- This is a fairly extensive rework of this port.

- "EMBASSY" applications are third party tools which have been adapted to
  function as part of EMBOSS, but which are not included with the base EMBOSS
  distribution for licensing or other reasons.  This new version of the
  EMBOSS port now contains the three current EMBASSY applications as well,
  and during installation the user is presented with a dialog(1) menu to
  choose which of these should be isntalled.

PR:		22818
Submitted by:	Johann Visagie <johann@egenetics.com> MAINTAINER

1 files changed, 74 insertions, 2 deletions

diff --git a/biology/emboss/Makefile b/biology/emboss/Makefile
index 651c403ee3eb..5ffa3f400065 100644
--- a/biology/emboss/Makefile
+++ b/biology/emboss/Makefile
@@ -7,10 +7,13 @@
 
 PORTNAME=	emboss
 PORTVERSION=	1.7.0
+PORTREVISION=	1
 CATEGORIES=	biology
 MASTER_SITES=	ftp://ftp.uk.embnet.org/pub/EMBOSS/ \
 		ftp://ftp.no.embnet.org/pub/EMBOSS/
-DISTNAME=	EMBOSS-${PORTVERSION}
+DISTFILES=	${PORTNAME:U}-${PORTVERSION}${EXTRACT_SUFX}
+DIST_SUBDIR=	${PORTNAME}
+EXTRACT_ONLY=	${PORTNAME:U}-${PORTVERSION}${EXTRACT_SUFX}
 
 MAINTAINER=	johann@egenetics.com
 
@@ -20,12 +23,51 @@ LIB_DEPENDS=	gd.1:${PORTSDIR}/graphics/gd \
 USE_GMAKE=	yes
 USE_LIBTOOL=	yes
 USE_XLIB=	yes
+PLIST=		${WRKDIR}/pkg-plist
 
-CONFIGURE_ENV=	CPPFLAGS="-I${LOCALBASE}/include/gd" \
+.if exists(${WRKDIRPREFIX}${.CURDIR}/Makefile.inc)
+.include "${WRKDIRPREFIX}${.CURDIR}/Makefile.inc"
+.endif
+
+CONFIGURE_ENV+=	CPPFLAGS="-I${LOCALBASE}/include/gd" \
 		LIBS="-L${LOCALBASE}/lib"
 
+SCRIPTS_ENV+=	WRKDIRPREFIX="${WRKDIRPREFIX}" \
+		MKDIR="${MKDIR}" \
+		RM="${RM}"
+
+WRKSRC=		${WRKDIR}/${PORTNAME:U}-${PORTVERSION}
+EMBASSY_WRKDIR=	${WRKSRC}/EMBASSY
+PHYLIP_VERSION=	3.573c
+MSE_VERSION=	0.0.4
+TOPO_VERSION=	0.1
+.for app in MSE PHYLIP TOPO
+SCRIPTS_ENV+=	${app}_VERSION="${${app}_VERSION}"
+.if defined(WITH_${app})
+APPLIST+=	${app}
+PLISTS+=	${PKGDIR}/pkg-plist.${app}
+${app}_WRKSRC=	${EMBASSY_WRKDIR}/${app}-${${app}_VERSION}
+${app}_DISTFILE=${app}-${${app}_VERSION}${EXTRACT_SUFX}
+DISTFILES+=	${${app}_DISTFILE}
+.endif
+.endfor
+PLISTS+=	${PKGDIR}/pkg-plist
 DOC_DIRS=	doc/manuals doc/tutorials doc/programs/text doc/programs/html
 
+pre-fetch:
+	@ ${SETENV} ${SCRIPTS_ENV} ${SH} ${SCRIPTDIR}/configure.${PORTNAME}
+
+post-extract:
+.for app in ${APPLIST}
+	@ ${MKDIR} ${EMBASSY_WRKDIR}
+	@ cd ${EMBASSY_WRKDIR} && ${EXTRACT_CMD} ${EXTRACT_BEFORE_ARGS} \
+	  ${_DISTDIR}/${${app}_DISTFILE} ${EXTRACT_AFTER_ARGS}
+	@ if [ `id -u` = 0 ]; then \
+	    ${CHMOD} -R ug-s ${${app}_WRKSRC}; \
+	    ${CHOWN} -R 0:0 ${${app}_WRKSRC}; \
+	  fi
+.endfor
+
 post-patch:
 .for DIR in ${DOC_DIRS}
 	@ ${PERL} -pi.orig -e \
@@ -33,11 +75,41 @@ post-patch:
 	  ${WRKSRC}/${DIR}/Makefile.in
 .endfor
 
+post-configure:
+.for app in ${APPLIST}
+	@ (cd ${${app}_WRKSRC} && \
+	  ${SETENV} CC="${CC}" CXX="${CXX}" CFLAGS="${CFLAGS}" \
+	  CXXFLAGS="${CXXFLAGS}" \
+	  INSTALL="/usr/bin/install -c -o ${BINOWN} -g ${BINGRP}" \
+	  INSTALL_DATA="${INSTALL_DATA}" \
+	  INSTALL_PROGRAM="${INSTALL_PROGRAM}" \
+	  INSTALL_SCRIPT="${INSTALL_SCRIPT}" \
+	  ${CONFIGURE_ENV} ./${CONFIGURE_SCRIPT} ${CONFIGURE_ARGS})
+.endfor
+
+post-build:
+.for app in ${APPLIST}
+	@ (cd ${${app}_WRKSRC} && \
+	  ${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
+	  ${MAKE_ARGS})
+.endfor
+
+pre-install:
+	@ ${CAT} ${PLISTS} > ${PLIST}
+
 post-install:
+.for app in ${APPLIST}
+	@ (cd ${${app}_WRKSRC} && \
+	  ${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
+	  ${MAKE_ARGS} ${INSTALL_TARGET})
+.endfor
 	@ ${INSTALL_DATA} ${WRKSRC}/emboss/acd/emboss.default \
 	  ${PREFIX}/etc/emboss.default.sample
 .if !defined(BATCH)
 	@ ${CAT} ${PKGMESSAGE}
 .endif
 
+post-clean:
+	@ ${RM} -f ${WRKDIRPREFIX}${.CURDIR}/Makefile.inc
+
 .include <bsd.port.mk>