diff -ruN /usr/ports/biology/embassy/Makefile embassy/Makefile
--- /usr/ports/biology/embassy/Makefile	Wed Dec 15 12:15:11 2004
+++ embassy/Makefile	Sat May 28 14:10:58 2005
@@ -1,3 +1,4 @@
+# ex:ts=8
 # New ports collection makefile for:	embassy
 # Date created:		1.November.2004
 # Whom:	      		Fernan Aguero <fernan@iib.unsamn.edu.ar>
@@ -6,7 +7,7 @@
 #
 
 PORTNAME=	embassy
-PORTVERSION=	2.9.0
+PORTVERSION=	2.10.0
 CATEGORIES=	biology
 MASTER_SITES=	ftp://ftp.uk.embnet.org/pub/EMBOSS/ \
 		ftp://ftp.es.embnet.org/pub/software/emboss/EMBOSS/ \
@@ -30,7 +31,7 @@
 		ESIM4		"Align cDNA/EST to genome" on \
 		HMMER		"HMM alignment and searches" on \
 		MEME		"Motif detection" on \
-		MSE		"Sequence editor" on \
+		MSE		"A multiple sequence screen editor" on \
 		PHYLIP		"Phylogeny inference" on \
 		TOPO		"Transmembrane display" on
 
@@ -73,6 +74,16 @@
 	    ${CHOWN} -R 0:0 ${${app}_WRKSRC}; \
 	  fi
 .endfor
+
+.if defined(WITH_DOMAINATRIX)
+pre-configure::
+	@${PATCH} ${PATCH_ARGS} < ${PATCHDIR}/domainatrix-patch-Makefile.in
+.endif
+
+.if defined(WITH_EMNU)
+pre-configure::
+	@${PATCH} ${PATCH_ARGS} < ${PATCHDIR}/emnu-patch-Makefile.in
+.endif
 
 do-configure:
 .for app in ${APPLIST}
diff -ruN /usr/ports/biology/embassy/distinfo embassy/distinfo
--- /usr/ports/biology/embassy/distinfo	Tue Nov 30 09:38:25 2004
+++ embassy/distinfo	Tue Mar 15 14:27:06 2005
@@ -1,16 +1,16 @@
-MD5 (embassy/DOMAINATRIX-1.0.0.tar.gz) = 78e1145851073a277e568ee3a691d999
-SIZE (embassy/DOMAINATRIX-1.0.0.tar.gz) = 551090
-MD5 (embassy/EMNU-1.05.tar.gz) = b091db115506ef89157b1cfb92a964b3
-SIZE (embassy/EMNU-1.05.tar.gz) = 341879
-MD5 (embassy/ESIM4-1.0.0.tar.gz) = 3fa1de555365d79bdc38490e09683632
-SIZE (embassy/ESIM4-1.0.0.tar.gz) = 377821
-MD5 (embassy/HMMER-2.1.1.tar.gz) = e7762beca88f2748cb7449e7f89ca068
-SIZE (embassy/HMMER-2.1.1.tar.gz) = 555504
-MD5 (embassy/MEME-2.3.1.tar.gz) = 014237836443382b767efb4b315c2b6d
-SIZE (embassy/MEME-2.3.1.tar.gz) = 417514
-MD5 (embassy/MSE-1.0.0.tar.gz) = f55522c9f474319f56227e6a63c91dad
-SIZE (embassy/MSE-1.0.0.tar.gz) = 407726
-MD5 (embassy/PHYLIP-3.57c.tar.gz) = bd242c3382a82d1a842e0a82778a40c2
-SIZE (embassy/PHYLIP-3.57c.tar.gz) = 856814
-MD5 (embassy/TOPO-1.0.0.tar.gz) = 18409cc3ce6a402690b14a73535ebe07
-SIZE (embassy/TOPO-1.0.0.tar.gz) = 345281
+MD5 (embassy/DOMAINATRIX-1.0.0.tar.gz) = 9deff6f5bf526408f0f02c002488ad59
+SIZE (embassy/DOMAINATRIX-1.0.0.tar.gz) = 471604
+MD5 (embassy/EMNU-1.05.tar.gz) = df29ae1e8201081f4413862d7f10edb5
+SIZE (embassy/EMNU-1.05.tar.gz) = 339355
+MD5 (embassy/ESIM4-1.0.0.tar.gz) = 3b8137b3b8ff0e84bc6e1243c7343578
+SIZE (embassy/ESIM4-1.0.0.tar.gz) = 378342
+MD5 (embassy/HMMER-2.1.1.tar.gz) = 56816b26a43c8542f7d12f9069e77843
+SIZE (embassy/HMMER-2.1.1.tar.gz) = 562855
+MD5 (embassy/MEME-2.3.1.tar.gz) = a9fb38886665f3f654da1244c2e1476f
+SIZE (embassy/MEME-2.3.1.tar.gz) = 421914
+MD5 (embassy/MSE-1.0.0.tar.gz) = b666681aceb9f07f968585f2edc4a039
+SIZE (embassy/MSE-1.0.0.tar.gz) = 411772
+MD5 (embassy/PHYLIP-3.57c.tar.gz) = 83201895898feb15dbbae6affabd3609
+SIZE (embassy/PHYLIP-3.57c.tar.gz) = 858348
+MD5 (embassy/TOPO-1.0.0.tar.gz) = 0a8fcc84fdba071b20f3046de9fdb487
+SIZE (embassy/TOPO-1.0.0.tar.gz) = 345938
diff -ruN /usr/ports/biology/embassy/files/domainatrix-patch-Makefile.in embassy/files/domainatrix-patch-Makefile.in
--- /usr/ports/biology/embassy/files/domainatrix-patch-Makefile.in	Wed Dec 31 21:00:00 1969
+++ embassy/files/domainatrix-patch-Makefile.in	Sat May 28 12:23:44 2005
@@ -0,0 +1,11 @@
+--- EMBASSY/DOMAINATRIX-1.0.0/src/Makefile.in.orig	Sat May 28 12:21:57 2005
++++ EMBASSY/DOMAINATRIX-1.0.0/src/Makefile.in	Sat May 28 12:22:14 2005
+@@ -315,7 +315,7 @@
+ @LOCALLINK_TRUE@	../../../plplot/libplplot.la \
+ @LOCALLINK_TRUE@	$(am__DEPENDENCIES_1)
+ DEFAULT_INCLUDES = -I. -I$(srcdir)
+-depcomp = $(SHELL) $(top_srcdir)/../../depcomp
++depcomp = $(SHELL) $(top_srcdir)/depcomp
+ am__depfiles_maybe = depfiles
+ COMPILE = $(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) \
+ 	$(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS)
diff -ruN /usr/ports/biology/embassy/files/emnu-patch-Makefile.in embassy/files/emnu-patch-Makefile.in
--- /usr/ports/biology/embassy/files/emnu-patch-Makefile.in	Wed Dec 31 21:00:00 1969
+++ embassy/files/emnu-patch-Makefile.in	Sat May 28 13:03:43 2005
@@ -0,0 +1,11 @@
+--- EMBASSY/EMNU-1.05/source/Makefile.in.orig	Sat May 28 12:57:17 2005
++++ EMBASSY/EMNU-1.05/source/Makefile.in	Sat May 28 13:03:33 2005
+@@ -63,7 +63,7 @@
+ @LOCALLINK_TRUE@	../../../plplot/libplplot.la \
+ @LOCALLINK_TRUE@	$(am__DEPENDENCIES_1)
+ DEFAULT_INCLUDES = -I. -I$(srcdir)
+-depcomp = $(SHELL) $(top_srcdir)/../../depcomp
++depcomp = $(SHELL) $(top_srcdir)/depcomp
+ am__depfiles_maybe = depfiles
+ COMPILE = $(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) \
+ 	$(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS)