diff --git a/biology/infernal/Makefile b/biology/infernal/Makefile index 74ed79a152b0..4e3e096bf7f6 100644 --- a/biology/infernal/Makefile +++ b/biology/infernal/Makefile @@ -1,58 +1,58 @@ PORTNAME= infernal -PORTVERSION= 1.1.4 -PORTREVISION= 1 +DISTVERSION= 1.1.5 CATEGORIES= biology MASTER_SITES= http://eddylab.org/infernal/ MAINTAINER= mzaki@e-mail.ne.jp COMMENT= Search sequence databases for structural RNA homologs -WWW= http://eddylab.org/infernal/ +WWW= http://eddylab.org/infernal/ \ + https://github.com/EddyRivasLab/infernal/ LICENSE= BSD3CLAUSE LICENSE_FILE= ${WRKSRC}/LICENSE ONLY_FOR_ARCHS= amd64 i386 powerpc powerpc64 powerpc64le powerpcspe ONLY_FOR_ARCHS_REASON= requires SSE2 or AltiVec instructions USES= compiler:c11 gmake perl5 python:test shebangfix USE_PERL5= test + SHEBANG_FILES= easel/devkit/* SHEBANG_GLOB= *.pl *.py GNU_CONFIGURE= yes -GNU_CONFIGURE_MANPREFIX=${PREFIX}/share -MAKE_ARGS= V=1 +MAKE_ARGS= V=1 TEST_TARGET= check OPTIONS_DEFINE= DOCS EXAMPLES TEST +TEST_BUILD_DEPENDS= ${PYTHON_VERSION}:lang/python${PYTHON_SUFFIX} +TEST_VARS= use_perl5=build + DOCFILES= Userguide.pdf EXAMPLES= 5S_rRNA.c.cm 5S_rRNA.sto \ - Cobalamin.c.cm Cobalamin.fa Cobalamin.sto \ + Cobalamin.c.cm Cobalamin.fa Cobalamin.sto Rfam.14.9.clanin \ metag-example.fa minifam-metag.out minifam.cm \ minifam.cm.i1f minifam.cm.i1i minifam.cm.i1m minifam.cm.i1p \ mrum-genome.fa mrum-tRNAs10.fa mrum-tRNAs10.out \ - tRNA5-hand.c.cm tRNA5-hand.sto tRNA5-mrum.out \ - tRNA5-noss.sto tRNA5.c.cm tRNA5.sto - -TEST_BUILD_DEPENDS= ${PYTHON_VERSION}:lang/python${PYTHON_SUFFIX} -TEST_VARS= use_perl5=build + tRNA5-hand.c.cm tRNA5-hand.frag.sto tRNA5-hand.fraggiven.sto \ + tRNA5-hand.sto tRNA5-mrum.out tRNA5-noss.sto tRNA5.c.cm tRNA5.sto post-build-TEST-on: pre-test do-test post-install: @${STRIP_CMD} ${STAGEDIR}${PREFIX}/bin/* post-install-DOCS-on: @${MKDIR} ${STAGEDIR}${DOCSDIR} ${INSTALL_DATA} ${DOCFILES:S,^,${WRKSRC}/,} ${STAGEDIR}${DOCSDIR} post-install-EXAMPLES-on: @${MKDIR} ${STAGEDIR}${EXAMPLESDIR} ${INSTALL_DATA} ${EXAMPLES:S,^,${WRKSRC}/tutorial/,} ${STAGEDIR}${EXAMPLESDIR} pre-test: ${FIND} ${WRKSRC} -type f \( -name Makefile -or -name sqc \) -exec ${GREP} -q 'python3 ' {} \; -print | ${XARGS} ${SED} -i.bak 's/python3 /${PYTHON_VERSION} /' .include diff --git a/biology/infernal/distinfo b/biology/infernal/distinfo index 80865c942e66..71b26908f86e 100644 --- a/biology/infernal/distinfo +++ b/biology/infernal/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1665487539 -SHA256 (infernal-1.1.4.tar.gz) = f9493c7dee9fbf25f6405706818883d24b9f5e455121a0662c96c8f0307f95fc -SIZE (infernal-1.1.4.tar.gz) = 29499238 +TIMESTAMP = 1734834453 +SHA256 (infernal-1.1.5.tar.gz) = ad4ddae02f924ca7c85bc8c4a79c9f875af8df96aeb726702fa985cbe752497f +SIZE (infernal-1.1.5.tar.gz) = 31300142 diff --git a/biology/infernal/pkg-plist b/biology/infernal/pkg-plist index 9282b4f46c55..9df5582a1c80 100644 --- a/biology/infernal/pkg-plist +++ b/biology/infernal/pkg-plist @@ -1,43 +1,46 @@ bin/cmalign bin/cmbuild bin/cmcalibrate bin/cmconvert bin/cmemit bin/cmfetch bin/cmpress bin/cmscan bin/cmsearch bin/cmstat share/man/man1/cmalign.1.gz share/man/man1/cmbuild.1.gz share/man/man1/cmcalibrate.1.gz share/man/man1/cmconvert.1.gz share/man/man1/cmemit.1.gz share/man/man1/cmfetch.1.gz share/man/man1/cmpress.1.gz share/man/man1/cmscan.1.gz share/man/man1/cmsearch.1.gz share/man/man1/cmstat.1.gz share/man/man1/infernal.1.gz %%PORTDOCS%%%%DOCSDIR%%/Userguide.pdf %%PORTEXAMPLES%%%%EXAMPLESDIR%%/5S_rRNA.c.cm %%PORTEXAMPLES%%%%EXAMPLESDIR%%/5S_rRNA.sto %%PORTEXAMPLES%%%%EXAMPLESDIR%%/Cobalamin.c.cm %%PORTEXAMPLES%%%%EXAMPLESDIR%%/Cobalamin.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/Cobalamin.sto +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/Rfam.14.9.clanin %%PORTEXAMPLES%%%%EXAMPLESDIR%%/metag-example.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam-metag.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.cm %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.cm.i1f %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.cm.i1i %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.cm.i1m %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.cm.i1p %%PORTEXAMPLES%%%%EXAMPLESDIR%%/mrum-genome.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/mrum-tRNAs10.fa %%PORTEXAMPLES%%%%EXAMPLESDIR%%/mrum-tRNAs10.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.c.cm +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.frag.sto +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.fraggiven.sto %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-hand.sto %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-mrum.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5-noss.sto %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5.c.cm %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tRNA5.sto