Update to version 0.5.1.

PR:		48047
Submitted by:	Ports Fury

8 files changed, 4 insertions, 68 deletions

diff --git a/biology/libgenome/Makefile b/biology/libgenome/Makefile
index 833f646d2de2..2695838321e7 100644
--- a/biology/libgenome/Makefile
+++ b/biology/libgenome/Makefile
@@ -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 @@ MAINTAINER=	ports@FreeBSD.org
 
 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 --git a/biology/libgenome/distinfo b/biology/libgenome/distinfo
index b5a1be9e6724..ceec061cd6b0 100644
--- a/biology/libgenome/distinfo
+++ b/biology/libgenome/distinfo
@@ -1 +1 @@
-MD5 (libGenome-0.5.0.tar.gz) = dc4351115328a4d10fb52850ee6675d1
+MD5 (libGenome-0.5.1.tar.gz) = da0b97fab9a374d8674a1de06a4a911c
diff --git a/biology/libgenome/files/patch-include::gn::gnCompare.h b/biology/libgenome/files/patch-include::gn::gnCompare.h
deleted file mode 100644
index e33025bdb37d..000000000000
--- a/biology/libgenome/files/patch-include::gn::gnCompare.h
+++ /dev/null
@@ -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 --git a/biology/libgenome/files/patch-include::gn::gnException.h b/biology/libgenome/files/patch-include::gn::gnException.h
deleted file mode 100644
index 5abab05ab50f..000000000000
--- a/biology/libgenome/files/patch-include::gn::gnException.h
+++ /dev/null
@@ -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 --git a/biology/libgenome/files/patch-include::gn::gnFastTranslator.h b/biology/libgenome/files/patch-include::gn::gnFastTranslator.h
deleted file mode 100644
index 3b16c3b8cf94..000000000000
--- a/biology/libgenome/files/patch-include::gn::gnFastTranslator.h
+++ /dev/null
@@ -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 --git a/biology/libgenome/files/patch-include::gn::gnFileContig.h b/biology/libgenome/files/patch-include::gn::gnFileContig.h
deleted file mode 100644
index 77d8d7550bef..000000000000
--- a/biology/libgenome/files/patch-include::gn::gnFileContig.h
+++ /dev/null
@@ -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 --git a/biology/libgenome/files/patch-include::gn::gnSourceHeader.h b/biology/libgenome/files/patch-include::gn::gnSourceHeader.h
deleted file mode 100644
index 7d44dd8d3cba..000000000000
--- a/biology/libgenome/files/patch-include::gn::gnSourceHeader.h
+++ /dev/null
@@ -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 --git a/biology/libgenome/files/patch-include::gn::gnSourceQualifier.h b/biology/libgenome/files/patch-include::gn::gnSourceQualifier.h
deleted file mode 100644
index 57b6706d0648..000000000000
--- a/biology/libgenome/files/patch-include::gn::gnSourceQualifier.h
+++ /dev/null
@@ -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
-