From owner-svn-ports-all@freebsd.org Fri Sep 28 00:12:50 2018 Return-Path: Delivered-To: svn-ports-all@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id 18DAA1097848; Fri, 28 Sep 2018 00:12:50 +0000 (UTC) (envelope-from wen@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client CN "mxrelay.nyi.freebsd.org", Issuer "Let's Encrypt Authority X3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id B4EBB7E474; Fri, 28 Sep 2018 00:12:49 +0000 (UTC) (envelope-from wen@FreeBSD.org) Received: from repo.freebsd.org (repo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:0]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id AC3F558FB; Fri, 28 Sep 2018 00:12:49 +0000 (UTC) (envelope-from wen@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id w8S0Cnll049890; Fri, 28 Sep 2018 00:12:49 GMT (envelope-from wen@FreeBSD.org) Received: (from wen@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id w8S0Cn1M049888; Fri, 28 Sep 2018 00:12:49 GMT (envelope-from wen@FreeBSD.org) Message-Id: <201809280012.w8S0Cn1M049888@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: wen set sender to wen@FreeBSD.org using -f From: Wen Heping Date: Fri, 28 Sep 2018 00:12:49 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r480837 - head/biology/tRNAscan-SE X-SVN-Group: ports-head X-SVN-Commit-Author: wen X-SVN-Commit-Paths: head/biology/tRNAscan-SE X-SVN-Commit-Revision: 480837 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-BeenThere: svn-ports-all@freebsd.org X-Mailman-Version: 2.1.27 Precedence: list List-Id: SVN commit messages for the ports tree List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Fri, 28 Sep 2018 00:12:50 -0000 Author: wen Date: Fri Sep 28 00:12:48 2018 New Revision: 480837 URL: https://svnweb.freebsd.org/changeset/ports/480837 Log: - Unbreak by adding missing pkg-plist PR: 228758 Submitted by: mzaki@niid.go.jp(maintainer) Added: head/biology/tRNAscan-SE/pkg-plist (contents, props changed) Modified: head/biology/tRNAscan-SE/Makefile Modified: head/biology/tRNAscan-SE/Makefile ============================================================================== --- head/biology/tRNAscan-SE/Makefile Thu Sep 27 23:28:15 2018 (r480836) +++ head/biology/tRNAscan-SE/Makefile Fri Sep 28 00:12:48 2018 (r480837) @@ -14,8 +14,6 @@ COMMENT= Searching for tRNA genes in genomic sequence LICENSE= GPLv3+ LICENSE_FILE= ${WRKSRC}/COPYING -BROKEN= missing plist - RUN_DEPENDS= cmsearch:biology/infernal WRKSRC= ${WRKDIR}/${DISTNAME:S,.0$,,} Added: head/biology/tRNAscan-SE/pkg-plist ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/tRNAscan-SE/pkg-plist Fri Sep 28 00:12:48 2018 (r480837) @@ -0,0 +1,136 @@ +bin/EukHighConfidenceFilter +bin/covels-SE +bin/coves-SE +bin/eufindtRNA +bin/fasta2gsi +bin/sstofa +bin/tRNAscan-SE +bin/trnascan-1.4 +etc/tRNAscan-SE.conf +%%DATADIR%%/gcode/gcode.cilnuc +%%DATADIR%%/gcode/gcode.echdmito +%%DATADIR%%/gcode/gcode.invmito +%%DATADIR%%/gcode/gcode.othmito +%%DATADIR%%/gcode/gcode.vertmito +%%DATADIR%%/gcode/gcode.ystmito +%%DATADIR%%/models/Cren-eury-BHB-noncan.cm +%%DATADIR%%/models/Dsignal +%%DATADIR%%/models/ESELC.cm +%%DATADIR%%/models/PSELC.cm +%%DATADIR%%/models/TPCsignal +%%DATADIR%%/models/TRNA2-arch.cm +%%DATADIR%%/models/TRNA2-archns.cm +%%DATADIR%%/models/TRNA2-bact.cm +%%DATADIR%%/models/TRNA2-bactns.cm +%%DATADIR%%/models/TRNA2-euk.cm +%%DATADIR%%/models/TRNA2-eukns.cm +%%DATADIR%%/models/TRNA2.cm +%%DATADIR%%/models/TRNA2ns.cm +%%DATADIR%%/models/TRNAinf-1415-ns.cm +%%DATADIR%%/models/TRNAinf-1415.cm +%%DATADIR%%/models/TRNAinf-arch-3h.cm +%%DATADIR%%/models/TRNAinf-arch-5h.cm +%%DATADIR%%/models/TRNAinf-arch-SeC.cm +%%DATADIR%%/models/TRNAinf-arch-iso +%%DATADIR%%/models/TRNAinf-arch-iso.i1f +%%DATADIR%%/models/TRNAinf-arch-iso.i1i +%%DATADIR%%/models/TRNAinf-arch-iso.i1m +%%DATADIR%%/models/TRNAinf-arch-iso.i1p +%%DATADIR%%/models/TRNAinf-arch-ns.cm +%%DATADIR%%/models/TRNAinf-arch.cm +%%DATADIR%%/models/TRNAinf-bact-SeC.cm +%%DATADIR%%/models/TRNAinf-bact-iso +%%DATADIR%%/models/TRNAinf-bact-iso.i1f +%%DATADIR%%/models/TRNAinf-bact-iso.i1i +%%DATADIR%%/models/TRNAinf-bact-iso.i1m +%%DATADIR%%/models/TRNAinf-bact-iso.i1p +%%DATADIR%%/models/TRNAinf-bact-ns.cm +%%DATADIR%%/models/TRNAinf-bact.cm +%%DATADIR%%/models/TRNAinf-euk-SeC.cm +%%DATADIR%%/models/TRNAinf-euk-iso 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+%%DATADIR%%/models/TRNAinf-mito-mammal-Pro.cm +%%DATADIR%%/models/TRNAinf-mito-mammal-SerGCT.cm +%%DATADIR%%/models/TRNAinf-mito-mammal-SerTGA.cm +%%DATADIR%%/models/TRNAinf-mito-mammal-Thr.cm +%%DATADIR%%/models/TRNAinf-mito-mammal-Trp.cm +%%DATADIR%%/models/TRNAinf-mito-mammal-Tyr.cm +%%DATADIR%%/models/TRNAinf-mito-mammal-Val.cm +%%DATADIR%%/models/TRNAinf-mito-mammal.i1f +%%DATADIR%%/models/TRNAinf-mito-mammal.i1i +%%DATADIR%%/models/TRNAinf-mito-mammal.i1m +%%DATADIR%%/models/TRNAinf-mito-mammal.i1p +%%DATADIR%%/models/TRNAinf-mito-vert +%%DATADIR%%/models/TRNAinf-mito-vert-Ala.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Arg.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Asn.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Asp.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Cys.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Gln.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Glu.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Gly.cm +%%DATADIR%%/models/TRNAinf-mito-vert-His.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Ile.cm +%%DATADIR%%/models/TRNAinf-mito-vert-LeuTAA.cm +%%DATADIR%%/models/TRNAinf-mito-vert-LeuTAG.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Lys.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Met.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Phe.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Pro.cm +%%DATADIR%%/models/TRNAinf-mito-vert-SerGCT.cm +%%DATADIR%%/models/TRNAinf-mito-vert-SerTGA.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Thr.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Trp.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Tyr.cm +%%DATADIR%%/models/TRNAinf-mito-vert-Val.cm +%%DATADIR%%/models/TRNAinf-mito-vert.i1f +%%DATADIR%%/models/TRNAinf-mito-vert.i1i +%%DATADIR%%/models/TRNAinf-mito-vert.i1m +%%DATADIR%%/models/TRNAinf-mito-vert.i1p +%%DATADIR%%/models/TRNAinf-ns.cm +%%DATADIR%%/models/TRNAinf.cm +%%DATADIR%%/models/Thaum-BHB-noncan.cm +%%DATADIR%%/tRNAscanSE/ArrayCMscanResults.pm +%%DATADIR%%/tRNAscanSE/ArraytRNA.pm +%%DATADIR%%/tRNAscanSE/CM.pm +%%DATADIR%%/tRNAscanSE/CMscanResultFile.pm +%%DATADIR%%/tRNAscanSE/Configuration.pm +%%DATADIR%%/tRNAscanSE/Eufind.pm +%%DATADIR%%/tRNAscanSE/FpScanResultFile.pm +%%DATADIR%%/tRNAscanSE/GeneticCode.pm +%%DATADIR%%/tRNAscanSE/IntResultFile.pm +%%DATADIR%%/tRNAscanSE/LogFile.pm +%%DATADIR%%/tRNAscanSE/MultiResultFile.pm +%%DATADIR%%/tRNAscanSE/Options.pm +%%DATADIR%%/tRNAscanSE/ResultFileReader.pm +%%DATADIR%%/tRNAscanSE/SS.pm +%%DATADIR%%/tRNAscanSE/ScanResult.pm +%%DATADIR%%/tRNAscanSE/Sequence.pm +%%DATADIR%%/tRNAscanSE/SprinzlAlign.pm +%%DATADIR%%/tRNAscanSE/SprinzlAlignResults.pm +%%DATADIR%%/tRNAscanSE/SprinzlPos.pm +%%DATADIR%%/tRNAscanSE/Stats.pm +%%DATADIR%%/tRNAscanSE/Tscan.pm +%%DATADIR%%/tRNAscanSE/Utils.pm +%%DATADIR%%/tRNAscanSE/tRNA.pm