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Message-Id: <200801242110.m0OLAtss009903@smithers.neuro.mcw.edu>
Date: Thu, 24 Jan 2008 15:10:55 -0600 (CST)
From: Jason Bacon <bacon@smithers.neuro.mcw.edu>
Reply-To: Jason Bacon <bacon@smithers.neuro.mcw.edu>
To: FreeBSD-gnats-submit@freebsd.org
Cc:
Subject: Maintainer update: science/afni
X-Send-Pr-Version: 3.113
X-GNATS-Notify:

>Number:         119961
>Category:       ports
>Synopsis:       Maintainer update: science/afni
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    tabthorpe
>State:          closed
>Quarter:        
>Keywords:       
>Date-Required:  
>Class:          maintainer-update
>Submitter-Id:   current-users
>Arrival-Date:   Fri Jan 25 02:50:00 UTC 2008
>Closed-Date:    Mon Jan 28 16:42:35 UTC 2008
>Last-Modified:  Mon Jan 28 16:50:02 UTC 2008
>Originator:     Jason Bacon
>Release:        FreeBSD 6.1-RELEASE-p17 i386
>Organization:
Medical College of Wisconsin
>Environment:
System: FreeBSD smithers.neuro.mcw.edu 6.1-RELEASE-p17 FreeBSD 6.1-RELEASE-p17 #0: Mon Jul 2 15:25:34 CDT 2007 bacon@pcbsd:/usr/obj/usr/src/sys/MCWPCBSD i386

>Description:
	This is a routine update to a more recent version.

>How-To-Repeat:
>Fix:

diff -ruN /usr/ports/science/afni/Makefile afni-latest/Makefile
--- /usr/ports/science/afni/Makefile	Sat Jun  9 23:04:38 2007
+++ afni-latest/Makefile	Thu Jan 24 14:35:00 2008
@@ -1,30 +1,28 @@
 ############################################################################
 # Ports collection Makefile for:   afni
 # Date created:        11 Jan 2005
-# Whom:                bacon@smithers.neuro.mcw.edu
+# Whom:                Jason W. Bacon <jwbacon@tds.net>
 #
-# $FreeBSD: ports/science/afni/Makefile,v 1.12 2007/06/10 04:04:38 kris Exp $
+# $FreeBSD$
 #
 
 ############################################################################
-# www.neuro.mcw.edu has the latest source distribution from which this port
-# is built.  It will be updated as time permits.
+# 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 using
-# Makefile.BSD, which is included in the source distribution.
+# you can download the latest sources and build manually.
 
 PORTNAME=	afni
-PORTVERSION=	2007.04.18.1830
-PORTREVISION=	1
+PORTVERSION=	2008.01.02.1043
 CATEGORIES=	science biology graphics
-MASTER_SITES=	http://www.neuro.mcw.edu/~bacon/Ports/distfiles/AFNI/${PORTVERSION}/ \
+MASTER_SITES=	http://www.neuro.mcw.edu/Ports/distfiles/AFNI/${PORTVERSION}/ \
 		http://afni.nimh.nih.gov/pub/dist/tgz/
-DISTFILES=	afni_src.tgz afni.1 \
-		TTatlas+tlrc.BRIK.gz TTatlas+tlrc.HEAD CA_EZ_v1.3c-May0806.tgz
+DISTFILES=	afni_src.tgz afni.1 3dClustBust.c \
+		TTatlas+tlrc.BRIK.gz TTatlas+tlrc.HEAD CA_EZ_v1.5-July3107.tgz
 DIST_SUBDIR=	AFNI-${PORTVERSION}
-EXTRACT_ONLY=	afni_src.tgz CA_EZ_v1.3c-May0806.tgz
+EXTRACT_ONLY=	afni_src.tgz CA_EZ_v1.5-July3107.tgz
 
 MAINTAINER=	bacon@smithers.neuro.mcw.edu
 COMMENT=	Advanced Functional Neuro Imaging
@@ -35,15 +33,13 @@
 		ppmtogif:${PORTSDIR}/graphics/netpbm \
 		endian:${PORTSDIR}/sysutils/endian
 
-BROKEN=		Does not compile
-
 .include <bsd.port.pre.mk>
 
 .if ${ARCH} == "sparc64"
 BROKEN=	Does not compile on sparc64: "undefined reference to '_mcount'"
 .endif
 
-USE_GL=		glw
+USE_GL=		glw glu
 USE_GETTEXT=	yes
 USE_GMAKE=	yes
 USE_ICONV=	yes
@@ -57,7 +53,7 @@
 ###########################################################################
 # Install parameters
 
-MAN1=	afni.1
+MAN1=		afni.1
 
 INSTALL_WRKSRC=	${WRKSRC}/BSD
 STAGE=		${WRKSRC}/stage
@@ -80,6 +76,10 @@
 .for f in ${X11R6_FILES}
 	@${REINPLACE_CMD} -e 's|/usr/X11R6|$${X11BASE}|g' ${WRKSRC}/${f}
 .endfor
+	@${REINPLACE_CMD} -e 's|AFNI_2007_05_29_1644|${PORTVERSION}|g' ${WRKSRC}/AFNI_label.h
+	@${CP} ${DISTDIR}/${DIST_SUBDIR}/afni.1 ${WRKDIR}
+	@${CP} ${DISTDIR}/${DIST_SUBDIR}/3dClustBust.c ${WRKSRC}
+	@${REINPLACE_CMD} "s|%%PREFIX%%|${PREFIX}|g" ${WRKDIR}/afni.1
 
 post-build:
 	${MKDIR} ${STAGE}/bin \
@@ -90,10 +90,6 @@
 		${STAGE}/doc \
 		${STAGE}/share
 	${MV}	${INSTALL_WRKSRC}/libf2c.a \
-		${INSTALL_WRKSRC}/cjpeg \
-		${INSTALL_WRKSRC}/djpeg \
-		${INSTALL_WRKSRC}/mpeg_encode \
-		${INSTALL_WRKSRC}/whirlgif \
 		${STAGE}/trash
 	${MV}	${INSTALL_WRKSRC}/*.a \
 		${INSTALL_WRKSRC}/*.so \
@@ -106,6 +102,7 @@
 		${STAGE}/include
 	${MV}	${INSTALL_WRKSRC}/README* \
 		${STAGE}/doc
+	${MV}	${INSTALL_WRKSRC}/abut ${INSTALL_WRKSRC}/afni_abut
 	for binary in `${FILE} ${INSTALL_WRKSRC}/* | fgrep 'ELF' | ${AWK} -F ':' ' { print $$1 }'` ; do \
 		${MV} $${binary} ${STAGE}/bin ; \
 	done
@@ -120,8 +117,8 @@
 	${INSTALL_PROGRAM} ${STAGE}/bin/* ${PREFIX}/bin
 	${INSTALL_SCRIPT} ${STAGE}/scripts/* ${PREFIX}/bin
 	${INSTALL_DATA} ${DISTDIR}/${DIST_SUBDIR}/TTatlas* ${DATADIR}
-	${INSTALL_DATA} ${WRKDIR}/CA_EZ_v1.3c-May0806/* ${DATADIR}
-	${INSTALL_MAN} ${DISTDIR}/${DIST_SUBDIR}/afni.1 ${PREFIX}/man/man1
+	${INSTALL_DATA} ${WRKDIR}/CA_EZ_v1.5-July3107/* ${DATADIR}
+	${INSTALL_MAN} ${WRKDIR}/afni.1 ${MAN1PREFIX}/man/man1
 .if !defined(NOPORTDOCS)
 	${MKDIR} ${DOCSDIR}
 	${INSTALL_DATA} ${STAGE}/doc/* ${DOCSDIR}
diff -ruN /usr/ports/science/afni/distinfo afni-latest/distinfo
--- /usr/ports/science/afni/distinfo	Sat Apr 21 08:37:39 2007
+++ afni-latest/distinfo	Fri Jan  4 12:12:22 2008
@@ -1,15 +1,18 @@
-MD5 (AFNI-2007.04.18.1830/afni_src.tgz) = 90ecae8727cadc6172517bc7149be67e
-SHA256 (AFNI-2007.04.18.1830/afni_src.tgz) = 53796de972179f122ab7c557bf29d3511ed113119d04707e16b0766763f49c21
-SIZE (AFNI-2007.04.18.1830/afni_src.tgz) = 11283995
-MD5 (AFNI-2007.04.18.1830/afni.1) = 80cc1f1c6ca0ef59a3032ad63abfbdd5
-SHA256 (AFNI-2007.04.18.1830/afni.1) = 647815326aa676d005fa15de116a6f046b486530aa50a3100d8b29c11da8aaf7
-SIZE (AFNI-2007.04.18.1830/afni.1) = 1702
-MD5 (AFNI-2007.04.18.1830/TTatlas+tlrc.BRIK.gz) = f5a107b049bc426af5342565f4e5beee
-SHA256 (AFNI-2007.04.18.1830/TTatlas+tlrc.BRIK.gz) = 0b5b087006e07e05c5f0c8306acaade955924f744457cec0c00844cc2e9e67cd
-SIZE (AFNI-2007.04.18.1830/TTatlas+tlrc.BRIK.gz) = 159912
-MD5 (AFNI-2007.04.18.1830/TTatlas+tlrc.HEAD) = a0ca787a2996d7e66548176808503ac5
-SHA256 (AFNI-2007.04.18.1830/TTatlas+tlrc.HEAD) = 51c3fb158990616f355fea56886fc7c85d80ac96779f5a65a8f69207c2a85919
-SIZE (AFNI-2007.04.18.1830/TTatlas+tlrc.HEAD) = 1750
-MD5 (AFNI-2007.04.18.1830/CA_EZ_v1.3c-May0806.tgz) = dbb2caab5c030c505b306e1526d19150
-SHA256 (AFNI-2007.04.18.1830/CA_EZ_v1.3c-May0806.tgz) = b4e9a6bbb2324c01f70d50e911793e637373040c8cca8e5f17882a146396bc31
-SIZE (AFNI-2007.04.18.1830/CA_EZ_v1.3c-May0806.tgz) = 2652278
+MD5 (AFNI-2008.01.02.1043/afni_src.tgz) = 46e44b0e5f3a86c8830cfeceac8da36b
+SHA256 (AFNI-2008.01.02.1043/afni_src.tgz) = 39d190c705ce93e8794500de11c367e0ba0ea6600baac34cdd23cdd2400d18fd
+SIZE (AFNI-2008.01.02.1043/afni_src.tgz) = 12248881
+MD5 (AFNI-2008.01.02.1043/afni.1) = 02708ca46c60d6774af4796535e263ed
+SHA256 (AFNI-2008.01.02.1043/afni.1) = f134d1f869b1dfd618c61e58fd24b9c4dcfea9c25bc5b1c26dbbb141719cd6f8
+SIZE (AFNI-2008.01.02.1043/afni.1) = 1667
+MD5 (AFNI-2008.01.02.1043/3dClustBust.c) = e5f890f4e0894d6e16e3579d3ff89f49
+SHA256 (AFNI-2008.01.02.1043/3dClustBust.c) = 2ca07ff08acc41d7c8895d06ae9effa2c6058aada45fc5381b63a726600dded2
+SIZE (AFNI-2008.01.02.1043/3dClustBust.c) = 106517
+MD5 (AFNI-2008.01.02.1043/TTatlas+tlrc.BRIK.gz) = f5a107b049bc426af5342565f4e5beee
+SHA256 (AFNI-2008.01.02.1043/TTatlas+tlrc.BRIK.gz) = 0b5b087006e07e05c5f0c8306acaade955924f744457cec0c00844cc2e9e67cd
+SIZE (AFNI-2008.01.02.1043/TTatlas+tlrc.BRIK.gz) = 159912
+MD5 (AFNI-2008.01.02.1043/TTatlas+tlrc.HEAD) = a0ca787a2996d7e66548176808503ac5
+SHA256 (AFNI-2008.01.02.1043/TTatlas+tlrc.HEAD) = 51c3fb158990616f355fea56886fc7c85d80ac96779f5a65a8f69207c2a85919
+SIZE (AFNI-2008.01.02.1043/TTatlas+tlrc.HEAD) = 1750
+MD5 (AFNI-2008.01.02.1043/CA_EZ_v1.5-July3107.tgz) = 66341b819e9889ff60a9c3554123db68
+SHA256 (AFNI-2008.01.02.1043/CA_EZ_v1.5-July3107.tgz) = 4300ec3e94b7dfd43f70b3f321f8aa290bd9f6e6420a414f251dbd790df8af02
+SIZE (AFNI-2008.01.02.1043/CA_EZ_v1.5-July3107.tgz) = 2654150
diff -ruN /usr/ports/science/afni/files/Makefile.FreeBSD_PORT afni-latest/files/Makefile.FreeBSD_PORT
--- /usr/ports/science/afni/files/Makefile.FreeBSD_PORT	Sat Apr 21 08:37:39 2007
+++ afni-latest/files/Makefile.FreeBSD_PORT	Thu Aug 30 14:01:02 2007
@@ -45,7 +45,7 @@
 LD?     = ${CC}
 
 CCDEBS = -DAFNI_DEBUG -DIMSEQ_DEBUG -DDISPLAY_DEBUG -DTHD_DEBUG
-CEXTRA = -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE
+CEXTRA = -DFreeBSD -DNO_GAMMA -DUSE_TRACING -DHAVE_XDBE -DSUMA_MOTIF_GLXAREA
 ifeq (${ARCH}, amd64)
 CEXTRA += -DPIC -fPIC
 endif
diff -ruN /usr/ports/science/afni/files/patch-Makefile.INCLUDE afni-latest/files/patch-Makefile.INCLUDE
--- /usr/ports/science/afni/files/patch-Makefile.INCLUDE	Wed Dec 31 18:00:00 1969
+++ afni-latest/files/patch-Makefile.INCLUDE	Thu Aug 30 14:12:13 2007
@@ -0,0 +1,21 @@
+--- Makefile.INCLUDE.orig	Thu Jun  7 13:40:04 2007
++++ Makefile.INCLUDE	Thu Aug 30 14:12:08 2007
+@@ -41,7 +41,7 @@
+ ## AFNI package, but included because they are useful.  Some of
+ ## them are Open Source programs, not from the AFNI group at all.
+ 
+-EXTRAS   = cjpeg djpeg whirlgif mpeg_encode myget Xphace rmz aiv $(EXPROGS)
++EXTRAS   = myget Xphace rmz aiv 3dClustBust $(EXPROGS)
+ 
+ # mpegtoppm in above list
+ 
+@@ -234,6 +234,9 @@
+ 
+ 3dbuc2fim:3dbuc2fim.o
+ 	$(CC) -o 3dbuc2fim 3dbuc2fim.o $(LFLAGS) $(LLIBS)
++
++3dClustBust:3dClustBust.c
++	$(CC) -o 3dClustBust 3dClustBust.c $(INFLAGS) $(LFLAGS) $(LLIBS)
+ 
+ mritopgm:mritopgm.c
+ 	$(CC) -o mritopgm mritopgm.c $(INFLAGS) $(LFLAGS) $(LLIBS)
diff -ruN /usr/ports/science/afni/pkg-descr afni-latest/pkg-descr
--- /usr/ports/science/afni/pkg-descr	Sun Sep 24 13:24:08 2006
+++ afni-latest/pkg-descr	Thu Jan 24 14:33:53 2008
@@ -2,6 +2,6 @@
 a tool for analyzing 3 dimensional images, especially functional MRI
 images used in brain mapping research.
 
-WWW: http://afni.nimh.nih.gov/
+WWW: http://www.neuro.mcw.edu/Ports
 
 -- Jason W. Bacon <bacon@smithers.neuro.mcw.edu>
diff -ruN /usr/ports/science/afni/pkg-message afni-latest/pkg-message
--- /usr/ports/science/afni/pkg-message	Sat Apr 21 08:37:39 2007
+++ afni-latest/pkg-message	Thu Aug 16 13:10:18 2007
@@ -10,8 +10,13 @@
 
 http://afni.nimh.nih.gov.
 
+SUMA requires the nvidia graphics driver or DRI.
+
 For large 3dDeconvolve analyses, you may need to increase the shared
 memory limit on your system.  For instructions, visit
 
-http://www.neuro.mcw.edu/~bacon/FreeBSD_MRI/
+http://www.neuro.mcw.edu/~bacon/Ports/FreeBSD/shared_mem.html
+
+The program "abut" has been renamed "afni_abut" to resolve a collision
+with the unixstat port.
 =============================================================================
diff -ruN /usr/ports/science/afni/pkg-plist afni-latest/pkg-plist
--- /usr/ports/science/afni/pkg-plist	Sat Apr 21 08:37:39 2007
+++ afni-latest/pkg-plist	Wed Jan  2 11:13:02 2008
@@ -1,3 +1,4 @@
+bin/1dFlagMotion
 bin/1dMarry
 bin/1dSEM
 bin/1dcat
@@ -38,6 +39,7 @@
 bin/3dCM
 bin/3dCRUISEtoAFNI
 bin/3dClipLevel
+bin/3dClustBust
 bin/3dConvolve
 bin/3dDFT
 bin/3dDTeig
@@ -58,6 +60,7 @@
 bin/3dIntracranial
 bin/3dInvFMRI
 bin/3dKruskalWallis
+bin/3dLME.R
 bin/3dLRflip
 bin/3dLocalBistat
 bin/3dLocalstat
@@ -69,6 +72,7 @@
 bin/3dNLfim
 bin/3dNotes
 bin/3dOverlap
+bin/3dPAR2AFNI.pl
 bin/3dROIstats
 bin/3dRegAna
 bin/3dRowFillin
@@ -87,6 +91,7 @@
 bin/3dTqual
 bin/3dTshift
 bin/3dTsmooth
+bin/3dTsort
 bin/3dTstat
 bin/3dTwotoComplex
 bin/3dUndump
@@ -132,6 +137,7 @@
 bin/3dresample
 bin/3dretroicor
 bin/3drotate
+bin/3dsvm
 bin/3dttest
 bin/3dvolreg
 bin/4swap
@@ -145,6 +151,8 @@
 bin/@CommandGlobb
 bin/@DTI_studio_reposition
 bin/@DoPerRoi.py
+bin/@DriveAfni
+bin/@DriveSuma
 bin/@FindAfniDsetPath
 bin/@FromRAI
 bin/@GetAfniID
@@ -156,9 +164,11 @@
 bin/@Purify_1D
 bin/@RenamePanga
 bin/@SUMA_AlignToExperiment
+bin/@SUMA_FSvolToBRIK
 bin/@SUMA_Make_Spec_Caret
 bin/@SUMA_Make_Spec_FS
 bin/@SUMA_Make_Spec_SF
+bin/@SurfSmooth.HEAT_07.examples
 bin/@ToRAI
 bin/@UpdateAfni
 bin/@VolCenter
@@ -169,6 +179,7 @@
 bin/@escape-
 bin/@fix_FSsphere
 bin/@float_fix
+bin/@isOblique
 bin/@make_stim_file
 bin/@np
 bin/@parse_afni_name
@@ -198,6 +209,7 @@
 bin/SUMA_pixmap2eps
 bin/SampBias
 bin/ScaleToMap
+bin/Surf2VolCoord
 bin/SurfClust
 bin/SurfDsetInfo
 bin/SurfInfo
@@ -209,11 +221,12 @@
 bin/SurfaceMetrics
 bin/Vecwarp
 bin/Xphace
-bin/abut
 bin/adwarp
 bin/afni
+bin/afni_abut
 bin/afni_base.py
 bin/afni_proc.py
+bin/afni_run_R
 bin/afni_util.py
 bin/afni_vcheck
 bin/aiv
@@ -248,6 +261,7 @@
 bin/imstat
 bin/imupsam
 bin/inspec
+bin/io.R
 bin/make_stim_times.py
 bin/mayo_analyze
 bin/mritopgm
@@ -281,7 +295,6 @@
 include/afni/3ddata.h
 include/afni/afni_environ.h
 include/afni/afni_warp.h
-include/afni/cdflib.h
 include/afni/coxplot.h
 include/afni/cs.h
 include/afni/cs_sort_template.h
@@ -309,6 +322,7 @@
 lib/afni/libvolpack.a
 lib/afni/model_beta.so
 lib/afni/model_constant.so
+lib/afni/model_conv_diffgamma.so
 lib/afni/model_convgamma.so
 lib/afni/model_convgamma2a.so
 lib/afni/model_demri_3.so
@@ -330,6 +344,7 @@
 lib/afni/plug_3Ddump_V2.so
 lib/afni/plug_3ddot.so
 lib/afni/plug_3ddup.so
+lib/afni/plug_3dsvm.so
 lib/afni/plug_4Ddump.so
 lib/afni/plug_L1fit.so
 lib/afni/plug_betafit.so
@@ -346,6 +361,7 @@
 lib/afni/plug_fourier.so
 lib/afni/plug_hemisub.so
 lib/afni/plug_histog.so
+lib/afni/plug_histog_multi.so
 lib/afni/plug_imreg.so
 lib/afni/plug_lsqfit.so
 lib/afni/plug_maskave.so
@@ -391,6 +407,7 @@
 %%DATADIR%%/TT_N27_EZ_ML+tlrc.HEAD
 %%DATADIR%%/TTatlas+tlrc.BRIK.gz
 %%DATADIR%%/TTatlas+tlrc.HEAD
+%%DATADIR%%/face_AuroraRamos.jpg
 %%DATADIR%%/face_JimEliassen.jpg
 %%DATADIR%%/face_JohannaBaas.jpg
 %%DATADIR%%/face_SalloumJB.jpg
@@ -401,11 +418,14 @@
 %%DATADIR%%/face_agoldman.jpg
 %%DATADIR%%/face_ahammett.jpg
 %%DATADIR%%/face_alexandrakofinis.jpg
+%%DATADIR%%/face_alexmartin.jpg
 %%DATADIR%%/face_anewmanetal.jpg
 %%DATADIR%%/face_anugent.jpg
 %%DATADIR%%/face_asanders.jpg
 %%DATADIR%%/face_ashackman.jpg
 %%DATADIR%%/face_athomas.jpg
+%%DATADIR%%/face_avovk.jpg
+%%DATADIR%%/face_aysesaygin.jpg
 %%DATADIR%%/face_bandettini.jpg
 %%DATADIR%%/face_barbaracd.jpg
 %%DATADIR%%/face_bargall.jpg
@@ -414,19 +434,24 @@
 %%DATADIR%%/face_bmcnamee.jpg
 %%DATADIR%%/face_bodurka.jpg
 %%DATADIR%%/face_bprogers.jpg
+%%DATADIR%%/face_brianna.jpg
 %%DATADIR%%/face_bridget.jpg
 %%DATADIR%%/face_brodmann.jpg
 %%DATADIR%%/face_browndyke.jpg
 %%DATADIR%%/face_carol.jpg
 %%DATADIR%%/face_cbikle.jpg
+%%DATADIR%%/face_ccss.jpg
 %%DATADIR%%/face_claudio.jpg
 %%DATADIR%%/face_cmoritz.jpg
 %%DATADIR%%/face_cmyers.jpg
+%%DATADIR%%/face_connorbandettini.jpg
+%%DATADIR%%/face_craigstark.jpg
 %%DATADIR%%/face_cscholl.jpg
 %%DATADIR%%/face_csenior.jpg
 %%DATADIR%%/face_cwettig.jpg
 %%DATADIR%%/face_daveperlman.jpg
 %%DATADIR%%/face_dglen.jpg
+%%DATADIR%%/face_drewbeauchamp.jpg
 %%DATADIR%%/face_einstein.jpg
 %%DATADIR%%/face_eli.jpg
 %%DATADIR%%/face_erinskinner.jpg
@@ -449,6 +474,7 @@
 %%DATADIR%%/face_ibitter.jpg
 %%DATADIR%%/face_ilevy.jpg
 %%DATADIR%%/face_imukai.jpg
+%%DATADIR%%/face_jaehun.jpg
 %%DATADIR%%/face_jbacon.jpg
 %%DATADIR%%/face_jbinder.jpg
 %%DATADIR%%/face_jbjork.jpg
@@ -462,13 +488,16 @@
 %%DATADIR%%/face_kkwong.jpg
 %%DATADIR%%/face_kropella.jpg
 %%DATADIR%%/face_kschreiber.jpg
+%%DATADIR%%/face_ksimonyan.jpg
 %%DATADIR%%/face_kuba.jpg
 %%DATADIR%%/face_kylesimmons.jpg
 %%DATADIR%%/face_lask.jpg
 %%DATADIR%%/face_laura.jpg
+%%DATADIR%%/face_lfrank.jpg
 %%DATADIR%%/face_lincoln1.jpg
 %%DATADIR%%/face_lincoln2.jpg
 %%DATADIR%%/face_lindachao.jpg
+%%DATADIR%%/face_lindathede.jpg
 %%DATADIR%%/face_lisaeyler.jpg
 %%DATADIR%%/face_lizyoder.jpg
 %%DATADIR%%/face_ljcox.jpg
@@ -490,7 +519,9 @@
 %%DATADIR%%/face_mruppe.jpg
 %%DATADIR%%/face_mscohen.jpg
 %%DATADIR%%/face_notspm.jpg
+%%DATADIR%%/face_patbedard.jpg
 %%DATADIR%%/face_pchristidis.jpg
+%%DATADIR%%/face_phineasgage.jpg
 %%DATADIR%%/face_phoebechan.jpg
 %%DATADIR%%/face_prowser.jpg
 %%DATADIR%%/face_psfb.jpg
@@ -505,24 +536,28 @@
 %%DATADIR%%/face_rjsquirrel.jpg
 %%DATADIR%%/face_rprost.jpg
 %%DATADIR%%/face_rreynolds.jpg
+%%DATADIR%%/face_rsaad.jpg
 %%DATADIR%%/face_rwcox.jpg
 %%DATADIR%%/face_rwcox2.jpg
 %%DATADIR%%/face_rwcox3.jpg
 %%DATADIR%%/face_rwcox4.jpg
 %%DATADIR%%/face_rwcox5.jpg
 %%DATADIR%%/face_rwcox6.jpg
+%%DATADIR%%/face_rwcox7.jpg
 %%DATADIR%%/face_saccanch.jpg
 %%DATADIR%%/face_sjapee.jpg
 %%DATADIR%%/face_skammy.jpg
 %%DATADIR%%/face_skapdoskar.jpg
 %%DATADIR%%/face_sknoonan.jpg
 %%DATADIR%%/face_smarrett.jpg
+%%DATADIR%%/face_smlaconte.jpg
 %%DATADIR%%/face_ssaad.jpg
 %%DATADIR%%/face_ssmall.jpg
 %%DATADIR%%/face_steverao.jpg
 %%DATADIR%%/face_sumabucks.jpg
 %%DATADIR%%/face_tieshan.jpg
 %%DATADIR%%/face_tolkien.jpg
+%%DATADIR%%/face_tomholroyd.jpg
 %%DATADIR%%/face_vdcosta.jpg
 %%DATADIR%%/face_vhradil.jpg
 %%DATADIR%%/face_vincent1.jpg
@@ -534,7 +569,9 @@
 %%DATADIR%%/face_wapostman2.jpg
 %%DATADIR%%/face_wmluh.jpg
 %%DATADIR%%/face_wpostman.jpg
+%%DATADIR%%/face_xinianzuo.jpg
 %%DATADIR%%/face_zsaad.jpg
+%%DATADIR%%/face_zsaad2.jpg
 %%DATADIR%%/face_zzzdini.jpg
 %%DATADIR%%/face_zzzsunbrain.jpg
 %%DATADIR%%/poem_bj1.txt
@@ -552,16 +589,36 @@
 %%DATADIR%%/poem_rls1.txt
 %%DATADIR%%/poem_ww1.txt
 %%DATADIR%%/poem_ww2.txt
+%%DATADIR%%/splash_afnisuma.jpg
+%%DATADIR%%/splash_angkorwat.jpg
+%%DATADIR%%/splash_birds.jpg
 %%DATADIR%%/splash_bobkarl.jpg
+%%DATADIR%%/splash_bonampak.jpg
+%%DATADIR%%/splash_chichen.jpg
 %%DATADIR%%/splash_earth.jpg
+%%DATADIR%%/splash_elephant.jpg
 %%DATADIR%%/splash_emars.jpg
+%%DATADIR%%/splash_joesun.jpg
 %%DATADIR%%/splash_kebb.jpg
+%%DATADIR%%/splash_machu.jpg
+%%DATADIR%%/splash_malbork.jpg
 %%DATADIR%%/splash_marsalbor.jpg
 %%DATADIR%%/splash_mcw03.jpg
+%%DATADIR%%/splash_mtyale.jpg
+%%DATADIR%%/splash_palenque.jpg
+%%DATADIR%%/splash_pisa.jpg
+%%DATADIR%%/splash_seoul.jpg
 %%DATADIR%%/splash_sscc03.jpg
 %%DATADIR%%/splash_sscc2006.jpg
+%%DATADIR%%/splash_themaze.jpg
+%%DATADIR%%/splash_titicaca.jpg
+%%DATADIR%%/splash_todaiji.jpg
 %%DATADIR%%/splash_vincent.jpg
+%%DATADIR%%/splash_wall.jpg
+%%DATADIR%%/splash_wutaishan.jpg
+%%DATADIR%%/splash_xian.jpg
 %%PORTDOCS%%%%DOCSDIR%%/README.Ifile
+%%PORTDOCS%%%%DOCSDIR%%/README.atlas_building
 %%PORTDOCS%%%%DOCSDIR%%/README.attributes
 %%PORTDOCS%%%%DOCSDIR%%/README.bzip2
 %%PORTDOCS%%%%DOCSDIR%%/README.changes
>Release-Note:
>Audit-Trail:
State-Changed-From-To: open->feedback 
State-Changed-By: tabthorpe 
State-Changed-When: Sat Jan 26 18:47:27 UTC 2008 
State-Changed-Why:  
Ask for submitter fix. 

http://www.freebsd.org/cgi/query-pr.cgi?pr=119961 

From: Thomas Abthorpe <tabthorpe@freebsd.org>
To: bug-followup@freebsd.org,
 bacon@smithers.neuro.mcw.edu
Cc:  
Subject: Re: ports/119961: Maintainer update: science/afni
Date: Sat, 26 Jan 2008 13:46:41 -0500

 -----BEGIN PGP SIGNED MESSAGE-----
 Hash: SHA1
 
 The provided patch does not patch cleanly
 
 |diff -ruN /usr/ports/science/afni/pkg-plist afni-latest/pkg-plist
 |--- /usr/ports/science/afni/pkg-plist  Sat Apr 21 08:37:39 2007
 |+++ afni-latest/pkg-plist      Wed Jan  2 11:13:02 2008
 - --------------------------
 Patching file pkg-plist using Plan A...
 Hunk #1 succeeded at 1.
 Hunk #2 succeeded at 39.
 Hunk #3 succeeded at 60.
 Hunk #4 failed at 72.
 Hunk #5 succeeded at 92 (offset 1 line).
 Hunk #6 succeeded at 138 (offset 1 line).
 Hunk #7 succeeded at 152 (offset 1 line).
 Hunk #8 succeeded at 165 (offset 1 line).
 Hunk #9 succeeded at 180 (offset 1 line).
 Hunk #10 succeeded at 210 (offset 1 line).
 Hunk #11 failed at 222.
 Hunk #12 succeeded at 262 (offset 1 line).
 Hunk #13 failed at 296.
 Hunk #14 succeeded at 321 (offset -1 lines).
 Hunk #15 succeeded at 345 (offset 1 line).
 Hunk #16 succeeded at 360 (offset -1 lines).
 Hunk #17 succeeded at 408 (offset 1 line).
 Hunk #18 failed at 419.
 Hunk #19 failed at 435.
 Hunk #20 succeeded at 475 (offset 1 line).
 Hunk #21 failed at 489.
 Hunk #22 succeeded at 521 (offset 2 lines).
 Hunk #23 succeeded at 537 (offset 1 line).
 Hunk #24 succeeded at 571 (offset 2 lines).
 Hunk #25 succeeded at 590 (offset 1 line).
 6 out of 25 hunks failed--saving rejects to pkg-plist.rej
 
 Can you please investigate and re-submit?
 
 Thanks.
 
 
 Thomas
 - -- 
 Thomas Abthorpe		| FreeBSD Ports Committer
 tabthorpe@FreeBSD.org	| http://people.freebsd.org/~tabthorpe
 -----BEGIN PGP SIGNATURE-----
 Version: GnuPG v2.0.4 (FreeBSD)
 
 iD8DBQFHm4AY5Gm/jNBp8qARAp8bAJ91z/z1wFos5lV8sQtYI1GBcvh5wgCfcs/w
 TCx93mNW9BRSvUF5JteP7f0=
 =MEoD
 -----END PGP SIGNATURE-----
Responsible-Changed-From-To: freebsd-ports-bugs->tabthorpe 
Responsible-Changed-By: tabthorpe 
Responsible-Changed-When: Sat Jan 26 19:12:27 UTC 2008 
Responsible-Changed-Why:  
I'll take it. 

http://www.freebsd.org/cgi/query-pr.cgi?pr=119961 

From: Jason Bacon <bacon@smithers.neuro.mcw.edu>
To: tabthorpe@freebsd.org
Cc: bug-followup@freebsd.org
Subject: Re: ports/119961: Maintainer update: science/afni
Date: Mon, 28 Jan 2008 07:50:41 -0600

 This is a multi-part message in MIME format.
 --------------030505060304060808040209
 Content-Type: text/plain; charset=ISO-8859-1; format=flowed
 Content-Transfer-Encoding: 7bit
 
 
 Oops, sorry about that.  Wrong "old" version.  Try the attached.
 
     Jason
 
 Thomas Abthorpe wrote:
 > -----BEGIN PGP SIGNED MESSAGE-----
 > Hash: SHA1
 >
 > The provided patch does not patch cleanly
 >
 > |diff -ruN /usr/ports/science/afni/pkg-plist afni-latest/pkg-plist
 > |--- /usr/ports/science/afni/pkg-plist  Sat Apr 21 08:37:39 2007
 > |+++ afni-latest/pkg-plist      Wed Jan  2 11:13:02 2008
 > - --------------------------
 > Patching file pkg-plist using Plan A...
 > Hunk #1 succeeded at 1.
 > Hunk #2 succeeded at 39.
 > Hunk #3 succeeded at 60.
 > Hunk #4 failed at 72.
 > Hunk #5 succeeded at 92 (offset 1 line).
 > Hunk #6 succeeded at 138 (offset 1 line).
 > Hunk #7 succeeded at 152 (offset 1 line).
 > Hunk #8 succeeded at 165 (offset 1 line).
 > Hunk #9 succeeded at 180 (offset 1 line).
 > Hunk #10 succeeded at 210 (offset 1 line).
 > Hunk #11 failed at 222.
 > Hunk #12 succeeded at 262 (offset 1 line).
 > Hunk #13 failed at 296.
 > Hunk #14 succeeded at 321 (offset -1 lines).
 > Hunk #15 succeeded at 345 (offset 1 line).
 > Hunk #16 succeeded at 360 (offset -1 lines).
 > Hunk #17 succeeded at 408 (offset 1 line).
 > Hunk #18 failed at 419.
 > Hunk #19 failed at 435.
 > Hunk #20 succeeded at 475 (offset 1 line).
 > Hunk #21 failed at 489.
 > Hunk #22 succeeded at 521 (offset 2 lines).
 > Hunk #23 succeeded at 537 (offset 1 line).
 > Hunk #24 succeeded at 571 (offset 2 lines).
 > Hunk #25 succeeded at 590 (offset 1 line).
 > 6 out of 25 hunks failed--saving rejects to pkg-plist.rej
 >
 > Can you please investigate and re-submit?
 >
 > Thanks.
 >
 >
 > Thomas
 > - -- 
 > Thomas Abthorpe		| FreeBSD Ports Committer
 > tabthorpe@FreeBSD.org	| http://people.freebsd.org/~tabthorpe
 > -----BEGIN PGP SIGNATURE-----
 > Version: GnuPG v2.0.4 (FreeBSD)
 >
 > iD8DBQFHm4AY5Gm/jNBp8qARAp8bAJ91z/z1wFos5lV8sQtYI1GBcvh5wgCfcs/w
 > TCx93mNW9BRSvUF5JteP7f0=
 > =MEoD
 > -----END PGP SIGNATURE-----
 >   
 
 
 --------------030505060304060808040209
 Content-Type: text/plain;
  name="afni.diff"
 Content-Transfer-Encoding: 7bit
 Content-Disposition: inline;
  filename="afni.diff"
 
 diff -ruN /usr/ports/science/afni/Makefile afni-latest/Makefile
 --- /usr/ports/science/afni/Makefile	Thu Jun 21 07:33:48 2007
 +++ afni-latest/Makefile	Thu Jan 24 14:35:00 2008
 @@ -1,29 +1,28 @@
  ############################################################################
  # Ports collection Makefile for:   afni
  # Date created:        11 Jan 2005
 -# Whom:                bacon@smithers.neuro.mcw.edu
 +# Whom:                Jason W. Bacon <jwbacon@tds.net>
  #
 -# $FreeBSD: ports/science/afni/Makefile,v 1.13 2007/06/21 12:33:48 miwi Exp $
 +# $FreeBSD$
  #
  
  ############################################################################
 -# www.neuro.mcw.edu has the latest source distribution from which this port
 -# is built.  It will be updated as time permits.
 +# 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 using
 -# Makefile.BSD, which is included in the source distribution.
 +# you can download the latest sources and build manually.
  
  PORTNAME=	afni
 -PORTVERSION=	2007.06.15.1339
 +PORTVERSION=	2008.01.02.1043
  CATEGORIES=	science biology graphics
 -MASTER_SITES=	http://www.neuro.mcw.edu/~bacon/Ports/distfiles/AFNI/${PORTVERSION}/ \
 +MASTER_SITES=	http://www.neuro.mcw.edu/Ports/distfiles/AFNI/${PORTVERSION}/ \
  		http://afni.nimh.nih.gov/pub/dist/tgz/
 -DISTFILES=	afni_src.tgz afni.1 \
 -		TTatlas+tlrc.BRIK.gz TTatlas+tlrc.HEAD CA_EZ_v1.3c-May0806.tgz
 +DISTFILES=	afni_src.tgz afni.1 3dClustBust.c \
 +		TTatlas+tlrc.BRIK.gz TTatlas+tlrc.HEAD CA_EZ_v1.5-July3107.tgz
  DIST_SUBDIR=	AFNI-${PORTVERSION}
 -EXTRACT_ONLY=	afni_src.tgz CA_EZ_v1.3c-May0806.tgz
 +EXTRACT_ONLY=	afni_src.tgz CA_EZ_v1.5-July3107.tgz
  
  MAINTAINER=	bacon@smithers.neuro.mcw.edu
  COMMENT=	Advanced Functional Neuro Imaging
 @@ -54,7 +53,7 @@
  ###########################################################################
  # Install parameters
  
 -MAN1=	afni.1
 +MAN1=		afni.1
  
  INSTALL_WRKSRC=	${WRKSRC}/BSD
  STAGE=		${WRKSRC}/stage
 @@ -77,7 +76,9 @@
  .for f in ${X11R6_FILES}
  	@${REINPLACE_CMD} -e 's|/usr/X11R6|$${X11BASE}|g' ${WRKSRC}/${f}
  .endfor
 +	@${REINPLACE_CMD} -e 's|AFNI_2007_05_29_1644|${PORTVERSION}|g' ${WRKSRC}/AFNI_label.h
  	@${CP} ${DISTDIR}/${DIST_SUBDIR}/afni.1 ${WRKDIR}
 +	@${CP} ${DISTDIR}/${DIST_SUBDIR}/3dClustBust.c ${WRKSRC}
  	@${REINPLACE_CMD} "s|%%PREFIX%%|${PREFIX}|g" ${WRKDIR}/afni.1
  
  post-build:
 @@ -116,8 +117,8 @@
  	${INSTALL_PROGRAM} ${STAGE}/bin/* ${PREFIX}/bin
  	${INSTALL_SCRIPT} ${STAGE}/scripts/* ${PREFIX}/bin
  	${INSTALL_DATA} ${DISTDIR}/${DIST_SUBDIR}/TTatlas* ${DATADIR}
 -	${INSTALL_DATA} ${WRKDIR}/CA_EZ_v1.3c-May0806/* ${DATADIR}
 -	${INSTALL_MAN} ${WRKDIR}/afni.1 ${PREFIX}/man/man1
 +	${INSTALL_DATA} ${WRKDIR}/CA_EZ_v1.5-July3107/* ${DATADIR}
 +	${INSTALL_MAN} ${WRKDIR}/afni.1 ${MAN1PREFIX}/man/man1
  .if !defined(NOPORTDOCS)
  	${MKDIR} ${DOCSDIR}
  	${INSTALL_DATA} ${STAGE}/doc/* ${DOCSDIR}
 diff -ruN /usr/ports/science/afni/distinfo afni-latest/distinfo
 --- /usr/ports/science/afni/distinfo	Thu Jun 21 07:33:48 2007
 +++ afni-latest/distinfo	Fri Jan  4 12:12:22 2008
 @@ -1,15 +1,18 @@
 -MD5 (AFNI-2007.06.15.1339/afni_src.tgz) = 19f4c9e5dac9459b14c40475879f1dda
 -SHA256 (AFNI-2007.06.15.1339/afni_src.tgz) = b4778ada0afb603f4a104ee2448792d5f3b0eea844defda8dd9141002c98a433
 -SIZE (AFNI-2007.06.15.1339/afni_src.tgz) = 11331933
 -MD5 (AFNI-2007.06.15.1339/afni.1) = 02708ca46c60d6774af4796535e263ed
 -SHA256 (AFNI-2007.06.15.1339/afni.1) = f134d1f869b1dfd618c61e58fd24b9c4dcfea9c25bc5b1c26dbbb141719cd6f8
 -SIZE (AFNI-2007.06.15.1339/afni.1) = 1667
 -MD5 (AFNI-2007.06.15.1339/TTatlas+tlrc.BRIK.gz) = f5a107b049bc426af5342565f4e5beee
 -SHA256 (AFNI-2007.06.15.1339/TTatlas+tlrc.BRIK.gz) = 0b5b087006e07e05c5f0c8306acaade955924f744457cec0c00844cc2e9e67cd
 -SIZE (AFNI-2007.06.15.1339/TTatlas+tlrc.BRIK.gz) = 159912
 -MD5 (AFNI-2007.06.15.1339/TTatlas+tlrc.HEAD) = a0ca787a2996d7e66548176808503ac5
 -SHA256 (AFNI-2007.06.15.1339/TTatlas+tlrc.HEAD) = 51c3fb158990616f355fea56886fc7c85d80ac96779f5a65a8f69207c2a85919
 -SIZE (AFNI-2007.06.15.1339/TTatlas+tlrc.HEAD) = 1750
 -MD5 (AFNI-2007.06.15.1339/CA_EZ_v1.3c-May0806.tgz) = dbb2caab5c030c505b306e1526d19150
 -SHA256 (AFNI-2007.06.15.1339/CA_EZ_v1.3c-May0806.tgz) = b4e9a6bbb2324c01f70d50e911793e637373040c8cca8e5f17882a146396bc31
 -SIZE (AFNI-2007.06.15.1339/CA_EZ_v1.3c-May0806.tgz) = 2652278
 +MD5 (AFNI-2008.01.02.1043/afni_src.tgz) = 46e44b0e5f3a86c8830cfeceac8da36b
 +SHA256 (AFNI-2008.01.02.1043/afni_src.tgz) = 39d190c705ce93e8794500de11c367e0ba0ea6600baac34cdd23cdd2400d18fd
 +SIZE (AFNI-2008.01.02.1043/afni_src.tgz) = 12248881
 +MD5 (AFNI-2008.01.02.1043/afni.1) = 02708ca46c60d6774af4796535e263ed
 +SHA256 (AFNI-2008.01.02.1043/afni.1) = f134d1f869b1dfd618c61e58fd24b9c4dcfea9c25bc5b1c26dbbb141719cd6f8
 +SIZE (AFNI-2008.01.02.1043/afni.1) = 1667
 +MD5 (AFNI-2008.01.02.1043/3dClustBust.c) = e5f890f4e0894d6e16e3579d3ff89f49
 +SHA256 (AFNI-2008.01.02.1043/3dClustBust.c) = 2ca07ff08acc41d7c8895d06ae9effa2c6058aada45fc5381b63a726600dded2
 +SIZE (AFNI-2008.01.02.1043/3dClustBust.c) = 106517
 +MD5 (AFNI-2008.01.02.1043/TTatlas+tlrc.BRIK.gz) = f5a107b049bc426af5342565f4e5beee
 +SHA256 (AFNI-2008.01.02.1043/TTatlas+tlrc.BRIK.gz) = 0b5b087006e07e05c5f0c8306acaade955924f744457cec0c00844cc2e9e67cd
 +SIZE (AFNI-2008.01.02.1043/TTatlas+tlrc.BRIK.gz) = 159912
 +MD5 (AFNI-2008.01.02.1043/TTatlas+tlrc.HEAD) = a0ca787a2996d7e66548176808503ac5
 +SHA256 (AFNI-2008.01.02.1043/TTatlas+tlrc.HEAD) = 51c3fb158990616f355fea56886fc7c85d80ac96779f5a65a8f69207c2a85919
 +SIZE (AFNI-2008.01.02.1043/TTatlas+tlrc.HEAD) = 1750
 +MD5 (AFNI-2008.01.02.1043/CA_EZ_v1.5-July3107.tgz) = 66341b819e9889ff60a9c3554123db68
 +SHA256 (AFNI-2008.01.02.1043/CA_EZ_v1.5-July3107.tgz) = 4300ec3e94b7dfd43f70b3f321f8aa290bd9f6e6420a414f251dbd790df8af02
 +SIZE (AFNI-2008.01.02.1043/CA_EZ_v1.5-July3107.tgz) = 2654150
 diff -ruN /usr/ports/science/afni/files/patch-Makefile.INCLUDE afni-latest/files/patch-Makefile.INCLUDE
 --- /usr/ports/science/afni/files/patch-Makefile.INCLUDE	Thu Jun 21 07:33:48 2007
 +++ afni-latest/files/patch-Makefile.INCLUDE	Thu Aug 30 14:12:13 2007
 @@ -1,11 +1,21 @@
 ---- Makefile.INCLUDE.orig	Fri Apr 27 15:03:08 2007
 -+++ Makefile.INCLUDE	Fri Apr 27 15:03:29 2007
 +--- Makefile.INCLUDE.orig	Thu Jun  7 13:40:04 2007
 ++++ Makefile.INCLUDE	Thu Aug 30 14:12:08 2007
  @@ -41,7 +41,7 @@
   ## AFNI package, but included because they are useful.  Some of
   ## them are Open Source programs, not from the AFNI group at all.
   
  -EXTRAS   = cjpeg djpeg whirlgif mpeg_encode myget Xphace rmz aiv $(EXPROGS)
 -+EXTRAS   = myget Xphace rmz aiv $(EXPROGS)
 ++EXTRAS   = myget Xphace rmz aiv 3dClustBust $(EXPROGS)
   
   # mpegtoppm in above list
   
 +@@ -234,6 +234,9 @@
 + 
 + 3dbuc2fim:3dbuc2fim.o
 + 	$(CC) -o 3dbuc2fim 3dbuc2fim.o $(LFLAGS) $(LLIBS)
 ++
 ++3dClustBust:3dClustBust.c
 ++	$(CC) -o 3dClustBust 3dClustBust.c $(INFLAGS) $(LFLAGS) $(LLIBS)
 + 
 + mritopgm:mritopgm.c
 + 	$(CC) -o mritopgm mritopgm.c $(INFLAGS) $(LFLAGS) $(LLIBS)
 diff -ruN /usr/ports/science/afni/files/patch-SUMA-SUMA_display.c afni-latest/files/patch-SUMA-SUMA_display.c
 --- /usr/ports/science/afni/files/patch-SUMA-SUMA_display.c	Thu Jun 21 07:33:48 2007
 +++ afni-latest/files/patch-SUMA-SUMA_display.c	Wed Dec 31 18:00:00 1969
 @@ -1,53 +0,0 @@
 ---- SUMA/SUMA_display.c.orig	Wed Jun  6 12:42:06 2007
 -+++ SUMA/SUMA_display.c	Wed Jun  6 12:45:54 2007
 -@@ -1854,22 +1854,14 @@
 -          
 -  
 -          
 --      #ifdef SUMA_MOTIF_GLXAREA
 --        /* Step 4. */
 --        SUMAg_SVv[ic].X->FORM = XmCreateForm(SUMAg_SVv[ic].X->TOPLEVEL, "form", NULL, 0);
 --        XtManageChild(SUMAg_SVv[ic].X->FORM);
 --        SUMAg_SVv[ic].X->FRAME = XmCreateFrame(SUMAg_SVv[ic].X->FORM, "frame", NULL, 0);
 --        XtVaSetValues(SUMAg_SVv[ic].X->FRAME,
 --          XmNbottomAttachment, XmATTACH_FORM,
 --          XmNtopAttachment, XmATTACH_FORM,
 --          XmNleftAttachment, XmATTACH_FORM,
 --          XmNrightAttachment, XmATTACH_FORM,
 --          NULL);
 --        XtManageChild(SUMAg_SVv[ic].X->FRAME);
 --
 --        /* Step 5. */
 -         SUMAg_SVv[ic].X->CMAP = SUMA_getShareableColormap(&(SUMAg_SVv[ic]));
 - 
 -+        /* create a frame to put glxarea in */
 -+        SUMAg_SVv[ic].X->FRAME = XmCreateFrame (mainw, "frame", NULL, 0);
 -+        XtManageChild(SUMAg_SVv[ic].X->FRAME);
 -+
 -+      #ifdef SUMA_MOTIF_GLXAREA
 -+        SUMA_LH("MOTIF Drawing Area");
 -         /* Step 6. */
 -          /* glwMDrawingAreaWidgetClass requires libMesaGLwM.a */
 -          SUMAg_SVv[ic].X->GLXAREA = XtVaCreateManagedWidget("glxarea",
 -@@ -1878,20 +1870,13 @@
 -           XtNcolormap, SUMAg_SVv[ic].X->CMAP,
 -           NULL);
 -       #else
 --      /* Step 4-6. */
 --         SUMAg_SVv[ic].X->CMAP = SUMA_getShareableColormap(&(SUMAg_SVv[ic]));
 --
 --         /* create a frame to put glxarea in */
 --         SUMAg_SVv[ic].X->FRAME  = XmCreateFrame (mainw, "frame", NULL, 0);
 --         XtManageChild(SUMAg_SVv[ic].X->FRAME);
 --
 -+        SUMA_LH("GL Drawing Area");
 -          /* glwDrawingAreaWidgetClass requires libMesaGLw.a */
 -          SUMAg_SVv[ic].X->GLXAREA = XtVaCreateManagedWidget("glxarea",
 -           glwDrawingAreaWidgetClass, SUMAg_SVv[ic].X->FRAME,
 -           GLwNvisualInfo, SUMAg_SVv[ic].X->VISINFO,
 -           XtNcolormap, SUMAg_SVv[ic].X->CMAP,
 -           NULL);
 --      
 -       #endif
 - 
 -           
 diff -ruN /usr/ports/science/afni/files/patch-SUMA-SUMA_xColBar.c afni-latest/files/patch-SUMA-SUMA_xColBar.c
 --- /usr/ports/science/afni/files/patch-SUMA-SUMA_xColBar.c	Thu Jun 21 07:33:48 2007
 +++ afni-latest/files/patch-SUMA-SUMA_xColBar.c	Wed Dec 31 18:00:00 1969
 @@ -1,26 +0,0 @@
 ---- SUMA/SUMA_xColBar.c.orig	Wed Jun  6 12:42:16 2007
 -+++ SUMA/SUMA_xColBar.c	Wed Jun  6 12:43:42 2007
 -@@ -4087,6 +4087,15 @@
 -          NULL);
 -       
 -       /* open me a glxarea */
 -+      #ifdef SUMA_MOTIF_GLXAREA
 -+         SO->SurfCont->cmp_ren->cmap_wid = XtVaCreateManagedWidget("glxarea",
 -+             glwMDrawingAreaWidgetClass, rcc2,
 -+             GLwNvisualInfo, SUMAg_SVv[0].X->VISINFO,
 -+             XtNcolormap, SUMAg_SVv[0].X->CMAP,
 -+             XmNwidth,   SUMA_CMAP_WIDTH,
 -+             XmNheight,  SUMA_CMAP_HEIGHT,
 -+             NULL);
 -+      #else
 -       SO->SurfCont->cmp_ren->cmap_wid = XtVaCreateManagedWidget("glxarea",
 -                                           glwDrawingAreaWidgetClass, rcc2,
 -                                           GLwNvisualInfo, SUMAg_SVv[0].X->VISINFO,
 -@@ -4094,6 +4103,7 @@
 -                                           XmNwidth,   SUMA_CMAP_WIDTH,
 -                                           XmNheight,  SUMA_CMAP_HEIGHT,
 -                                           NULL);
 -+      #endif
 - 
 -       XtManageChild (rcc2);
 -       
 diff -ruN /usr/ports/science/afni/pkg-descr afni-latest/pkg-descr
 --- /usr/ports/science/afni/pkg-descr	Sun Sep 24 13:24:08 2006
 +++ afni-latest/pkg-descr	Thu Jan 24 14:33:53 2008
 @@ -2,6 +2,6 @@
  a tool for analyzing 3 dimensional images, especially functional MRI
  images used in brain mapping research.
  
 -WWW: http://afni.nimh.nih.gov/
 +WWW: http://www.neuro.mcw.edu/Ports
  
  -- Jason W. Bacon <bacon@smithers.neuro.mcw.edu>
 diff -ruN /usr/ports/science/afni/pkg-message afni-latest/pkg-message
 --- /usr/ports/science/afni/pkg-message	Thu Jun 21 07:33:48 2007
 +++ afni-latest/pkg-message	Thu Aug 16 13:10:18 2007
 @@ -10,6 +10,8 @@
  
  http://afni.nimh.nih.gov.
  
 +SUMA requires the nvidia graphics driver or DRI.
 +
  For large 3dDeconvolve analyses, you may need to increase the shared
  memory limit on your system.  For instructions, visit
  
 diff -ruN /usr/ports/science/afni/pkg-plist afni-latest/pkg-plist
 --- /usr/ports/science/afni/pkg-plist	Thu Jun 21 07:33:48 2007
 +++ afni-latest/pkg-plist	Wed Jan  2 11:13:02 2008
 @@ -1,3 +1,4 @@
 +bin/1dFlagMotion
  bin/1dMarry
  bin/1dSEM
  bin/1dcat
 @@ -38,6 +39,7 @@
  bin/3dCM
  bin/3dCRUISEtoAFNI
  bin/3dClipLevel
 +bin/3dClustBust
  bin/3dConvolve
  bin/3dDFT
  bin/3dDTeig
 @@ -58,6 +60,7 @@
  bin/3dIntracranial
  bin/3dInvFMRI
  bin/3dKruskalWallis
 +bin/3dLME.R
  bin/3dLRflip
  bin/3dLocalBistat
  bin/3dLocalstat
 @@ -88,6 +91,7 @@
  bin/3dTqual
  bin/3dTshift
  bin/3dTsmooth
 +bin/3dTsort
  bin/3dTstat
  bin/3dTwotoComplex
  bin/3dUndump
 @@ -133,6 +137,7 @@
  bin/3dresample
  bin/3dretroicor
  bin/3drotate
 +bin/3dsvm
  bin/3dttest
  bin/3dvolreg
  bin/4swap
 @@ -146,6 +151,8 @@
  bin/@CommandGlobb
  bin/@DTI_studio_reposition
  bin/@DoPerRoi.py
 +bin/@DriveAfni
 +bin/@DriveSuma
  bin/@FindAfniDsetPath
  bin/@FromRAI
  bin/@GetAfniID
 @@ -157,9 +164,11 @@
  bin/@Purify_1D
  bin/@RenamePanga
  bin/@SUMA_AlignToExperiment
 +bin/@SUMA_FSvolToBRIK
  bin/@SUMA_Make_Spec_Caret
  bin/@SUMA_Make_Spec_FS
  bin/@SUMA_Make_Spec_SF
 +bin/@SurfSmooth.HEAT_07.examples
  bin/@ToRAI
  bin/@UpdateAfni
  bin/@VolCenter
 @@ -170,6 +179,7 @@
  bin/@escape-
  bin/@fix_FSsphere
  bin/@float_fix
 +bin/@isOblique
  bin/@make_stim_file
  bin/@np
  bin/@parse_afni_name
 @@ -199,6 +209,7 @@
  bin/SUMA_pixmap2eps
  bin/SampBias
  bin/ScaleToMap
 +bin/Surf2VolCoord
  bin/SurfClust
  bin/SurfDsetInfo
  bin/SurfInfo
 @@ -215,6 +226,7 @@
  bin/afni_abut
  bin/afni_base.py
  bin/afni_proc.py
 +bin/afni_run_R
  bin/afni_util.py
  bin/afni_vcheck
  bin/aiv
 @@ -249,6 +261,7 @@
  bin/imstat
  bin/imupsam
  bin/inspec
 +bin/io.R
  bin/make_stim_times.py
  bin/mayo_analyze
  bin/mritopgm
 @@ -309,6 +322,7 @@
  lib/afni/libvolpack.a
  lib/afni/model_beta.so
  lib/afni/model_constant.so
 +lib/afni/model_conv_diffgamma.so
  lib/afni/model_convgamma.so
  lib/afni/model_convgamma2a.so
  lib/afni/model_demri_3.so
 @@ -330,6 +344,7 @@
  lib/afni/plug_3Ddump_V2.so
  lib/afni/plug_3ddot.so
  lib/afni/plug_3ddup.so
 +lib/afni/plug_3dsvm.so
  lib/afni/plug_4Ddump.so
  lib/afni/plug_L1fit.so
  lib/afni/plug_betafit.so
 @@ -346,6 +361,7 @@
  lib/afni/plug_fourier.so
  lib/afni/plug_hemisub.so
  lib/afni/plug_histog.so
 +lib/afni/plug_histog_multi.so
  lib/afni/plug_imreg.so
  lib/afni/plug_lsqfit.so
  lib/afni/plug_maskave.so
 @@ -391,6 +407,7 @@
  %%DATADIR%%/TT_N27_EZ_ML+tlrc.HEAD
  %%DATADIR%%/TTatlas+tlrc.BRIK.gz
  %%DATADIR%%/TTatlas+tlrc.HEAD
 +%%DATADIR%%/face_AuroraRamos.jpg
  %%DATADIR%%/face_JimEliassen.jpg
  %%DATADIR%%/face_JohannaBaas.jpg
  %%DATADIR%%/face_SalloumJB.jpg
 @@ -401,11 +418,13 @@
  %%DATADIR%%/face_agoldman.jpg
  %%DATADIR%%/face_ahammett.jpg
  %%DATADIR%%/face_alexandrakofinis.jpg
 +%%DATADIR%%/face_alexmartin.jpg
  %%DATADIR%%/face_anewmanetal.jpg
  %%DATADIR%%/face_anugent.jpg
  %%DATADIR%%/face_asanders.jpg
  %%DATADIR%%/face_ashackman.jpg
  %%DATADIR%%/face_athomas.jpg
 +%%DATADIR%%/face_avovk.jpg
  %%DATADIR%%/face_aysesaygin.jpg
  %%DATADIR%%/face_bandettini.jpg
  %%DATADIR%%/face_barbaracd.jpg
 @@ -415,20 +434,24 @@
  %%DATADIR%%/face_bmcnamee.jpg
  %%DATADIR%%/face_bodurka.jpg
  %%DATADIR%%/face_bprogers.jpg
 +%%DATADIR%%/face_brianna.jpg
  %%DATADIR%%/face_bridget.jpg
  %%DATADIR%%/face_brodmann.jpg
  %%DATADIR%%/face_browndyke.jpg
  %%DATADIR%%/face_carol.jpg
  %%DATADIR%%/face_cbikle.jpg
 +%%DATADIR%%/face_ccss.jpg
  %%DATADIR%%/face_claudio.jpg
  %%DATADIR%%/face_cmoritz.jpg
  %%DATADIR%%/face_cmyers.jpg
 +%%DATADIR%%/face_connorbandettini.jpg
  %%DATADIR%%/face_craigstark.jpg
  %%DATADIR%%/face_cscholl.jpg
  %%DATADIR%%/face_csenior.jpg
  %%DATADIR%%/face_cwettig.jpg
  %%DATADIR%%/face_daveperlman.jpg
  %%DATADIR%%/face_dglen.jpg
 +%%DATADIR%%/face_drewbeauchamp.jpg
  %%DATADIR%%/face_einstein.jpg
  %%DATADIR%%/face_eli.jpg
  %%DATADIR%%/face_erinskinner.jpg
 @@ -451,6 +474,7 @@
  %%DATADIR%%/face_ibitter.jpg
  %%DATADIR%%/face_ilevy.jpg
  %%DATADIR%%/face_imukai.jpg
 +%%DATADIR%%/face_jaehun.jpg
  %%DATADIR%%/face_jbacon.jpg
  %%DATADIR%%/face_jbinder.jpg
  %%DATADIR%%/face_jbjork.jpg
 @@ -464,10 +488,12 @@
  %%DATADIR%%/face_kkwong.jpg
  %%DATADIR%%/face_kropella.jpg
  %%DATADIR%%/face_kschreiber.jpg
 +%%DATADIR%%/face_ksimonyan.jpg
  %%DATADIR%%/face_kuba.jpg
  %%DATADIR%%/face_kylesimmons.jpg
  %%DATADIR%%/face_lask.jpg
  %%DATADIR%%/face_laura.jpg
 +%%DATADIR%%/face_lfrank.jpg
  %%DATADIR%%/face_lincoln1.jpg
  %%DATADIR%%/face_lincoln2.jpg
  %%DATADIR%%/face_lindachao.jpg
 @@ -493,7 +519,9 @@
  %%DATADIR%%/face_mruppe.jpg
  %%DATADIR%%/face_mscohen.jpg
  %%DATADIR%%/face_notspm.jpg
 +%%DATADIR%%/face_patbedard.jpg
  %%DATADIR%%/face_pchristidis.jpg
 +%%DATADIR%%/face_phineasgage.jpg
  %%DATADIR%%/face_phoebechan.jpg
  %%DATADIR%%/face_prowser.jpg
  %%DATADIR%%/face_psfb.jpg
 @@ -508,24 +536,28 @@
  %%DATADIR%%/face_rjsquirrel.jpg
  %%DATADIR%%/face_rprost.jpg
  %%DATADIR%%/face_rreynolds.jpg
 +%%DATADIR%%/face_rsaad.jpg
  %%DATADIR%%/face_rwcox.jpg
  %%DATADIR%%/face_rwcox2.jpg
  %%DATADIR%%/face_rwcox3.jpg
  %%DATADIR%%/face_rwcox4.jpg
  %%DATADIR%%/face_rwcox5.jpg
  %%DATADIR%%/face_rwcox6.jpg
 +%%DATADIR%%/face_rwcox7.jpg
  %%DATADIR%%/face_saccanch.jpg
  %%DATADIR%%/face_sjapee.jpg
  %%DATADIR%%/face_skammy.jpg
  %%DATADIR%%/face_skapdoskar.jpg
  %%DATADIR%%/face_sknoonan.jpg
  %%DATADIR%%/face_smarrett.jpg
 +%%DATADIR%%/face_smlaconte.jpg
  %%DATADIR%%/face_ssaad.jpg
  %%DATADIR%%/face_ssmall.jpg
  %%DATADIR%%/face_steverao.jpg
  %%DATADIR%%/face_sumabucks.jpg
  %%DATADIR%%/face_tieshan.jpg
  %%DATADIR%%/face_tolkien.jpg
 +%%DATADIR%%/face_tomholroyd.jpg
  %%DATADIR%%/face_vdcosta.jpg
  %%DATADIR%%/face_vhradil.jpg
  %%DATADIR%%/face_vincent1.jpg
 @@ -537,7 +569,9 @@
  %%DATADIR%%/face_wapostman2.jpg
  %%DATADIR%%/face_wmluh.jpg
  %%DATADIR%%/face_wpostman.jpg
 +%%DATADIR%%/face_xinianzuo.jpg
  %%DATADIR%%/face_zsaad.jpg
 +%%DATADIR%%/face_zsaad2.jpg
  %%DATADIR%%/face_zzzdini.jpg
  %%DATADIR%%/face_zzzsunbrain.jpg
  %%DATADIR%%/poem_bj1.txt
 @@ -555,16 +589,36 @@
  %%DATADIR%%/poem_rls1.txt
  %%DATADIR%%/poem_ww1.txt
  %%DATADIR%%/poem_ww2.txt
 +%%DATADIR%%/splash_afnisuma.jpg
 +%%DATADIR%%/splash_angkorwat.jpg
 +%%DATADIR%%/splash_birds.jpg
  %%DATADIR%%/splash_bobkarl.jpg
 +%%DATADIR%%/splash_bonampak.jpg
 +%%DATADIR%%/splash_chichen.jpg
  %%DATADIR%%/splash_earth.jpg
 +%%DATADIR%%/splash_elephant.jpg
  %%DATADIR%%/splash_emars.jpg
 +%%DATADIR%%/splash_joesun.jpg
  %%DATADIR%%/splash_kebb.jpg
 +%%DATADIR%%/splash_machu.jpg
 +%%DATADIR%%/splash_malbork.jpg
  %%DATADIR%%/splash_marsalbor.jpg
  %%DATADIR%%/splash_mcw03.jpg
 +%%DATADIR%%/splash_mtyale.jpg
 +%%DATADIR%%/splash_palenque.jpg
 +%%DATADIR%%/splash_pisa.jpg
 +%%DATADIR%%/splash_seoul.jpg
  %%DATADIR%%/splash_sscc03.jpg
  %%DATADIR%%/splash_sscc2006.jpg
 +%%DATADIR%%/splash_themaze.jpg
 +%%DATADIR%%/splash_titicaca.jpg
 +%%DATADIR%%/splash_todaiji.jpg
  %%DATADIR%%/splash_vincent.jpg
 +%%DATADIR%%/splash_wall.jpg
 +%%DATADIR%%/splash_wutaishan.jpg
 +%%DATADIR%%/splash_xian.jpg
  %%PORTDOCS%%%%DOCSDIR%%/README.Ifile
 +%%PORTDOCS%%%%DOCSDIR%%/README.atlas_building
  %%PORTDOCS%%%%DOCSDIR%%/README.attributes
  %%PORTDOCS%%%%DOCSDIR%%/README.bzip2
  %%PORTDOCS%%%%DOCSDIR%%/README.changes
 
 --------------030505060304060808040209--
State-Changed-From-To: feedback->closed 
State-Changed-By: tabthorpe 
State-Changed-When: Mon Jan 28 16:42:34 UTC 2008 
State-Changed-Why:  
Committed, with minor changes. Thanks! 

http://www.freebsd.org/cgi/query-pr.cgi?pr=119961 

From: dfilter@FreeBSD.ORG (dfilter service)
To: bug-followup@FreeBSD.org
Cc:  
Subject: Re: ports/119961: commit references a PR
Date: Mon, 28 Jan 2008 16:42:10 +0000 (UTC)

 tabthorpe    2008-01-28 16:42:02 UTC
 
   FreeBSD ports repository
 
   Modified files:
     science/afni         Makefile distinfo pkg-descr pkg-message 
                          pkg-plist 
     science/afni/files   patch-Makefile.INCLUDE 
   Removed files:
     science/afni/files   patch-SUMA-SUMA_display.c 
                          patch-SUMA-SUMA_xColBar.c 
   Log:
   - Update to 2008.01.02.1043
   
   PR:             ports/119961
   Submitted by:   Jason Bacon <bacon smithers.neuro.mcw.edu> (maintainer)
   
   Revision  Changes    Path
   1.14      +14 -13    ports/science/afni/Makefile
   1.9       +18 -15    ports/science/afni/distinfo
   1.2       +13 -3     ports/science/afni/files/patch-Makefile.INCLUDE
   1.2       +0 -53     ports/science/afni/files/patch-SUMA-SUMA_display.c (dead)
   1.2       +0 -26     ports/science/afni/files/patch-SUMA-SUMA_xColBar.c (dead)
   1.3       +1 -1      ports/science/afni/pkg-descr
   1.4       +2 -0      ports/science/afni/pkg-message
   1.7       +54 -0     ports/science/afni/pkg-plist
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>Unformatted:
