Index: head/science/afni/Makefile
===================================================================
--- head/science/afni/Makefile	(revision 440089)
+++ head/science/afni/Makefile	(revision 440090)
@@ -1,161 +1,162 @@
 # Created by: Jason W. Bacon <bacon4000@gmail.com>
 # $FreeBSD$
 
 ############################################################################
 # http://www.neuro.mcw.edu/Ports has the latest source distribution from
 #  which this port is built.  It will be updated as time permits.
 #
 # afni.nimh.nih.gov is the ultimate source for AFNI, and will always
 # contain the latest source release.  If this port is not up to date,
 # you can download the latest sources and build manually.
 
 PORTNAME=	afni
 PORTVERSION=	2015.11.13
-PORTREVISION=	2
+PORTREVISION=	3
 CATEGORIES=	science biology graphics
 MASTER_SITES=	http://www.acadix.biz/Ports/distfiles/
 
 MAINTAINER=	bacon4000@gmail.com
 COMMENT=	Advanced Functional Neuro Imaging
 
 LICENSE=	GPLv2
 
 BUILD_DEPENDS=	gm4:devel/m4 \
 		R:math/R
 LIB_DEPENDS=	libexpat.so:textproc/expat2 \
 		libf2c.so:lang/f2c \
 		libgsl.so:math/gsl \
 		libnetcdff.so:science/netcdf-fortran \
 		libxml2.so:textproc/libxml2 \
 		libXm.so:x11-toolkits/open-motif
 RUN_DEPENDS=	endian:sysutils/endian \
 		mpeg_encode:multimedia/mpeg_encode \
 		ppmtogif:graphics/netpbm \
 		qhull:math/qhull5 \
 		R:math/R
 
 CONFLICTS=	im-[0-9]* \
 		nifticlib-[0-9]* \
 		open-usp-tukubai-[0-9]*
 
 USES=		gettext gmake iconv jpeg:run motif perl5 python shebangfix tar:xz
 SHEBANG_FILES=	suma_change_spec \
 		3dPAR2AFNI.pl \
-		python_scripts/afni_restproc.py \
-		python_scripts/lib_fat_Rfactor.py \
-		pkundu/meica.libs/siemens_me2nii.py
+		python_scripts/*.py \
+		pkundu/meica.py \
+		pkundu/meica.libs/*.py \
+		pkundu/meica.libs/mdp/test/run_tests.py
 USE_GNOME=	glib20
 
 .include <bsd.port.options.mk>
 
 BROKEN_sparc64=	Does not compile: "undefined reference to '_mcount'"
 
 USE_GL=		gl glu glw
 USE_XORG=	x11 xext xi xmu xp xt
 MAKE_ENV=	CC="${CC}" R_SHARE_DIR=${LOCALBASE}/lib/R/share
 MAKE_JOBS_UNSAFE=yes
 
 ALL_TARGET=	vastness suma
 
 ###########################################################################
 # Install parameters
 
 SUB_FILES=	pkg-message afni.cshrc afni.profile
 
 INSTALL_WRKSRC=	${WRKSRC}/BSD
 PRESTAGE=	${WRKSRC}/prestage
 
 X11R6_FILES=	coxplot/Makefile \
 		coxplot/Makefile.f2c \
 		3DEdge/src/Makefile \
 		SUMA/SUMA_Makefile \
 		edt_blur.c \
 		suma_datasets.c \
 		SUMA/SUMA_Load_Surface_Object.c \
 		SUMA/SUMA_MiscFunc.c \
 		SUMA/SUMA_ParseCommands.c \
 		SUMA/GLUT/libglut/glut_event.c \
 		SUMA/SUMA_Surface_IO.c
 
 post-extract:
 .for f in ${X11R6_FILES}
 	@${REINPLACE_CMD} \
 		-e 's|/usr/X11R6|$${LOCALBASE}|g' ${WRKSRC}/${f}
 .endfor
 	@${REINPLACE_CMD} \
 		-E 's|AFNI_[0-9_]+|${PORTVERSION}|g' ${WRKSRC}/AFNI_label.h
 	@${REINPLACE_CMD} \
 		-e "s|%%PREFIX%%|${PREFIX}|g" ${WRKSRC}/afni.1
 	@${CP} ${FILESDIR}/Makefile ${WRKSRC}
 	@${RM} ${WRKSRC}/3DEdge/src/Makefile.orig
 
 # shebangfix misses /bin/python on 10.1
 post-patch:
 	${REINPLACE_CMD} -e "s|-lglib|-lglib-2.0|g" \
 		${WRKSRC}/SUMA/SUMA_Makefile
 	${REINPLACE_CMD} -e "s|/bin/python|${PYTHON_CMD}|g" \
 		${WRKSRC}/python_scripts/lib_fat_Rfactor.py
 	${REINPLACE_CMD} \
 		-e 's|os\.path\.dirname(sys\.argv\[0\])|"${PREFIX}/libexec"|g' \
 		${WRKSRC}/pkundu/meica.py
 	${REINPLACE_CMD} \
 		-e 's|g_info|afni_g_info|g' \
 		${WRKSRC}/rickr/Dimon.c \
 		${WRKSRC}/rickr/Dimon1.c \
 		${WRKSRC}/afni_history_rickr.c \
 		${WRKSRC}/mri_dicom_stuff.c \
 		${WRKSRC}/mri_process_siemens.c \
 		${WRKSRC}/mri_read_dicom.c \
 		${WRKSRC}/to3d.c \
 		${WRKSRC}/mri_dicom_stuff.h
 
 post-build:
 	${MKDIR} ${PRESTAGE}/bin \
 		${PRESTAGE}/scripts \
 		${PRESTAGE}/lib \
 		${PRESTAGE}/include \
 		${PRESTAGE}/trash \
 		${PRESTAGE}/doc \
 		${PRESTAGE}/share
 	${MV}	${INSTALL_WRKSRC}/libf2c.a \
 		${PRESTAGE}/trash
 	${MV}	${INSTALL_WRKSRC}/*.a \
 		${INSTALL_WRKSRC}/*.so \
 		${PRESTAGE}/lib
 	${MV}	${INSTALL_WRKSRC}/funstuff \
 		${INSTALL_WRKSRC}/AFNI.*rc \
 		${INSTALL_WRKSRC}/afnigui* \
 		${PRESTAGE}/share
 	${MV}	${INSTALL_WRKSRC}/*.h \
 		${PRESTAGE}/include
 	${MV}	${INSTALL_WRKSRC}/README* \
 		${PRESTAGE}/doc
 	for binary in `${FILE} ${INSTALL_WRKSRC}/* | fgrep 'ELF' | ${AWK} -F ':' ' { print $$1 }'` ; do \
 		${MV} $${binary} ${PRESTAGE}/bin ; \
 	done
 	${MV}	${INSTALL_WRKSRC}/* \
 		${PRESTAGE}/scripts
 	${MV}	${PRESTAGE}/scripts/meica.libs ${PRESTAGE}
 
 do-install:
 	${MKDIR} ${STAGEDIR}${DATADIR} \
 		${STAGEDIR}${PREFIX}/lib/afni \
 		${STAGEDIR}${PREFIX}/include/afni
 	for f in ${PRESTAGE}/lib/*; do \
 		${STRIP_CMD} $${f}; \
 	done
 	${INSTALL_DATA} ${PRESTAGE}/lib/* ${STAGEDIR}${PREFIX}/lib/afni
 	${INSTALL_DATA} ${PRESTAGE}/include/* ${STAGEDIR}${PREFIX}/include/afni
 	cd ${PRESTAGE}/share && ${COPYTREE_SHARE} . ${STAGEDIR}${DATADIR}
 	${INSTALL_PROGRAM} ${PRESTAGE}/bin/* ${STAGEDIR}${PREFIX}/bin
 	${INSTALL_SCRIPT} ${PRESTAGE}/scripts/* ${STAGEDIR}${PREFIX}/bin
 	cd ${PRESTAGE} && ${COPYTREE_BIN} meica.libs \
 		${STAGEDIR}${PREFIX}/libexec
 	${INSTALL_DATA} ${WRKSRC}/Atlases/* ${STAGEDIR}${DATADIR}
 	${INSTALL_MAN} ${WRKSRC}/afni.1 ${STAGEDIR}${MAN1PREFIX}/man/man1
 	${MKDIR} ${STAGEDIR}${DOCSDIR} ${STAGEDIR}${PREFIX}/etc/mri
 	${INSTALL_DATA} ${PRESTAGE}/doc/* ${STAGEDIR}${DOCSDIR}
 	${INSTALL_SCRIPT} ${WRKDIR}/afni.cshrc ${WRKDIR}/afni.profile \
 		${STAGEDIR}${PREFIX}/etc/mri
 
 .include <bsd.port.mk>