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Fri, 25 Sep 2020 06:57:44 +0000 (UTC) (envelope-from yuri@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id 08P6viET071837; Fri, 25 Sep 2020 06:57:44 GMT (envelope-from yuri@FreeBSD.org) Received: (from yuri@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id 08P6vijL071834; Fri, 25 Sep 2020 06:57:44 GMT (envelope-from yuri@FreeBSD.org) Message-Id: <202009250657.08P6vijL071834@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: yuri set sender to yuri@FreeBSD.org using -f From: Yuri Victorovich Date: Fri, 25 Sep 2020 06:57:44 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r549992 - head/biology/ncbi-cxx-toolkit X-SVN-Group: ports-head X-SVN-Commit-Author: yuri X-SVN-Commit-Paths: head/biology/ncbi-cxx-toolkit X-SVN-Commit-Revision: 549992 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-BeenThere: svn-ports-head@freebsd.org X-Mailman-Version: 2.1.33 Precedence: list List-Id: SVN commit messages for the ports tree for head List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Fri, 25 Sep 2020 06:57:45 -0000 Author: yuri Date: Fri Sep 25 06:57:43 2020 New Revision: 549992 URL: https://svnweb.freebsd.org/changeset/ports/549992 Log: biology/ncbi-cxx-toolkit: Update 21.0.0 -> 22.0.0 Modified: head/biology/ncbi-cxx-toolkit/Makefile head/biology/ncbi-cxx-toolkit/distinfo head/biology/ncbi-cxx-toolkit/pkg-descr Modified: head/biology/ncbi-cxx-toolkit/Makefile ============================================================================== --- head/biology/ncbi-cxx-toolkit/Makefile Fri Sep 25 06:57:06 2020 (r549991) +++ head/biology/ncbi-cxx-toolkit/Makefile Fri Sep 25 06:57:43 2020 (r549992) @@ -1,10 +1,9 @@ # $FreeBSD$ PORTNAME= ncbi-cxx-toolkit -DISTVERSION= 21_0_0 -PORTREVISION= 2 +DISTVERSION= 22_0_0 CATEGORIES= biology science devel -MASTER_SITES= ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/2018/Apr_2_2018/ +MASTER_SITES= ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/2019/Mar_28_2019/ DISTNAME= ncbi_cxx--${DISTVERSION} MAINTAINER= yuri@FreeBSD.org @@ -13,7 +12,8 @@ COMMENT= NCBI C++ Toolkit LICENSE= PD LICENSE_FILE= ${WRKSRC}/doc/public/LICENSE -LIB_DEPENDS= libpcre.so:devel/pcre +LIB_DEPENDS= liblmdb.so:databases/lmdb \ + libpcre.so:devel/pcre RUN_DEPENDS= bash:shells/bash USES= compiler:c++11-lang gmake mysql perl5 python shebangfix ssl xorg @@ -23,8 +23,15 @@ USE_XORG= x11 xpm GNU_CONFIGURE= yes CONFIGURE_ARGS= --without-debug --with-dll --without-static -post-install: # autoplist: thousands of files - @${STRIP_CMD} ${STAGEDIR}${PREFIX}/bin/run_with_lock +post-install: + # strip + @${FIND} ${STAGEDIR}${PREFIX}/bin -type f | ${GREP} -v -E '\.(sh|py|pl)$$' | ${XARGS} ${STRIP_CMD} + @${FIND} ${STAGEDIR}${PREFIX}/lib -name "*.so" | ${XARGS} ${STRIP_CMD} + # remove an empty directory + @${RMDIR} ${STAGEDIR}${PREFIX}/include/ncbi-tools++/objtools/data_loaders/genbank/psg + # remove the conflicting file + @${RM} ${STAGEDIR}${PREFIX}/lib/liblmdb.so + # autoplist: thousands of files @cd ${STAGEDIR}${PREFIX} && \ ${RMDIR} include/ncbi-tools++/algo/blast/bl2api include/ncbi-tools++/objtools/test && \ ${FIND} * -type f -or -type l >> ${TMPPLIST} Modified: head/biology/ncbi-cxx-toolkit/distinfo ============================================================================== --- head/biology/ncbi-cxx-toolkit/distinfo Fri Sep 25 06:57:06 2020 (r549991) +++ head/biology/ncbi-cxx-toolkit/distinfo Fri Sep 25 06:57:43 2020 (r549992) @@ -1,3 +1,3 @@ -TIMESTAMP = 1538937167 -SHA256 (ncbi_cxx--21_0_0.tar.gz) = 48cc3ae24ca63d1ab1be148e7525e8c5b9f4eaa5eb36d172800784b640a84a4f -SIZE (ncbi_cxx--21_0_0.tar.gz) = 52661343 +TIMESTAMP = 1600993142 +SHA256 (ncbi_cxx--22_0_0.tar.gz) = ef39429bbc7f13c44c0d327432d9cfb430f9f20d10d825e6b2c4ddd7ccce457f +SIZE (ncbi_cxx--22_0_0.tar.gz) = 56042079 Modified: head/biology/ncbi-cxx-toolkit/pkg-descr ============================================================================== --- head/biology/ncbi-cxx-toolkit/pkg-descr Fri Sep 25 06:57:06 2020 (r549991) +++ head/biology/ncbi-cxx-toolkit/pkg-descr Fri Sep 25 06:57:43 2020 (r549992) @@ -21,4 +21,4 @@ It contains: * Portable FLTK and OpenGL based GUI and graphic libraries * XmlWrapp (XML parsing and handling, XSLT, XPath) -WWW: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ +WWW: https://ncbi.github.io/cxx-toolkit/