- update to 1.4.1

Reviewed by:	exp8 run on pointyhat
Supported by:	miwi

18 files changed, 22 insertions, 20 deletions

diff --git a/biology/L-Breeder/Makefile b/biology/L-Breeder/Makefile
index 7261c343133e..48d8532a0393 100644
--- a/biology/L-Breeder/Makefile
+++ b/biology/L-Breeder/Makefile
@@ -8,7 +8,7 @@
 
 PORTNAME=	LBreeder
 PORTVERSION=	1.0
-PORTREVISION=	14
+PORTREVISION=	15
 CATEGORIES=	biology
 MASTER_SITES=	http://www.simonyi.ox.ac.uk/dawkins/software/yan/L-Breeder/
 DISTNAME=	${PORTNAME}-source
diff --git a/biology/boinc-simap/Makefile b/biology/boinc-simap/Makefile
index eeba9956a15f..754ffa52e00e 100644
--- a/biology/boinc-simap/Makefile
+++ b/biology/boinc-simap/Makefile
@@ -6,7 +6,7 @@
 
 PORTNAME=	boinc-simap
 PORTVERSION=	${SIMAP_VERSION}.${HMMER_VERSION}
-PORTREVISION=	3
+PORTREVISION=	4
 CATEGORIES=	biology
 MASTER_SITES=	http://boinc.bio.wzw.tum.de/boincsimap/download/
 DISTNAME=	${SIMAP_BINARY} ${HMMER_BINARY}
diff --git a/biology/embassy/Makefile b/biology/embassy/Makefile
index 3e97544c852c..fc3d4588c53d 100644
--- a/biology/embassy/Makefile
+++ b/biology/embassy/Makefile
@@ -8,7 +8,7 @@
 
 PORTNAME=	embassy
 PORTVERSION=	6.0.0
-PORTREVISION=	2
+PORTREVISION=	3
 CATEGORIES=	biology
 MASTER_SITES=	ftp://emboss.open-bio.org/pub/EMBOSS/old/${PORTVERSION}/
 DIST_SUBDIR=	emboss
diff --git a/biology/emboss/Makefile b/biology/emboss/Makefile
index 8ae70b6afba9..b7e0b08af0e7 100644
--- a/biology/emboss/Makefile
+++ b/biology/emboss/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	emboss
 PORTVERSION=	6.0.1
-PORTREVISION=	2
+PORTREVISION=	3
 RELEASE=	${PORTNAME:U}-${PORTVERSION}
 CATEGORIES=	biology
 MASTER_SITES=	ftp://emboss.open-bio.org/pub/EMBOSS/old/${PORTVERSION}/
@@ -20,7 +20,7 @@ COMMENT=	A collection of open source tools for genetic sequence analysis
 BUILD_DEPENDS=	clustalw:${PORTSDIR}/biology/clustalw \
 		primer3:${PORTSDIR}/biology/primer3
 LIB_DEPENDS=	gd.4:${PORTSDIR}/graphics/gd \
-		png.5:${PORTSDIR}/graphics/png
+		png.6:${PORTSDIR}/graphics/png
 
 CONFLICTS=	qmail-ldap-[0-9]* digest-[0-9]*
 
@@ -44,7 +44,7 @@ CONFIGURE_ARGS+= --with-docroot=${DOCSDIR}
 USE_XORG=	x11
 USE_MOTIF=	yes
 LIB_DEPENDS+=	gd.4:${PORTSDIR}/graphics/gd \
-		png.5:${PORTSDIR}/graphics/png
+		png.6:${PORTSDIR}/graphics/png
 .else
 CONFIGURE_ARGS+= --without-x
 .endif
diff --git a/biology/genpak/Makefile b/biology/genpak/Makefile
index ab9d1769de72..52af42a6097b 100644
--- a/biology/genpak/Makefile
+++ b/biology/genpak/Makefile
@@ -8,7 +8,7 @@
 
 PORTNAME=	genpak
 PORTVERSION=	0.26
-PORTREVISION=	6
+PORTREVISION=	7
 CATEGORIES=	biology
 MASTER_SITES=	http://www.bioinformatics.org/genpak/download/
 DISTNAME=	gp-${PORTVERSION}
diff --git a/biology/gperiodic/Makefile b/biology/gperiodic/Makefile
index 32a65b2ef772..5307ba9555e0 100644
--- a/biology/gperiodic/Makefile
+++ b/biology/gperiodic/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	gperiodic
 PORTVERSION=	2.0.10
-PORTREVISION=	4
+PORTREVISION=	5
 CATEGORIES=	biology
 MASTER_SITES=	http://www.frantz.fi/software/
 
diff --git a/biology/lsysexp/Makefile b/biology/lsysexp/Makefile
index e04596afd5fe..5d85f8a85aa4 100644
--- a/biology/lsysexp/Makefile
+++ b/biology/lsysexp/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	lsysexp
 PORTVERSION=	0.67
-PORTREVISION=	10
+PORTREVISION=	11
 CATEGORIES=	biology
 MASTER_SITES=	http://coscorrosa.com/programs/${PORTNAME}/download/ \
 		http://freebsd.unixfreunde.de/sources/
diff --git a/biology/p5-Bio-Das/Makefile b/biology/p5-Bio-Das/Makefile
index 665af0ce2df0..2f76a8edd509 100644
--- a/biology/p5-Bio-Das/Makefile
+++ b/biology/p5-Bio-Das/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	Bio-Das
 PORTVERSION=	1.14
-PORTREVISION=	1
+PORTREVISION=	2
 CATEGORIES=	biology perl5
 MASTER_SITES=	CPAN
 PKGNAMEPREFIX=	p5-
diff --git a/biology/p5-Bio-Graphics/Makefile b/biology/p5-Bio-Graphics/Makefile
index e5367f0d53b7..b5665e5769fe 100644
--- a/biology/p5-Bio-Graphics/Makefile
+++ b/biology/p5-Bio-Graphics/Makefile
@@ -7,6 +7,7 @@
 
 PORTNAME=	Bio-Graphics
 PORTVERSION=	2.01
+PORTREVISION=	1
 CATEGORIES=	biology perl5
 MASTER_SITES=	CPAN
 PKGNAMEPREFIX=	p5-
diff --git a/biology/p5-Bio-Phylo/Makefile b/biology/p5-Bio-Phylo/Makefile
index 343ca431689a..41a1679a8a96 100644
--- a/biology/p5-Bio-Phylo/Makefile
+++ b/biology/p5-Bio-Phylo/Makefile
@@ -7,6 +7,7 @@
 
 PORTNAME=	Bio-Phylo
 PORTVERSION=	0.21
+PORTREVISION=	1
 CATEGORIES=	biology perl5
 MASTER_SITES=	CPAN
 PKGNAMEPREFIX=	p5-
diff --git a/biology/p5-bioperl-run/Makefile b/biology/p5-bioperl-run/Makefile
index 918abe899628..394ff80508e6 100644
--- a/biology/p5-bioperl-run/Makefile
+++ b/biology/p5-bioperl-run/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	bioperl-run
 PORTVERSION=	1.6.1
-PORTREVISION=	2
+PORTREVISION=	3
 CATEGORIES=	biology perl5
 MASTER_SITES=	http://bioperl.org/DIST/ \
 		CPAN
diff --git a/biology/p5-bioperl/Makefile b/biology/p5-bioperl/Makefile
index b4599d35cbff..d6a14b91b051 100644
--- a/biology/p5-bioperl/Makefile
+++ b/biology/p5-bioperl/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	bioperl
 PORTVERSION=	1.6.1
-PORTREVISION=	2
+PORTREVISION=	3
 CATEGORIES=	biology perl5
 MASTER_SITES=	http://bioperl.org/DIST/ \
 		CPAN
diff --git a/biology/povchem/Makefile b/biology/povchem/Makefile
index 3861e28bb5c4..acadc879a8d1 100644
--- a/biology/povchem/Makefile
+++ b/biology/povchem/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	povchem
 PORTVERSION=	1.0
-PORTREVISION=	4
+PORTREVISION=	5
 CATEGORIES=	biology graphics
 MASTER_SITES=	http://www.chemicalgraphics.com/paul/PC_Dist/v1.00/
 DISTFILES=	povchem.c \
diff --git a/biology/protomol/Makefile b/biology/protomol/Makefile
index 409a7ce5bf4e..102dd98a43e8 100644
--- a/biology/protomol/Makefile
+++ b/biology/protomol/Makefile
@@ -6,7 +6,7 @@
 
 PORTNAME=	protomol
 PORTVERSION=	2.0.3
-PORTREVISION=	5
+PORTREVISION=	6
 CATEGORIES=	biology
 MASTER_SITES=	SF/${PORTNAME}/ProtoMol/${PORTVERSION}
 DISTNAME=	${PORTNAME}-${PORTVERSION}-tar.gz
@@ -15,7 +15,7 @@ EXTRACT_SUFX=	# nada
 MAINTAINER=	sangwoos@gmail.com
 COMMENT=	OO, component based, framework for molecular dynamics (MD) simulations
 
-LIB_DEPENDS=	png.5:${PORTSDIR}/graphics/png \
+LIB_DEPENDS=	png.6:${PORTSDIR}/graphics/png \
 		jpeg.11:${PORTSDIR}/graphics/jpeg \
 		tiff.4:${PORTSDIR}/graphics/tiff
 
diff --git a/biology/pymol/Makefile b/biology/pymol/Makefile
index 8d0b0fa086bb..c15d04dbfa3b 100644
--- a/biology/pymol/Makefile
+++ b/biology/pymol/Makefile
@@ -6,7 +6,7 @@
 
 PORTNAME=	pymol
 PORTVERSION=	1.0r2
-PORTREVISION=	4
+PORTREVISION=	5
 CATEGORIES=	biology python
 MASTER_SITES=	${MASTER_SITE_LOCAL:S|%SUBDIR%|maho/pymol|}
 
@@ -16,7 +16,7 @@ COMMENT=	Free and Open-Source molecular modeling system
 BUILD_DEPENDS=	${PYNUMERIC}
 RUN_DEPENDS=	${PYNUMERIC} \
 		${PYTHON_SITELIBDIR}/Pmw:${PORTSDIR}/x11-toolkits/py-Pmw
-LIB_DEPENDS=	png.5:${PORTSDIR}/graphics/png \
+LIB_DEPENDS=	png.6:${PORTSDIR}/graphics/png \
 		freetype.9:${PORTSDIR}/print/freetype2
 
 WRKSRC=		${WRKDIR}/pymol-${PORTVERSION}
diff --git a/biology/seaview/Makefile b/biology/seaview/Makefile
index f5abbf2b6c8b..335f3e9aca8e 100644
--- a/biology/seaview/Makefile
+++ b/biology/seaview/Makefile
@@ -8,7 +8,7 @@
 
 PORTNAME=	seaview
 PORTVERSION=	2006.02.13
-PORTREVISION=	6
+PORTREVISION=	7
 CATEGORIES=	biology
 MASTER_SITES=	ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview/archive/
 DISTNAME=	${PORTNAME}${PORTVERSION:S/.//g}
diff --git a/biology/treeviewx/Makefile b/biology/treeviewx/Makefile
index 13ca30f34de0..619f9f46d3ab 100644
--- a/biology/treeviewx/Makefile
+++ b/biology/treeviewx/Makefile
@@ -8,7 +8,7 @@
 
 PORTNAME=	treeviewx
 PORTVERSION=	0.5.1
-PORTREVISION=	5
+PORTREVISION=	6
 CATEGORIES=	biology
 MASTER_SITES=	http://darwin.zoology.gla.ac.uk/~rpage/treeviewx/download/${PORTVERSION:S/.1//}/
 DISTNAME=	tv-${PORTVERSION}
diff --git a/biology/xdrawchem/Makefile b/biology/xdrawchem/Makefile
index 6c182e317fca..e95f483367cb 100644
--- a/biology/xdrawchem/Makefile
+++ b/biology/xdrawchem/Makefile
@@ -7,7 +7,7 @@
 
 PORTNAME=	xdrawchem
 PORTVERSION=	1.9.9
-PORTREVISION=	8
+PORTREVISION=	9
 CATEGORIES=	biology
 MASTER_SITES=	SF