From tkato@prontomail.com  Fri Feb  7 06:31:18 2003
Return-Path: <tkato@prontomail.com>
Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125])
	by hub.freebsd.org (Postfix) with ESMTP id BD7F237B401
	for <FreeBSD-gnats-submit@freebsd.org>; Fri,  7 Feb 2003 06:31:18 -0800 (PST)
Received: from socigeog.hmt.toyama-u.ac.jp (socigeog.hmt.toyama-u.ac.jp [160.26.63.48])
	by mx1.FreeBSD.org (Postfix) with ESMTP id 21EE543FDD
	for <FreeBSD-gnats-submit@freebsd.org>; Fri,  7 Feb 2003 06:31:16 -0800 (PST)
	(envelope-from tkato@prontomail.com)
Received: from localhost (localhost [127.0.0.1])
	by socigeog.hmt.toyama-u.ac.jp (Postfix) with SMTP id 44575618
	for <FreeBSD-gnats-submit@freebsd.org>; Fri,  7 Feb 2003 23:31:07 +0900 (JST)
Message-Id: <20030207233015.4f5fd487.tkato@prontomail.com>
Date: Fri, 7 Feb 2003 23:30:15 +0900
From: KATO Tsuguru <tkato@prontomail.com>
To: FreeBSD-gnats-submit@freebsd.org
Subject: Update port: biology/libgenome to 0.5.1

>Number:         48047
>Category:       ports
>Synopsis:       Update port: biology/libgenome to 0.5.1
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    freebsd-ports-bugs
>State:          closed
>Quarter:        
>Keywords:       
>Date-Required:  
>Class:          change-request
>Submitter-Id:   current-users
>Arrival-Date:   Fri Feb 07 06:40:10 PST 2003
>Closed-Date:    Tue Feb 11 10:14:19 PST 2003
>Last-Modified:  Tue Feb 11 10:14:19 PST 2003
>Originator:     KATO Tsuguru
>Release:        FreeBSD 4.7-RELEASE-p3 i386
>Organization:
>Environment:
>Description:
- Update to version 0.5.1

Remove file:
patch-include::gn::gnCompare.h
patch-include::gn::gnException.h
patch-include::gn::gnFastTranslator.h
patch-include::gn::gnFileContig.h
patch-include::gn::gnSourceHeader.h
patch-include::gn::gnSourceQualifier.h

>How-To-Repeat:
>Fix:

diff -urN /usr/ports/biology/libgenome/Makefile biology/libgenome/Makefile
--- /usr/ports/biology/libgenome/Makefile	Fri Nov  8 21:23:15 2002
+++ biology/libgenome/Makefile	Tue Feb  4 23:50:19 2003
@@ -7,8 +7,7 @@
 #
 
 PORTNAME=	libgenome
-PORTVERSION=	0.5.0
-PORTREVISION=	1
+PORTVERSION=	0.5.1
 CATEGORIES=	biology
 MASTER_SITES=	http://www.libgenome.org/releases/
 DISTNAME=	libGenome-${PORTVERSION}
@@ -17,11 +16,11 @@
 
 USE_REINPLACE=	yes
 USE_LIBTOOL=	yes
-CONFIGURE_TARGET=	--build=${ARCH}-portbld-freebsd${OSREL}
+CONFIGURE_TARGET=	--build=${MACHINE_ARCH}-portbld-freebsd${OSREL}
 INSTALLS_SHLIB=	yes
 
 post-patch:
-	@${REINPLACE_CMD} -e 's|-O3|@CXXFLAGS@|g' ${WRKSRC}/src/Makefile.in
+	@${REINPLACE_CMD} -e 's|-O2|@CXXFLAGS@|g' ${WRKSRC}/src/Makefile.in
 
 post-install:
 .if !defined(NOPORTDOCS)
diff -urN /usr/ports/biology/libgenome/distinfo biology/libgenome/distinfo
--- /usr/ports/biology/libgenome/distinfo	Tue Jul 30 19:57:06 2002
+++ biology/libgenome/distinfo	Tue Feb  4 23:42:44 2003
@@ -1 +1 @@
-MD5 (libGenome-0.5.0.tar.gz) = dc4351115328a4d10fb52850ee6675d1
+MD5 (libGenome-0.5.1.tar.gz) = da0b97fab9a374d8674a1de06a4a911c
diff -urN /usr/ports/biology/libgenome/files/patch-include::gn::gnCompare.h biology/libgenome/files/patch-include::gn::gnCompare.h
--- /usr/ports/biology/libgenome/files/patch-include::gn::gnCompare.h	Sun Dec 22 21:51:20 2002
+++ biology/libgenome/files/patch-include::gn::gnCompare.h	Thu Jan  1 09:00:00 1970
@@ -1,10 +0,0 @@
---- include/gn/gnCompare.h.orig	Tue Nov 20 09:23:47 2001
-+++ include/gn/gnCompare.h	Sun Dec 22 09:45:37 2002
-@@ -15,6 +15,7 @@
- 
- #include "gn/gnDefs.h"
- 
-+#include <cctype>
- #include <string>
- #include "gn/gnClone.h"
- 
diff -urN /usr/ports/biology/libgenome/files/patch-include::gn::gnException.h biology/libgenome/files/patch-include::gn::gnException.h
--- /usr/ports/biology/libgenome/files/patch-include::gn::gnException.h	Sun Dec 22 21:51:20 2002
+++ biology/libgenome/files/patch-include::gn::gnException.h	Thu Jan  1 09:00:00 1970
@@ -1,10 +0,0 @@
---- include/gn/gnException.h.orig	Sat Dec  1 05:57:29 2001
-+++ include/gn/gnException.h	Sun Dec 22 12:44:39 2002
-@@ -4,6 +4,7 @@
- #include "gnClone.h"
- #include "gn/gnExceptionCode.h"
- #include <string>
-+#include <iostream>
- #include <list>
- 
- class GNDLLEXPORT gnException
diff -urN /usr/ports/biology/libgenome/files/patch-include::gn::gnFastTranslator.h biology/libgenome/files/patch-include::gn::gnFastTranslator.h
--- /usr/ports/biology/libgenome/files/patch-include::gn::gnFastTranslator.h	Sun Dec 29 13:44:13 2002
+++ biology/libgenome/files/patch-include::gn::gnFastTranslator.h	Thu Jan  1 09:00:00 1970
@@ -1,10 +0,0 @@
---- include/gn/gnFastTranslator.h.orig	Tue Mar 19 08:52:51 2002
-+++ include/gn/gnFastTranslator.h	Fri Dec 27 21:15:56 2002
-@@ -17,6 +17,7 @@
- #include "gn/gnDefs.h"
- 
- #include <string>
-+#include <iostream>
- #include <vector>
- #include <map>
- #include "gn/gnClone.h"
diff -urN /usr/ports/biology/libgenome/files/patch-include::gn::gnFileContig.h biology/libgenome/files/patch-include::gn::gnFileContig.h
--- /usr/ports/biology/libgenome/files/patch-include::gn::gnFileContig.h	Sun Dec 22 21:51:20 2002
+++ biology/libgenome/files/patch-include::gn::gnFileContig.h	Thu Jan  1 09:00:00 1970
@@ -1,11 +0,0 @@
---- include/gn/gnFileContig.h.orig	Wed Jul 18 01:52:09 2001
-+++ include/gn/gnFileContig.h	Sun Dec 22 12:51:21 2002
-@@ -17,7 +17,7 @@
- 
- #include <string>
- #include "gn/gnClone.h"
--#ifdef __GNUG__
-+#if (defined(__GNUC__) && (__GNUC__) < 3)
- #include "pair.h"
- #endif
- 
diff -urN /usr/ports/biology/libgenome/files/patch-include::gn::gnSourceHeader.h biology/libgenome/files/patch-include::gn::gnSourceHeader.h
--- /usr/ports/biology/libgenome/files/patch-include::gn::gnSourceHeader.h	Sun Dec 22 21:51:20 2002
+++ biology/libgenome/files/patch-include::gn::gnSourceHeader.h	Thu Jan  1 09:00:00 1970
@@ -1,11 +0,0 @@
---- include/gn/gnSourceHeader.h.orig	Tue Oct 16 02:59:53 2001
-+++ include/gn/gnSourceHeader.h	Sun Dec 22 12:50:29 2002
-@@ -19,7 +19,7 @@
- #include "gn/gnBaseHeader.h"
- #include "gn/gnBaseSource.h"
- 
--#ifdef __GNUG__
-+#if (defined(__GNUC__) && (__GNUC__) < 3)
- #include "pair.h"
- #endif
- 
diff -urN /usr/ports/biology/libgenome/files/patch-include::gn::gnSourceQualifier.h biology/libgenome/files/patch-include::gn::gnSourceQualifier.h
--- /usr/ports/biology/libgenome/files/patch-include::gn::gnSourceQualifier.h	Sun Dec 22 21:51:20 2002
+++ biology/libgenome/files/patch-include::gn::gnSourceQualifier.h	Thu Jan  1 09:00:00 1970
@@ -1,11 +0,0 @@
---- include/gn/gnSourceQualifier.h.orig	Tue Oct 16 02:59:53 2001
-+++ include/gn/gnSourceQualifier.h	Sun Dec 22 12:48:20 2002
-@@ -19,7 +19,7 @@
- #include "gn/gnBaseQualifier.h"
- #include "gn/gnBaseSource.h"
- 
--#ifdef __GNUG__
-+#if (defined(__GNUC__) && (__GNUC__) < 3)
- #include "pair.h"
- #endif
- 
>Release-Note:
>Audit-Trail:
State-Changed-From-To: open->closed 
State-Changed-By: naddy 
State-Changed-When: Tue Feb 11 10:13:55 PST 2003 
State-Changed-Why:  
Committed, thanks. 

http://www.freebsd.org/cgi/query-pr.cgi?pr=48047 
>Unformatted:
