From owner-svn-ports-all@freebsd.org Thu Jul 11 17:05:24 2019 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 4ECBB15D9175; Thu, 11 Jul 2019 17:05:24 +0000 (UTC) (envelope-from yuri@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) server-signature RSA-PSS (4096 bits) client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "Let's Encrypt Authority X3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id E6589887AB; Thu, 11 Jul 2019 17:05:23 +0000 (UTC) (envelope-from yuri@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 BC2151902; Thu, 11 Jul 2019 17:05:23 +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 x6BH5NgQ040557; Thu, 11 Jul 2019 17:05:23 GMT (envelope-from yuri@FreeBSD.org) Received: (from yuri@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id x6BH5MrX040552; Thu, 11 Jul 2019 17:05:22 GMT (envelope-from yuri@FreeBSD.org) Message-Id: <201907111705.x6BH5MrX040552@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: yuri set sender to yuri@FreeBSD.org using -f From: Yuri Victorovich Date: Thu, 11 Jul 2019 17:05:22 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r506417 - in head/biology: . libbigwig libbigwig/files X-SVN-Group: ports-head X-SVN-Commit-Author: yuri X-SVN-Commit-Paths: in head/biology: . libbigwig libbigwig/files X-SVN-Commit-Revision: 506417 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Rspamd-Queue-Id: E6589887AB X-Spamd-Bar: -- Authentication-Results: mx1.freebsd.org X-Spamd-Result: default: False [-2.96 / 15.00]; local_wl_from(0.00)[FreeBSD.org]; NEURAL_HAM_MEDIUM(-1.00)[-1.000,0]; NEURAL_HAM_LONG(-1.00)[-1.000,0]; NEURAL_HAM_SHORT(-0.96)[-0.957,0]; ASN(0.00)[asn:11403, ipnet:2610:1c1:1::/48, country:US] 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: Thu, 11 Jul 2019 17:05:24 -0000 Author: yuri Date: Thu Jul 11 17:05:22 2019 New Revision: 506417 URL: https://svnweb.freebsd.org/changeset/ports/506417 Log: New port: biology/libbigwig: C library for handling bigWig files (containing genomic data) Added: head/biology/libbigwig/ head/biology/libbigwig/Makefile (contents, props changed) head/biology/libbigwig/distinfo (contents, props changed) head/biology/libbigwig/files/ head/biology/libbigwig/files/patch-Makefile (contents, props changed) head/biology/libbigwig/pkg-descr (contents, props changed) Modified: head/biology/Makefile Modified: head/biology/Makefile ============================================================================== --- head/biology/Makefile Thu Jul 11 16:59:17 2019 (r506416) +++ head/biology/Makefile Thu Jul 11 17:05:22 2019 (r506417) @@ -65,6 +65,7 @@ SUBDIR += kallisto SUBDIR += lagan SUBDIR += lamarc + SUBDIR += libbigwig SUBDIR += libgtextutils SUBDIR += libsbml SUBDIR += linux-foldingathome Added: head/biology/libbigwig/Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/libbigwig/Makefile Thu Jul 11 17:05:22 2019 (r506417) @@ -0,0 +1,33 @@ +# $FreeBSD$ + +PORTNAME= libbigwig +DISTVERSION= 0.4.4 +CATEGORIES= biology + +MAINTAINER= yuri@FreeBSD.org +COMMENT= C library for handling bigWig files (containing genomic data) + +LICENSE= MIT +LICENSE_FILE= ${WRKSRC}/LICENSE + +LIB_DEPENDS= libcurl.so:ftp/curl + +USES= gmake localbase:ldflags +USE_GITHUB= yes +GH_ACCOUNT= dpryan79 +GH_PROJECT= libBigWig +USE_LDCONFIG= yes + +MAKE_ARGS= LDFLAGS=-L${LOCALBASE}/lib + +PLIST_FILES= include/bigWig.h \ + include/bigWigIO.h \ + include/bwCommon.h \ + include/bwValues.h \ + lib/libBigWig.a \ + lib/libBigWig.so + +post-stage: + @${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/libBigWig.so + +.include Added: head/biology/libbigwig/distinfo ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/libbigwig/distinfo Thu Jul 11 17:05:22 2019 (r506417) @@ -0,0 +1,3 @@ +TIMESTAMP = 1562863376 +SHA256 (dpryan79-libBigWig-0.4.4_GH0.tar.gz) = 43a2298b2ebadc48103447a3bb4426df1b38d1bec5fa564e50ed2f00cc060478 +SIZE (dpryan79-libBigWig-0.4.4_GH0.tar.gz) = 272926 Added: head/biology/libbigwig/files/patch-Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/libbigwig/files/patch-Makefile Thu Jul 11 17:05:22 2019 (r506417) @@ -0,0 +1,14 @@ +--- Makefile.orig 2019-07-11 16:45:26 UTC ++++ Makefile +@@ -71,7 +71,7 @@ clean: + rm -f *.o libBigWig.a libBigWig.so *.pico test/testLocal test/testRemote test/testWrite test/exampleWrite test/testRemoteManyContigs test/testBigBed test/testIterator example_output.bw + + install: libBigWig.a libBigWig.so +- install -d $(prefix)/lib $(prefix)/include +- install libBigWig.a $(prefix)/lib +- install libBigWig.so $(prefix)/lib +- install *.h $(prefix)/include ++ install -d $(prefix)/lib $(DESTDIR)$(prefix)/include ++ install libBigWig.a $(DESTDIR)$(prefix)/lib ++ install libBigWig.so $(DESTDIR)$(prefix)/lib ++ install *.h $(DESTDIR)$(prefix)/include Added: head/biology/libbigwig/pkg-descr ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/libbigwig/pkg-descr Thu Jul 11 17:05:22 2019 (r506417) @@ -0,0 +1,3 @@ +A C library for reading/parsing local and remote bigWig and bigBed files. + +WWW: https://github.com/dpryan79/libBigWig