From owner-svn-ports-all@FreeBSD.ORG Sun Mar 23 20:50:54 2014 Return-Path: Delivered-To: svn-ports-all@freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [8.8.178.115]) (using TLSv1 with cipher ADH-AES256-SHA (256/256 bits)) (No client certificate requested) by hub.freebsd.org (Postfix) with ESMTPS id F1481CC4; Sun, 23 Mar 2014 20:50:54 +0000 (UTC) Received: from svn.freebsd.org (svn.freebsd.org [IPv6:2001:1900:2254:2068::e6a:0]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by mx1.freebsd.org (Postfix) with ESMTPS id D13A2375; Sun, 23 Mar 2014 20:50:54 +0000 (UTC) Received: from svn.freebsd.org ([127.0.1.70]) by svn.freebsd.org (8.14.8/8.14.8) with ESMTP id s2NKosd7092077; Sun, 23 Mar 2014 20:50:54 GMT (envelope-from pawel@svn.freebsd.org) Received: (from pawel@localhost) by svn.freebsd.org (8.14.8/8.14.8/Submit) id s2NKosOC092075; Sun, 23 Mar 2014 20:50:54 GMT (envelope-from pawel@svn.freebsd.org) Message-Id: <201403232050.s2NKosOC092075@svn.freebsd.org> From: Pawel Pekala Date: Sun, 23 Mar 2014 20:50:54 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r348888 - head/biology/ncbi-toolkit X-SVN-Group: ports-head 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: 2.1.17 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: Sun, 23 Mar 2014 20:50:55 -0000 Author: pawel Date: Sun Mar 23 20:50:54 2014 New Revision: 348888 URL: http://svnweb.freebsd.org/changeset/ports/348888 QAT: https://qat.redports.org/buildarchive/r348888/ Log: Add staging support Modified: head/biology/ncbi-toolkit/Makefile head/biology/ncbi-toolkit/pkg-plist Modified: head/biology/ncbi-toolkit/Makefile ============================================================================== --- head/biology/ncbi-toolkit/Makefile Sun Mar 23 20:29:25 2014 (r348887) +++ head/biology/ncbi-toolkit/Makefile Sun Mar 23 20:50:54 2014 (r348888) @@ -41,19 +41,15 @@ BLAST_EXE= bl2seq blastall blastcl3 blas X11_EXE= Nentrez Psequin ddv entrez2 sbtedit udv # and these are the man pages we have -MAN1= Psequin.1 asn2ff.1 asn2idx.1 asn2xml.1 asndhuff.1 \ +MAN_FILES= Psequin.1 asn2ff.1 asn2idx.1 asn2xml.1 asndhuff.1 \ asntool.1 blast.1 blastclust.1 cdscan.1 checksub.1 \ copymat.1 ddv.1 debruijn.1 entrez2.1 errhdr.1 fa2htgs.1 \ fastacmd.1 findspl.1 formatdb.1 formatrpsdb.1 getmesh.1 \ getpub.1 gil2bin.1 idfetch.1 indexpub.1 makemat.1 \ taxblast.1 tbl2asn.1 udv.1 vecscreen.1 -MLINKS= blast.1 bl2seq.1 blast.1 blastall.1 blast.1 blastcl3.1 \ - blast.1 blastpgp.1 blast.1 impala.1 blast.1 megablast.1 \ - blast.1 seedtop.1 blast.1 rpsblast.1 - -NO_STAGE= yes -.include +MAN_LINKS= bl2seq blastall blastcl3 blastpgp impala megablast \ + seedtop rpsblast post-patch: @${REINPLACE_CMD} -e \ @@ -80,36 +76,28 @@ do-build: # we thus roll our own do-install: -.for blastexe in ${BLAST_EXE} - (cd ${WRKSRC}/bin && ${INSTALL_PROGRAM} ${blastexe} ${PREFIX}/bin) -.endfor -.for toolkitexe in ${TOOLKIT_EXE} - (cd ${WRKSRC}/bin && ${INSTALL_PROGRAM} ${toolkitexe} ${PREFIX}/bin) -.endfor -.for x11exe in ${X11_EXE} - (cd ${WRKSRC}/bin && ${INSTALL_PROGRAM} ${x11exe} ${PREFIX}/bin) -.endfor - @${MKDIR} ${PREFIX}/lib/${DISTNAME} - (cd ${WRKSRC}/lib && ${INSTALL_DATA} *.a ${PREFIX}/lib/${DISTNAME}) - @${MKDIR} ${PREFIX}/include/${DISTNAME} + (cd ${WRKSRC}/bin && ${INSTALL_PROGRAM} ${BLAST_EXE} \ + ${TOOLKIT_EXE} ${X11_EXE} ${STAGEDIR}${PREFIX}/bin) + @${MKDIR} ${STAGEDIR}${PREFIX}/lib/${DISTNAME} + (cd ${WRKSRC}/lib && ${INSTALL_DATA} *.a \ + ${STAGEDIR}${PREFIX}/lib/${DISTNAME}) + @${MKDIR} ${STAGEDIR}${PREFIX}/include/${DISTNAME}/connect (cd ${WRKSRC}/include && ${INSTALL_DATA} *.h \ - ${PREFIX}/include/${DISTNAME}) - @${MKDIR} ${PREFIX}/include/${DISTNAME}/connect + ${STAGEDIR}${PREFIX}/include/${DISTNAME}) (cd ${WRKSRC}/include/connect && ${INSTALL_DATA} *.h \ - ${PREFIX}/include/${DISTNAME}/connect) -.for man in ${MAN1} - (cd ${WRKSRC}/doc/man && ${INSTALL_MAN} ${man} ${MANPREFIX}/man/man1) + ${STAGEDIR}${PREFIX}/include/${DISTNAME}/connect) + (cd ${WRKSRC}/doc/man && ${INSTALL_MAN} ${MAN_FILES} \ + ${STAGEDIR}${MANPREFIX}/man/man1) +.for man in ${MAN_LINKS} + ${LN} -s ${MANPREFIX}/man/man1/blast.1.gz \ + ${STAGEDIR}${PREFIX}/man/man1/${man}.1.gz .endfor - @${MKDIR} ${DATADIR} - (cd ${WRKSRC}/data && ${INSTALL_DATA} * ${DATADIR}) -.if ${PORT_OPTIONS:MDOCS} - @${MKDIR} ${DOCSDIR} + @${MKDIR} ${STAGEDIR}${DATADIR} + (cd ${WRKSRC}/data && ${INSTALL_DATA} * ${STAGEDIR}${DATADIR}) + @${MKDIR} ${STAGEDIR}${DOCSDIR} @(cd ${WRKSRC}/doc && ${TAR} --exclude man -cf - .) | \ - (cd ${DOCSDIR} && ${TAR} --unlink -xf -) - @${FIND} ${DOCSDIR} | ${XARGS} ${CHOWN} ${SHAREOWN}:${SHAREGRP} - @${FIND} ${DOCSDIR} -type d | ${XARGS} ${CHMOD} a+rx - @${FIND} ${DOCSDIR} -type f | ${XARGS} ${CHMOD} ${SHAREMODE} -.endif - @${CAT} ${PKGMESSAGE} + (cd ${STAGEDIR}${DOCSDIR} && ${TAR} --unlink -xf -) + @${FIND} ${STAGEDIR}${DOCSDIR} -type d | ${XARGS} ${CHMOD} a+rx + @${FIND} ${STAGEDIR}${DOCSDIR} -type f | ${XARGS} ${CHMOD} ${SHAREMODE} .include Modified: head/biology/ncbi-toolkit/pkg-plist ============================================================================== --- head/biology/ncbi-toolkit/pkg-plist Sun Mar 23 20:29:25 2014 (r348887) +++ head/biology/ncbi-toolkit/pkg-plist Sun Mar 23 20:50:54 2014 (r348888) @@ -585,6 +585,44 @@ lib/ncbi/libregexp.a lib/ncbi/libvibgif.a lib/ncbi/libvibnet.a lib/ncbi/libvibrant.a +man/man1/Psequin.1.gz +man/man1/asn2ff.1.gz +man/man1/asn2idx.1.gz +man/man1/asn2xml.1.gz +man/man1/asndhuff.1.gz +man/man1/asntool.1.gz +man/man1/bl2seq.1.gz +man/man1/blast.1.gz +man/man1/blastall.1.gz +man/man1/blastcl3.1.gz +man/man1/blastclust.1.gz +man/man1/blastpgp.1.gz +man/man1/cdscan.1.gz +man/man1/checksub.1.gz +man/man1/copymat.1.gz +man/man1/ddv.1.gz +man/man1/debruijn.1.gz +man/man1/entrez2.1.gz +man/man1/errhdr.1.gz +man/man1/fa2htgs.1.gz +man/man1/fastacmd.1.gz +man/man1/findspl.1.gz +man/man1/formatdb.1.gz +man/man1/formatrpsdb.1.gz +man/man1/getmesh.1.gz +man/man1/getpub.1.gz +man/man1/gil2bin.1.gz +man/man1/idfetch.1.gz +man/man1/impala.1.gz +man/man1/indexpub.1.gz +man/man1/makemat.1.gz +man/man1/megablast.1.gz +man/man1/rpsblast.1.gz +man/man1/seedtop.1.gz +man/man1/taxblast.1.gz +man/man1/tbl2asn.1.gz +man/man1/udv.1.gz +man/man1/vecscreen.1.gz %%PORTDOCS%%%%DOCSDIR%%/FAQ.txt %%PORTDOCS%%%%DOCSDIR%%/README.asn2xml %%PORTDOCS%%%%DOCSDIR%%/README.sdk