diff --git a/biology/snpeff/Makefile b/biology/snpeff/Makefile index 79a90a231703..1d3e325a7e11 100644 --- a/biology/snpeff/Makefile +++ b/biology/snpeff/Makefile @@ -1,42 +1,45 @@ PORTNAME= snpeff DISTVERSION= 5.1 CATEGORIES= biology java python MASTER_SITES= https://snpeff.blob.core.windows.net/versions/ DISTNAME= snpEff_latest_core DIST_SUBDIR= ${PORTNAME}-${PORTVERSION} MAINTAINER= jwb@FreeBSD.org COMMENT= Genetic variant annotation and effect prediction toolbox WWW= https://snpeff.sourceforge.net/ LICENSE= MIT LICENSE_FILE= ${WRKSRC}/LICENSE.md +BROKEN= Unfetchable +EXPIRATION_DATE=2026-01-31 + RUN_DEPENDS= bash:shells/bash USES= java python shebangfix zip JAVA_VERSION= 17+ SHEBANG_FILES= scripts/* scripts/gsa/* NO_BUILD= yes NO_ARCH= yes WRKSRC= ${WRKDIR}/snpEff LIBEXEC_DIR= ${PREFIX}/libexec/snpeff pre-configure: ${REINPLACE_CMD} -e 's|%%JAVAJARDIR%%|${JAVAJARDIR}|g' \ -e 's|%%JAVA_HOME%%|${JAVA_HOME}|g' \ ${WRKSRC}/scripts/snpEff ${WRKSRC}/scripts/snpSift do-install: ${MKDIR} ${STAGEDIR}${JAVAJARDIR}/snpeff ${MKDIR} ${STAGEDIR}${LIBEXEC_DIR} ${INSTALL_SCRIPT} ${WRKSRC}/scripts/snpEff ${STAGEDIR}${PREFIX}/bin ${INSTALL_SCRIPT} ${WRKSRC}/scripts/snpSift ${STAGEDIR}${PREFIX}/bin ${INSTALL_DATA} ${WRKSRC}/*.jar ${STAGEDIR}${JAVAJARDIR}/snpeff ${INSTALL_DATA} ${WRKSRC}/*.config ${STAGEDIR}${JAVAJARDIR}/snpeff cd ${WRKSRC}/scripts && ${COPYTREE_BIN} . ${STAGEDIR}${LIBEXEC_DIR} .include