From owner-svn-ports-all@freebsd.org Tue Dec 20 16:48:13 2016 Return-Path: Delivered-To: svn-ports-all@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id AED3DC89E34; Tue, 20 Dec 2016 16:48:13 +0000 (UTC) (envelope-from jrm@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 mx1.freebsd.org (Postfix) with ESMTPS id 649EF14BC; Tue, 20 Dec 2016 16:48:13 +0000 (UTC) (envelope-from jrm@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id uBKGmCqZ058734; Tue, 20 Dec 2016 16:48:12 GMT (envelope-from jrm@FreeBSD.org) Received: (from jrm@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id uBKGmCxe058732; Tue, 20 Dec 2016 16:48:12 GMT (envelope-from jrm@FreeBSD.org) Message-Id: <201612201648.uBKGmCxe058732@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: jrm set sender to jrm@FreeBSD.org using -f From: Joseph Mingrone Date: Tue, 20 Dec 2016 16:48:12 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r429002 - head/biology/cd-hit 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: 2.1.23 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: Tue, 20 Dec 2016 16:48:13 -0000 Author: jrm Date: Tue Dec 20 16:48:12 2016 New Revision: 429002 URL: https://svnweb.freebsd.org/changeset/ports/429002 Log: biology/cd-hit: Update to bug-fix release 4.6.6 Changes in version 4.6.6: Bug fix for cd-hit-dup in variable length input when write out R1 reads Changes in version 4.6.5: Add filter for -aL option so that short sequences will be skipped if not satisfy representative sequences' -aL requirement. This will make compute faster in clustering settings where sequences in the same cluster are required to have similar length using -aL -AL option (e.g. -aL 0.9). Approved by: AMDmi3 (mentor) swills (mentor) Differential Revision: https://reviews.freebsd.org/D8186 Modified: head/biology/cd-hit/Makefile head/biology/cd-hit/distinfo Modified: head/biology/cd-hit/Makefile ============================================================================== --- head/biology/cd-hit/Makefile Tue Dec 20 16:45:39 2016 (r429001) +++ head/biology/cd-hit/Makefile Tue Dec 20 16:48:12 2016 (r429002) @@ -2,8 +2,7 @@ # $FreeBSD$ PORTNAME= cd-hit -PORTVERSION= 4.6.4 -PORTREVISION= 1 +PORTVERSION= 4.6.6 DISTVERSIONPREFIX= V CATEGORIES= biology @@ -17,7 +16,6 @@ GH_ACCOUNT= weizhongli GH_PROJECT= cdhit USES= compiler:openmp gmake shebangfix -WRKSRC= ${WRKDIR}/cdhit-${PORTVERSION} SHEBANG_FILES= ${WRKSRC}/*.pl MAKE_FLAGS= openmp=yes Modified: head/biology/cd-hit/distinfo ============================================================================== --- head/biology/cd-hit/distinfo Tue Dec 20 16:45:39 2016 (r429001) +++ head/biology/cd-hit/distinfo Tue Dec 20 16:48:12 2016 (r429002) @@ -1,2 +1,3 @@ -SHA256 (weizhongli-cdhit-V4.6.4_GH0.tar.gz) = b170108147ec91d8b5f9d10b9e8d5fd971e7aef3af6ec1e5542cbaf10d54b2fc -SIZE (weizhongli-cdhit-V4.6.4_GH0.tar.gz) = 1148426 +TIMESTAMP = 1482076217 +SHA256 (weizhongli-cdhit-V4.6.6_GH0.tar.gz) = a0c89c969ad338f958620083b12bc69fa30fcba8246a7ec0b6243e5b2ba0365d +SIZE (weizhongli-cdhit-V4.6.6_GH0.tar.gz) = 1149112