From owner-svn-ports-all@FreeBSD.ORG Wed Jun 3 17:04:20 2015 Return-Path: Delivered-To: svn-ports-all@freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) (using TLSv1.2 with cipher AECDH-AES256-SHA (256/256 bits)) (No client certificate requested) by hub.freebsd.org (Postfix) with ESMTPS id 6C70348A; Wed, 3 Jun 2015 17:04:20 +0000 (UTC) (envelope-from robak@FreeBSD.org) 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)) (Client did not present a certificate) by mx1.freebsd.org (Postfix) with ESMTPS id 5994E1D1A; Wed, 3 Jun 2015 17:04:20 +0000 (UTC) (envelope-from robak@FreeBSD.org) Received: from svn.freebsd.org ([127.0.1.70]) by svn.freebsd.org (8.14.9/8.14.9) with ESMTP id t53H4KNR060992; Wed, 3 Jun 2015 17:04:20 GMT (envelope-from robak@FreeBSD.org) Received: (from robak@localhost) by svn.freebsd.org (8.14.9/8.14.9/Submit) id t53H4JJb060989; Wed, 3 Jun 2015 17:04:19 GMT (envelope-from robak@FreeBSD.org) Message-Id: <201506031704.t53H4JJb060989@svn.freebsd.org> X-Authentication-Warning: svn.freebsd.org: robak set sender to robak@FreeBSD.org using -f From: Bartek Rutkowski Date: Wed, 3 Jun 2015 17:04:19 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r388450 - head/biology/mafft 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: 2.1.20 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: Wed, 03 Jun 2015 17:04:20 -0000 Author: robak Date: Wed Jun 3 17:04:19 2015 New Revision: 388450 URL: https://svnweb.freebsd.org/changeset/ports/388450 Log: biology/mafft: update 7.149 -> 7.221 PR: 200603 Submitted by: Reed A. Cartwright (maintainer) Modified: head/biology/mafft/Makefile head/biology/mafft/distinfo head/biology/mafft/pkg-plist Modified: head/biology/mafft/Makefile ============================================================================== --- head/biology/mafft/Makefile Wed Jun 3 16:51:58 2015 (r388449) +++ head/biology/mafft/Makefile Wed Jun 3 17:04:19 2015 (r388450) @@ -1,8 +1,8 @@ -# Created by: Reed A. Cartwright +# Created by: Fernan Aguero # $FreeBSD$ PORTNAME= mafft -PORTVERSION= 7.149 +PORTVERSION= 7.221 CATEGORIES= biology MASTER_SITES= http://mafft.cbrc.jp/alignment/software/ DISTNAME= ${PORTNAME}-${PORTVERSION}-without-extensions-src @@ -19,14 +19,14 @@ BUILD_WRKSRC= ${WRKSRC}/core USES= gmake shebangfix tar:tgz -SHEBANG_FILES= core/mafftash_premafft.tmpl +SHEBANG_FILES= core/mafftash_premafft.tmpl core/seekquencer_premafft.tmpl LIBEXEC_FILES= dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign \ pair2hat3s multi2hat3s pairash addsingle splittbfast \ disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap \ countlen seq2regtable regtable2seq score getlag dndpre \ setcore replaceu restoreu setdirection makedirectionlist version -PERL_LIBEXEC_FILES= mafftash_premafft.pl +PERL_LIBEXEC_FILES= mafftash_premafft.pl seekquencer_premafft.pl SCRIPT_FILES= mafft mafft-homologs.rb LN_FILES= einsi fftns fftnsi ginsi linsi mafft-einsi mafft-fftns \ mafft-fftnsi mafft-ginsi mafft-linsi mafft-nwns mafft-nwnsi \ Modified: head/biology/mafft/distinfo ============================================================================== --- head/biology/mafft/distinfo Wed Jun 3 16:51:58 2015 (r388449) +++ head/biology/mafft/distinfo Wed Jun 3 17:04:19 2015 (r388450) @@ -1,2 +1,2 @@ -SHA256 (mafft-7.149-without-extensions-src.tgz) = cfd909ee28afcc191f99c7ca37a507ddbefe9fbc416ef5692528c68a60c7b29a -SIZE (mafft-7.149-without-extensions-src.tgz) = 373846 +SHA256 (mafft-7.221-without-extensions-src.tgz) = 6d9cdcc04684c8c8ff61888dffc0396b48c713e4519a99f54e04c4a7179d2776 +SIZE (mafft-7.221-without-extensions-src.tgz) = 376075 Modified: head/biology/mafft/pkg-plist ============================================================================== --- head/biology/mafft/pkg-plist Wed Jun 3 16:51:58 2015 (r388449) +++ head/biology/mafft/pkg-plist Wed Jun 3 17:04:19 2015 (r388450) @@ -41,6 +41,7 @@ libexec/mafft/regtable2seq libexec/mafft/replaceu libexec/mafft/restoreu libexec/mafft/score +libexec/mafft/seekquencer_premafft.pl libexec/mafft/seq2regtable libexec/mafft/setcore libexec/mafft/setdirection @@ -53,13 +54,11 @@ man/man1/mafft.1.gz %%PORTDOCS%%%%DOCSDIR%%/license %%PORTDOCS%%%%DOCSDIR%%/readme %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample -%%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.allowshift %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.dpparttree %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.fftns2 %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.fftnsi %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.gins1 %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.ginsi -%%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.ginsi.allowshift %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.lins1 %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.linsi %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample.parttree