- Update to version 9.03 New file: files/patch-dev3.c Remove file: files/patch-Makefile pkg-plist
Responsible Changed From-To: freebsd-ports-bugs->miwi miwi@ wants his PRs (via the GNATS Auto Assign Tool)
Responsible Changed From-To: miwi->freebsd-ports-bugs Reassign to the heap miwi being overloaded for now
Responsible Changed From-To: freebsd-ports-bugs->araujo I'll take it.
Author: araujo Date: Mon Jan 14 08:04:38 2013 New Revision: 310361 URL: http://svnweb.freebsd.org/changeset/ports/310361 Log: - Update to 9.03. PR: ports/172499 Submitted by: KATO Tsuguru <tkato432@yahoo.com> Added: head/biology/t_coffee/files/patch-dev3.c (contents, props changed) Deleted: head/biology/t_coffee/files/patch-Makefile head/biology/t_coffee/pkg-plist Modified: head/biology/t_coffee/Makefile head/biology/t_coffee/distinfo (contents, props changed) Modified: head/biology/t_coffee/Makefile ============================================================================== --- head/biology/t_coffee/Makefile Mon Jan 14 07:17:13 2013 (r310360) +++ head/biology/t_coffee/Makefile Mon Jan 14 08:04:38 2013 (r310361) @@ -2,36 +2,40 @@ # $FreeBSD$ PORTNAME= t_coffee -PORTVERSION= 5.68 +PORTVERSION= 9.03 +DISTVERSIONSUFFIX= .r1318 CATEGORIES= biology -MASTER_SITES= http://www.tcoffee.org/Packages/ -DISTNAME= T-COFFEE_distribution_Version_${PORTVERSION} +MASTER_SITES= http://www.tcoffee.org/Packages/Stable/%SUBDIR%/ +MASTER_SITE_SUBDIR= Version_${PORTVERSION}${DISTVERSIONSUFFIX} +DISTNAME= T-COFFEE_distribution_Version_${PORTVERSION}${DISTVERSIONSUFFIX} MAINTAINER= ports@FreeBSD.org COMMENT= A multiple DNA or protein sequence alignment package -BUILD_DEPENDS= clustalw:${PORTSDIR}/biology/clustalw -RUN_DEPENDS:= ${BUILD_DEPENDS} +LICENSE= GPLv2 + +RUN_DEPENDS= clustalw:${PORTSDIR}/biology/clustalw + +OPTIONS_DEFINE= EXAMPLES BUILD_WRKSRC= ${WRKSRC}/t_coffee_source -MAKE_ENV= MV=${MV} USER_BIN=${PREFIX}/bin \ - CLUSTALW_4_TCOFFEE=${LOCALBASE}/bin/clustalw +USE_FORTRAN= yes +MAKE_ENV= FCC="${FC} ${FFLAGS}" MAKEFILE= makefile +MAKE_JOBS_SAFE= yes -do-install: - ${INSTALL_PROGRAM} ${WRKSRC}/bin/t_coffee ${PREFIX}/bin +PORTEXAMPLES= * +PLIST_FILES= bin/TMalign bin/t_coffee -post-install: -.if !defined(NOPORTDOCS) - @ ${MKDIR} ${DOCSDIR}/html - ${INSTALL_DATA} ${WRKSRC}/doc/* ${DOCSDIR} - ${INSTALL_DATA} ${WRKSRC}/license.txt ${DOCSDIR} - ${INSTALL_DATA} ${WRKSRC}/html/* ${DOCSDIR}/html -.endif -.if !defined(NOPORTEXAMPLES) - @ ${MKDIR} ${EXAMPLESDIR} - cd ${WRKSRC}/example && ${COPYTREE_SHARE} \* ${EXAMPLESDIR} +.include <bsd.port.options.mk> + +do-install: + (cd ${BUILD_WRKSRC} \ + && ${INSTALL_PROGRAM} TMalign t_coffee ${PREFIX}/bin) +.if ${PORT_OPTIONS:MEXAMPLES} + @${MKDIR} ${EXAMPLESDIR} + @(cd ${WRKSRC}/example && ${COPYTREE_SHARE} . ${EXAMPLESDIR}) .endif .include <bsd.port.mk> Modified: head/biology/t_coffee/distinfo ============================================================================== --- head/biology/t_coffee/distinfo Mon Jan 14 07:17:13 2013 (r310360) +++ head/biology/t_coffee/distinfo Mon Jan 14 08:04:38 2013 (r310361) @@ -1,2 +1,2 @@ -SHA256 (T-COFFEE_distribution_Version_5.68.tar.gz) = 137d188cef6f33a42cbd656482eb961d1588fef3091d2457ee0ef23fab16a6de -SIZE (T-COFFEE_distribution_Version_5.68.tar.gz) = 2875438 +SHA256 (T-COFFEE_distribution_Version_9.03.r1318.tar.gz) = 5bb9a531a4036b741a8ff0fe19f3591a3f33bf7ac4f484e5329b1b5dd1fff43c +SIZE (T-COFFEE_distribution_Version_9.03.r1318.tar.gz) = 3455629 Added: head/biology/t_coffee/files/patch-dev3.c ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/t_coffee/files/patch-dev3.c Mon Jan 14 08:04:38 2013 (r310361) @@ -0,0 +1,10 @@ +--- t_coffee_source/dev3.c.orig 2012-07-13 02:06:31.000000000 +0900 ++++ t_coffee_source/dev3.c 2012-10-04 22:14:10.000000000 +0900 +@@ -3,6 +3,7 @@ + #include <math.h> + #include <stdarg.h> + #include <string.h> ++#include <sys/types.h> + #include <sys/sysctl.h> + #include "dev3_lib_header.h" + /******************************COPYRIGHT NOTICE*******************************/ _______________________________________________ svn-ports-all@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/svn-ports-all To unsubscribe, send any mail to "svn-ports-all-unsubscribe@freebsd.org"
State Changed From-To: open->closed Committed. Thanks!