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Bacon" Date: Sat, 21 Sep 2019 02:44:54 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r512461 - head/biology/fastqc X-SVN-Group: ports-head X-SVN-Commit-Author: jwb X-SVN-Commit-Paths: head/biology/fastqc X-SVN-Commit-Revision: 512461 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: 2.1.29 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: Sat, 21 Sep 2019 02:44:55 -0000 Author: jwb Date: Sat Sep 21 02:44:54 2019 New Revision: 512461 URL: https://svnweb.freebsd.org/changeset/ports/512461 Log: biology/fastqc: Upgrade to 0.11.8 Minor bug fixes and edge case handling. Minor Makefile clean up. Modified: head/biology/fastqc/Makefile head/biology/fastqc/distinfo (contents, props changed) head/biology/fastqc/pkg-descr (contents, props changed) Modified: head/biology/fastqc/Makefile ============================================================================== --- head/biology/fastqc/Makefile Sat Sep 21 02:13:22 2019 (r512460) +++ head/biology/fastqc/Makefile Sat Sep 21 02:44:54 2019 (r512461) @@ -1,11 +1,10 @@ # $FreeBSD$ PORTNAME= fastqc -DISTVERSIONPREFIX= v -DISTVERSION= 0.11.5 +DISTVERSION= 0.11.8 CATEGORIES= biology java perl5 MASTER_SITES= https://www.bioinformatics.babraham.ac.uk/projects/fastqc/ -DISTNAME= ${PORTNAME}_${DISTVERSIONPREFIX}${DISTVERSION} +DISTNAME= ${PORTNAME}_v${DISTVERSIONPREFIX}${DISTVERSION} MAINTAINER= jwb@FreeBSD.org COMMENT= Quality control tool for high throughput sequence data @@ -13,14 +12,14 @@ COMMENT= Quality control tool for high throughput sequ LICENSE= GPLv3 LICENSE_FILE= ${WRKSRC}/LICENSE.txt -NO_ARCH= yes -NO_BUILD= yes - USES= zip perl5 shebangfix -SHEBANG_FILES= fastqc USE_JAVA= yes USE_PERL5= run +SHEBANG_FILES= fastqc + +NO_ARCH= yes +NO_BUILD= yes WRKSRC= ${WRKDIR}/FastQC post-patch: @@ -31,10 +30,9 @@ post-patch: # Help files are not optional docs, but required for Help menu functionality do-install: - ${MKDIR} ${STAGEDIR}${JAVAJARDIR}/fastqc + @${MKDIR} ${STAGEDIR}${JAVAJARDIR}/fastqc ${INSTALL_DATA} ${WRKSRC}/*.jar ${STAGEDIR}${JAVAJARDIR}/fastqc - ${INSTALL_SCRIPT} ${WRKSRC}/fastqc \ - ${STAGEDIR}${PREFIX}/bin + ${INSTALL_SCRIPT} ${WRKSRC}/fastqc ${STAGEDIR}${PREFIX}/bin cd ${WRKSRC} && ${COPYTREE_SHARE} "Configuration Help Templates" \ ${STAGEDIR}${DATADIR} cd ${WRKSRC} && ${COPYTREE_SHARE} "net org uk" \ Modified: head/biology/fastqc/distinfo ============================================================================== --- head/biology/fastqc/distinfo Sat Sep 21 02:13:22 2019 (r512460) +++ head/biology/fastqc/distinfo Sat Sep 21 02:44:54 2019 (r512461) @@ -1,3 +1,3 @@ -TIMESTAMP = 1509737655 -SHA256 (fastqc_v0.11.5.zip) = dd7a5ad80ceed2588cf6d6ffe35e0f161c0d9977ed08355f5e4d9473282cbd66 -SIZE (fastqc_v0.11.5.zip) = 10026429 +TIMESTAMP = 1538750959 +SHA256 (fastqc_v0.11.8.zip) = ca87fe77807e4ac796b6cad949858921fd20652c4038f586f05ece94b5022129 +SIZE (fastqc_v0.11.8.zip) = 10255059 Modified: head/biology/fastqc/pkg-descr ============================================================================== --- head/biology/fastqc/pkg-descr Sat Sep 21 02:13:22 2019 (r512460) +++ head/biology/fastqc/pkg-descr Sat Sep 21 02:44:54 2019 (r512461) @@ -2,6 +2,6 @@ FastQC aims to provide a simple way to do some quality sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any -further analysis. +further analysis. WWW: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/