) .include Index: biology/bowtie2/distinfo =================================================================== --- biology/bowtie2/distinfo +++ biology/bowtie2/distinfo @@ -1,2 +1,3 @@ -SHA256 (BenLangmead-bowtie2-v2.2.8_GH0.tar.gz) = e4795f5779dfdefffcc9c341239c1fb6f7d78e15528c6094d9c580a5c0e87ac1 -SIZE (BenLangmead-bowtie2-v2.2.8_GH0.tar.gz) = 5814699 +TIMESTAMP = 1475861880 +SHA256 (BenLangmead-bowtie2-v2.2.9_GH0.tar.gz) = af940f77fc36aabea90d3d865724fd7ec7e250788d2d2f793c45c713d16ae5ee +SIZE (BenLangmead-bowtie2-v2.2.9_GH0.tar.gz) = 5815106