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From: Marcelo Araujo <araujo@FreeBSD.org>
Date: Mon, 4 Feb 2013 10:07:31 +0000 (UTC)
To: ports-committers@freebsd.org, svn-ports-all@freebsd.org,
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Subject: svn commit: r311601 - in head/biology/phyml: . files
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Author: araujo
Date: Mon Feb  4 10:07:30 2013
New Revision: 311601
URL: http://svnweb.freebsd.org/changeset/ports/311601

Log:
  - Update to 20121109.
  
  PR:		ports/175014
  Submitted by:	KATO Tsuguru <tkato432@yahoo.com>

Deleted:
  head/biology/phyml/files/
Modified:
  head/biology/phyml/Makefile   (contents, props changed)
  head/biology/phyml/distinfo   (contents, props changed)

Modified: head/biology/phyml/Makefile
==============================================================================
--- head/biology/phyml/Makefile	Mon Feb  4 10:06:31 2013	(r311600)
+++ head/biology/phyml/Makefile	Mon Feb  4 10:07:30 2013	(r311601)
@@ -1,31 +1,33 @@
-# New ports collection makefile for:   phyml 3.0 20090706
-# Date created:        July 17, 2009
-# Whom:                ballen
-#
+# Created by: ballen
 # $FreeBSD$
-#
 
 PORTNAME=	phyml
-PORTVERSION=	20090706
+PORTVERSION=	20121109
 CATEGORIES=	biology
 MASTER_SITES=	GOOGLE_CODE
-DISTNAME=	phyml_20090706
+DISTNAME=	${PORTNAME}-20120412
+DIST_SUBDIR=	${PORTNAME}
+
+PATCH_SITES=	${MASTER_SITES}
+PATCHFILES=	${PORTVERSION}.patch
+PATCH_DIST_STRIP=	-p4
 
 MAINTAINER=	ports@FreeBSD.org
-COMMENT=	A simple, fast, and accurate algorithm to estimate large phylogenies
+COMMENT=	Simple, fast, and accurate algorithm to estimate large phylogenies
 
-WRKSRC=		${WRKDIR}/${PORTNAME}/src
-GNU_CONFIGURE=	yes
-PLIST_FILES=	bin/phyml
-USE_AUTOTOOLS=	automake aclocal
-AUTOMAKE_ARGS=	--add-missing
+LICENSE=	GPLv2
 
-.include <bsd.port.pre.mk>
+PATCH_WRKSRC=	${WRKSRC}/src
 
-pre-configure:
-	${RM} ${WRKSRC}/missing
+USE_AUTOTOOLS=	aclocal autoheader automake autoconf
+AUTOMAKE_ARGS=	--add-missing
+MAKE_JOBS_SAFE=	yes
+
+PLIST_FILES=	bin/phyml
 
-pre-install:
-	${CHMOD} a+x ${WRKSRC}/install-sh
+post-patch:
+	@${REINPLACE_CMD} -e \
+		'/^AC_INIT/s|,esyscmd.*,|,[${PORTVERSION}],| ; \
+		 s|-O2 -msse|$${CFLAGS}|' ${WRKSRC}/configure.ac
 
-.include <bsd.port.post.mk>
+.include <bsd.port.mk>

Modified: head/biology/phyml/distinfo
==============================================================================
--- head/biology/phyml/distinfo	Mon Feb  4 10:06:31 2013	(r311600)
+++ head/biology/phyml/distinfo	Mon Feb  4 10:07:30 2013	(r311601)
@@ -1,2 +1,4 @@
-SHA256 (phyml_20090706.tar.gz) = b39fa8ba2bc3a6566f3463c77db0d8992f71a71af353be539d0916173785d4bd
-SIZE (phyml_20090706.tar.gz) = 818229
+SHA256 (phyml/phyml-20120412.tar.gz) = a43e51534a1ae2d1ee4c94ced3a1855813ff4872a6c9c2b83b369ddb71198417
+SIZE (phyml/phyml-20120412.tar.gz) = 4089133
+SHA256 (phyml/20121109.patch) = 3aa8bebd0ff78a553795ddda512ef1c7542d1e3c90c1da61c7125c304f6caa2c
+SIZE (phyml/20121109.patch) = 11016