From owner-svn-ports-all@freebsd.org Thu Aug 2 19:28:37 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 AEFB8104D1A7; Thu, 2 Aug 2018 19:28:37 +0000 (UTC) (envelope-from fernape@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 4CED777EBA; Thu, 2 Aug 2018 19:28:37 +0000 (UTC) (envelope-from fernape@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 2DE8215FB6; Thu, 2 Aug 2018 19:28:37 +0000 (UTC) (envelope-from fernape@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id w72JSbd5086951; Thu, 2 Aug 2018 19:28:37 GMT (envelope-from fernape@FreeBSD.org) Received: (from fernape@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id w72JSaCx086949; Thu, 2 Aug 2018 19:28:36 GMT (envelope-from fernape@FreeBSD.org) Message-Id: <201808021928.w72JSaCx086949@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: fernape set sender to fernape@FreeBSD.org using -f From: =?UTF-8?Q?Fernando_Apestegu=c3=ada?= Date: Thu, 2 Aug 2018 19:28:36 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r476246 - head/biology/samtools X-SVN-Group: ports-head X-SVN-Commit-Author: fernape X-SVN-Commit-Paths: head/biology/samtools X-SVN-Commit-Revision: 476246 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: Thu, 02 Aug 2018 19:28:37 -0000 Author: fernape Date: Thu Aug 2 19:28:36 2018 New Revision: 476246 URL: https://svnweb.freebsd.org/changeset/ports/476246 Log: biology/samtools: update to 1.9 PR: 230171 Submitted by: ndowens.fbsd@yandex.com Approved by: tcberner (mentor) Differential Revision: https://reviews.freebsd.org/D16569 Modified: head/biology/samtools/Makefile head/biology/samtools/distinfo Modified: head/biology/samtools/Makefile ============================================================================== --- head/biology/samtools/Makefile Thu Aug 2 19:27:13 2018 (r476245) +++ head/biology/samtools/Makefile Thu Aug 2 19:28:36 2018 (r476246) @@ -2,7 +2,7 @@ # $FreeBSD$ PORTNAME= samtools -PORTVERSION= 1.6 +DISTVERSION= 1.9 CATEGORIES= biology MAINTAINER= cartwright@asu.edu @@ -15,16 +15,15 @@ BUILD_DEPENDS= htslib>=1.6:biology/htslib LIB_DEPENDS= libhts.so:biology/htslib TEST_DEPENDS= bash:shells/bash +USES= autoreconf gmake localbase ncurses \ + perl5 python:env shebangfix + USE_GITHUB= yes -USES= autoreconf gmake ncurses perl5 python:env shebangfix USE_PERL5= test GNU_CONFIGURE= yes SUB_FILES= pkg-message SHEBANG_FILES= misc/*.pl misc/*.py misc/plot-bamstats test/test.pl - -CPPFLAGS+= -I${LOCALBASE}/include -LDFLAGS+= -L${LOCALBASE}/lib TEST_TARGET= test Modified: head/biology/samtools/distinfo ============================================================================== --- head/biology/samtools/distinfo Thu Aug 2 19:27:13 2018 (r476245) +++ head/biology/samtools/distinfo Thu Aug 2 19:28:36 2018 (r476246) @@ -1,3 +1,3 @@ -TIMESTAMP = 1508304738 -SHA256 (samtools-samtools-1.6_GH0.tar.gz) = c0d1ffefe441297ee0eec0e032ac3131519f82fd1a11d38fbcec19e2d5822b28 -SIZE (samtools-samtools-1.6_GH0.tar.gz) = 4014195 +TIMESTAMP = 1532906637 +SHA256 (samtools-samtools-1.9_GH0.tar.gz) = 211600bd180d01030b3fe25baa7ae1c105106bed6c3f8d993f41dd278d44c637 +SIZE (samtools-samtools-1.9_GH0.tar.gz) = 4098992