Index: head/biology/wise/Makefile
===================================================================
--- head/biology/wise/Makefile	(revision 417194)
+++ head/biology/wise/Makefile	(revision 417195)
@@ -1,68 +1,72 @@
 # Created by: Tony Maher <tonym@biolateral.com.au>
 # $FreeBSD$
 
 PORTNAME=	wise
 PORTVERSION=	2.4.1
 CATEGORIES=	biology
 MASTER_SITES=	http://www.ebi.ac.uk/~birney/wise2/
 DISTNAME=	${PORTNAME}${PORTVERSION}
 
 MAINTAINER=	ports@FreeBSD.org
 COMMENT=	Intelligent algorithms for DNA searches
 
-OPTIONS_DEFINE=	DOCS EXAMPLES
-
 BUILD_WRKSRC=	${WRKSRC}/src
 
 USES=		pkgconfig
 USE_GNOME=	glib20
 MAKEFILE=	makefile
 
 SUB_FILES=	pkg-message
 
-PORTDOCS=	*
-PORTEXAMPLES=	*
-PLIST_FILES=	${BINFILES:S,^,bin/,} ${DATAFILES:S,^,%%DATADIR%%/,}
-
 #
 # Actually want an 'ALL_TARGET = all perl' which then requires
 # 'USE_PERL5= yes' but the perl sub-build is currently broken.
 # The perl stuff is only so you can use the base libraries/functions
 # from perl scripts.  This is extra, independent functionality for the
 # port and not required for the base system which are C applications.
 # When the perl part is fixed, it will require an install line
 # something like '@cd ${WRKSRC}/perl/Wise2; ${MAKE} install'
 #
 
 BINFILES=	dba dnal estwise estwisedb genewise genewisedb promoterwise \
 		psw pswdb scanwise scanwise_server
 DATAFILES=	BLOSUM30.bla BLOSUM45.bla BLOSUM62.bla BLOSUM80.bla aa.rnd \
 		cb.tmf codon.table gene.stat gon120.bla gon160.bla \
 		gon200.bla gon250.bla gon350.bla human.gf human.gp \
 		human.stats idenity.bla methods pb.gf pombe.gf tm.pri \
 		wise.2 wise.per worm.gf
 
+PORTDOCS=	*
+PORTEXAMPLES=	*
+PLIST_FILES=	${BINFILES:S,^,bin/,} ${DATAFILES:S,^,%%DATADIR%%/,}
+
+OPTIONS_DEFINE=	DOCS EXAMPLES
+
 post-patch:
 	@${FIND} ${BUILD_WRKSRC} -name "makefile" | ${XARGS} \
 		${REINPLACE_CMD} -e \
 		's|^CC =|CC ?=| ; \
 		 s|^CFLAGS =|CFLAGS +=| ; \
 		 s|-O[0-9] | | ; \
 		 s|-g | | ; \
 		 s|-g[0-9] | | ; \
 		 s|-lpthread|-pthread| ; \
 		 s|glib-config|pkg-config glib-2.0| ; \
 		 /welcome.csh/s|^|#|'
 
 do-install:
 	(cd ${BUILD_WRKSRC}/bin && ${INSTALL_PROGRAM} ${BINFILES} \
 		${STAGEDIR}${PREFIX}/bin)
 	@${MKDIR} ${STAGEDIR}${DATADIR}
 	(cd ${WRKSRC}/wisecfg && ${INSTALL_DATA} ${DATAFILES} \
 		${STAGEDIR}${DATADIR})
+
+do-install-DOCS-on:
 	@${MKDIR} ${STAGEDIR}${DOCSDIR}
 	(cd ${WRKSRC}/docs && ${COPYTREE_SHARE} . ${STAGEDIR}${DOCSDIR})
+
+do-install-EXAMPLES-on:
 	@${MKDIR} ${STAGEDIR}${EXAMPLESDIR}
 	(cd ${WRKSRC}/test_data && ${COPYTREE_SHARE} . ${STAGEDIR}${EXAMPLESDIR})
 
 .include <bsd.port.mk>
Index: head/biology/wise/files/patch-src_models_phasemodel.c
===================================================================
--- head/biology/wise/files/patch-src_models_phasemodel.c	(revision 417194)
+++ head/biology/wise/files/patch-src_models_phasemodel.c	(revision 417195)
@@ -1,13 +1,13 @@
---- src/models/phasemodel.c.orig	2007-09-08 08:05:32.000000000 +0000
+--- src/models/phasemodel.c.orig	2007-09-08 08:05:32 UTC
 +++ src/models/phasemodel.c
 @@ -3,6 +3,10 @@ extern "C" {
  #endif
  #include "phasemodel.h"
  
 +#ifdef __DragonFly__
 +#define isnumber	isdigit
 +#endif
 +
  # line 59 "phasemodel.dy"
  ProteinIntronList * read_ProteinIntronList(FILE * ifp)
  {