ports/97404: [maintainer update] science/afni update
Jason Bacon
bacon at smithers.neuro.mcw.edu
Wed May 17 16:01:04 UTC 2006
>Number: 97404
>Category: ports
>Synopsis: [maintainer update] science/afni update
>Confidential: no
>Severity: non-critical
>Priority: medium
>Responsible: freebsd-ports-bugs
>State: open
>Quarter:
>Keywords:
>Date-Required:
>Class: maintainer-update
>Submitter-Id: current-users
>Arrival-Date: Wed May 17 16:00:40 GMT 2006
>Closed-Date:
>Last-Modified:
>Originator: Jason Bacon
>Release: FreeBSD 5.4-RELEASE i386
>Organization:
Medical College of Wisconsin
>Environment:
System: FreeBSD smithers.neuro.mcw.edu 5.4-RELEASE FreeBSD 5.4-RELEASE #2: Wed Aug 24 14:54:53 CDT 2005 bacon at clone.neuro.mcw.edu:/usr/obj/usr/src/sys/clone i386
>Description:
Update science/afni to new version of software.
>How-To-Repeat:
>Fix:
diff -ruN /usr/ports/science/afni/Makefile afni/Makefile
--- /usr/ports/science/afni/Makefile Sat Apr 15 13:24:01 2006
+++ afni/Makefile Thu May 4 12:16:03 2006
@@ -3,7 +3,7 @@
# Date created: 11 Jan 2005
# Whom: bacon at smithers.neuro.mcw.edu
#
-# $FreeBSD: ports/science/afni/Makefile,v 1.5 2006/04/15 18:24:01 arved Exp $
+# $FreeBSD: ports/science/afni/Makefile,v 1.4 2006/02/13 10:24:18 vd Exp $
#
############################################################################
@@ -16,13 +16,14 @@
# Makefile.BSD, which is included in the source distribution.
PORTNAME= afni
-PORTVERSION= 2005.12.30.0934.2
+PORTVERSION= 2006.03.21.1314
CATEGORIES= science biology graphics
-MASTER_SITES= http://www.neuro.mcw.edu/~bacon/Ports/distfiles/AFNI/${PORTVERSION}/
-DISTFILES= afni_src.tgz afni_doc.tgz afni.1 \
- Makefile.FreeBSD_PORT TTatlas+tlrc.BRIK.gz TTatlas+tlrc.HEAD
+MASTER_SITES= http://afni.nimh.nih.gov/pub/dist/tgz/ \
+ http://www.neuro.mcw.edu/~bacon/Ports/distfiles/AFNI/${PORTVERSION}/
+DISTFILES= afni_src.tgz afni_doc.tgz afni.1 Makefile.FreeBSD_PORT \
+ TTatlas+tlrc.BRIK.gz TTatlas+tlrc.HEAD CA_EZ_v1.3b-Mar1506.tgz
DIST_SUBDIR= AFNI-${PORTVERSION}
-EXTRACT_ONLY= afni_src.tgz afni_doc.tgz
+EXTRACT_ONLY= afni_src.tgz afni_doc.tgz CA_EZ_v1.3b-Mar1506.tgz
MAINTAINER= bacon at smithers.neuro.mcw.edu
COMMENT= Advanced Functional Neuro Imaging
@@ -35,7 +36,8 @@
RUN_DEPENDS= cjpeg:${PORTSDIR}/graphics/jpeg \
mpeg_encode:${PORTSDIR}/multimedia/mpeg_encode \
- whirlgif:${PORTSDIR}/graphics/whirlgif
+ whirlgif:${PORTSDIR}/graphics/whirlgif \
+ ppmtogif:${PORTSDIR}/graphics/netpbm
USE_GETTEXT= yes
USE_GMAKE= yes
@@ -85,9 +87,11 @@
@clip_volume \
@fix_FSsphere \
@make_stim_file \
+ @np \
@parse_afni_name \
@parse_name \
- suma_change_spec \
+ 3dMax \
+ suma_change_spec
PLIST_FILES+= ${SCRIPTS:S|^|bin/|}
@@ -122,6 +126,7 @@
.endfor
${INSTALL_PROGRAM} ${INSTALL_WRKSRC}/* ${PREFIX}/bin
${INSTALL_DATA} ${DISTDIR}/${DIST_SUBDIR}/TTatlas* ${DATADIR}
+ ${INSTALL_DATA} ${WRKDIR}/CA_EZ_v1.3b-Mar1506/* ${DATADIR}
${INSTALL_MAN} ${DISTDIR}/${DIST_SUBDIR}/afni.1 ${PREFIX}/man/man1
@${MV} ${INSTALL_TEMP}/* ${INSTALL_WRKSRC}
.if !defined(NOPORTDOCS)
diff -ruN /usr/ports/science/afni/distinfo afni/distinfo
--- /usr/ports/science/afni/distinfo Sat Apr 15 13:24:01 2006
+++ afni/distinfo Wed May 17 10:42:08 2006
@@ -1,18 +1,21 @@
-MD5 (AFNI-2005.12.30.0934.2/afni_src.tgz) = 3c711d3ba5295953f0e8acbb3062ab65
-SHA256 (AFNI-2005.12.30.0934.2/afni_src.tgz) = a7341ffa0f8725cd0c7bc3bd9ccb097d05ec5d56b60f92037a5f8a5e0d0e6316
-SIZE (AFNI-2005.12.30.0934.2/afni_src.tgz) = 10863304
-MD5 (AFNI-2005.12.30.0934.2/afni_doc.tgz) = 3b085de85fc46908652ae287d1cceb38
-SHA256 (AFNI-2005.12.30.0934.2/afni_doc.tgz) = 28bfcb085d97f63a7e6b753d784908d7f90d9d3ba735d96b18c1e893af4d6cd1
-SIZE (AFNI-2005.12.30.0934.2/afni_doc.tgz) = 3267095
-MD5 (AFNI-2005.12.30.0934.2/afni.1) = 39c9a1a39b207cd957f0f0d5ec220e4e
-SHA256 (AFNI-2005.12.30.0934.2/afni.1) = f14991934a8b78f2497cd1d0f48b849c1a6debef01c666eafd70993ba63c99da
-SIZE (AFNI-2005.12.30.0934.2/afni.1) = 1103
-MD5 (AFNI-2005.12.30.0934.2/Makefile.FreeBSD_PORT) = 77fd9306b8e5c73c555edcf04aeaf562
-SHA256 (AFNI-2005.12.30.0934.2/Makefile.FreeBSD_PORT) = f29118dbe49cc95de62a6b3ca2b31cfae0017247854d764dc5e0069ed58f589b
-SIZE (AFNI-2005.12.30.0934.2/Makefile.FreeBSD_PORT) = 3101
-MD5 (AFNI-2005.12.30.0934.2/TTatlas+tlrc.BRIK.gz) = f5a107b049bc426af5342565f4e5beee
-SHA256 (AFNI-2005.12.30.0934.2/TTatlas+tlrc.BRIK.gz) = 0b5b087006e07e05c5f0c8306acaade955924f744457cec0c00844cc2e9e67cd
-SIZE (AFNI-2005.12.30.0934.2/TTatlas+tlrc.BRIK.gz) = 159912
-MD5 (AFNI-2005.12.30.0934.2/TTatlas+tlrc.HEAD) = a0ca787a2996d7e66548176808503ac5
-SHA256 (AFNI-2005.12.30.0934.2/TTatlas+tlrc.HEAD) = 51c3fb158990616f355fea56886fc7c85d80ac96779f5a65a8f69207c2a85919
-SIZE (AFNI-2005.12.30.0934.2/TTatlas+tlrc.HEAD) = 1750
+MD5 (AFNI-2006.03.21.1314/afni_src.tgz) = 8af3ae355ba30d802ebc60a826ee5f6c
+SHA256 (AFNI-2006.03.21.1314/afni_src.tgz) = 74a991f8689d4e717956d292552cb300fa574e33819941b7719b3390f9c9bfc3
+SIZE (AFNI-2006.03.21.1314/afni_src.tgz) = 10931595
+MD5 (AFNI-2006.03.21.1314/afni_doc.tgz) = 3b085de85fc46908652ae287d1cceb38
+SHA256 (AFNI-2006.03.21.1314/afni_doc.tgz) = 28bfcb085d97f63a7e6b753d784908d7f90d9d3ba735d96b18c1e893af4d6cd1
+SIZE (AFNI-2006.03.21.1314/afni_doc.tgz) = 3267095
+MD5 (AFNI-2006.03.21.1314/afni.1) = 39c9a1a39b207cd957f0f0d5ec220e4e
+SHA256 (AFNI-2006.03.21.1314/afni.1) = f14991934a8b78f2497cd1d0f48b849c1a6debef01c666eafd70993ba63c99da
+SIZE (AFNI-2006.03.21.1314/afni.1) = 1103
+MD5 (AFNI-2006.03.21.1314/Makefile.FreeBSD_PORT) = 77fd9306b8e5c73c555edcf04aeaf562
+SHA256 (AFNI-2006.03.21.1314/Makefile.FreeBSD_PORT) = f29118dbe49cc95de62a6b3ca2b31cfae0017247854d764dc5e0069ed58f589b
+SIZE (AFNI-2006.03.21.1314/Makefile.FreeBSD_PORT) = 3101
+MD5 (AFNI-2006.03.21.1314/TTatlas+tlrc.BRIK.gz) = f5a107b049bc426af5342565f4e5beee
+SHA256 (AFNI-2006.03.21.1314/TTatlas+tlrc.BRIK.gz) = 0b5b087006e07e05c5f0c8306acaade955924f744457cec0c00844cc2e9e67cd
+SIZE (AFNI-2006.03.21.1314/TTatlas+tlrc.BRIK.gz) = 159912
+MD5 (AFNI-2006.03.21.1314/TTatlas+tlrc.HEAD) = a0ca787a2996d7e66548176808503ac5
+SHA256 (AFNI-2006.03.21.1314/TTatlas+tlrc.HEAD) = 51c3fb158990616f355fea56886fc7c85d80ac96779f5a65a8f69207c2a85919
+SIZE (AFNI-2006.03.21.1314/TTatlas+tlrc.HEAD) = 1750
+MD5 (AFNI-2006.03.21.1314/CA_EZ_v1.3b-Mar1506.tgz) = a66e4abb3385878a945351e761d12723
+SHA256 (AFNI-2006.03.21.1314/CA_EZ_v1.3b-Mar1506.tgz) = c9e884370a1580b1101c01f44cc76f81fc0fd64af7796b76762091ee9de4feed
+SIZE (AFNI-2006.03.21.1314/CA_EZ_v1.3b-Mar1506.tgz) = 2645818
diff -ruN /usr/ports/science/afni/pkg-message afni/pkg-message
--- /usr/ports/science/afni/pkg-message Wed Dec 31 18:00:00 1969
+++ afni/pkg-message Fri Jan 6 09:49:01 2006
@@ -0,0 +1,21 @@
+=============================================================================
+Users must have ${PREFIX}/${AFNI}/bin in their PATH in order
+to run programs in the AFNI distribution.
+
+Documentation can be found in ${PREFIX}/${AFNI}/afni_doc.
+
+The environment variable AFNI_PLUGIN_PATH must also be set to
+${PREFIX}/${AFNI}/bin in order to run AFNI plugins.
+
+Each user is advised to create a .afnirc file in their home directory
+to customize settings.
+
+For questions or comments regarding the FreeBSD port, please contact the
+port maintainer:
+
+bacon at smithers.neuro.mcw.edu
+
+For AFNI configuration and usage, please visit the AFNI WEB site at
+
+http://afni.nimh.nih.gov.
+=============================================================================
diff -ruN /usr/ports/science/afni/pkg-plist afni/pkg-plist
--- /usr/ports/science/afni/pkg-plist Sat Apr 15 13:24:01 2006
+++ afni/pkg-plist Thu May 4 12:24:31 2006
@@ -3,6 +3,7 @@
bin/1deval
bin/1dfft
bin/1dgrayplot
+bin/1dmatcalc
bin/1dnorm
bin/1dplot
bin/1dsum
@@ -11,7 +12,6 @@
bin/24swap
bin/2dImReg
bin/2swap
-bin/3T_toafni
bin/3dAFNIto3D
bin/3dAFNItoANALYZE
bin/3dAFNItoMINC
@@ -29,6 +29,7 @@
bin/3dAutobox
bin/3dAutomask
bin/3dBRAIN_VOYAGERtoAFNI
+bin/3dBrickStat
bin/3dCM
bin/3dCRUISEtoAFNI
bin/3dClipLevel
@@ -47,12 +48,12 @@
bin/3dFriedman
bin/3dGetrow
bin/3dIntracranial
+bin/3dInvFMRI
bin/3dKruskalWallis
bin/3dLRflip
bin/3dLocalstat
bin/3dMINCtoAFNI
bin/3dMannWhitney
-bin/3dMax
bin/3dMean
bin/3dMedianFilter
bin/3dNLfim
@@ -76,6 +77,7 @@
bin/3dTshift
bin/3dTsmooth
bin/3dTstat
+bin/3dTwotoComplex
bin/3dUndump
bin/3dUniformize
bin/3dVol2Surf
@@ -106,6 +108,7 @@
bin/3dinfo
bin/3dmaskave
bin/3dmaskdump
+bin/3dmatcalc
bin/3dmaxima
bin/3dmerge
bin/3dnewid
@@ -309,6 +312,18 @@
lib/plug_volreg.so
lib/plug_wavelets.so
lib/plug_zeropad.so
+%%DATADIR%%/Dist_Stamp
+%%DATADIR%%/Readme_dist
+%%DATADIR%%/TT_N27+tlrc.BRIK.gz
+%%DATADIR%%/TT_N27+tlrc.HEAD
+%%DATADIR%%/TT_N27_CA_EZ_MPM+tlrc.BRIK.gz
+%%DATADIR%%/TT_N27_CA_EZ_MPM+tlrc.HEAD
+%%DATADIR%%/TT_N27_CA_EZ_PMaps+tlrc.BRIK.gz
+%%DATADIR%%/TT_N27_CA_EZ_PMaps+tlrc.HEAD
+%%DATADIR%%/TT_N27_EZ_LR+tlrc.BRIK.gz
+%%DATADIR%%/TT_N27_EZ_LR+tlrc.HEAD
+%%DATADIR%%/TT_N27_EZ_ML+tlrc.BRIK.gz
+%%DATADIR%%/TT_N27_EZ_ML+tlrc.HEAD
%%DATADIR%%/TTatlas+tlrc.BRIK.gz
%%DATADIR%%/TTatlas+tlrc.HEAD
%%DATADIR%%/face_JimEliassen.jpg
@@ -341,6 +356,7 @@
%%DATADIR%%/face_claudio.jpg
%%DATADIR%%/face_cmoritz.jpg
%%DATADIR%%/face_cmyers.jpg
+%%DATADIR%%/face_cscholl.jpg
%%DATADIR%%/face_csenior.jpg
%%DATADIR%%/face_cwettig.jpg
%%DATADIR%%/face_dglen.jpg
@@ -376,11 +392,13 @@
%%DATADIR%%/face_kropella.jpg
%%DATADIR%%/face_kschreiber.jpg
%%DATADIR%%/face_kuba.jpg
+%%DATADIR%%/face_kylesimmons.jpg
%%DATADIR%%/face_lask.jpg
%%DATADIR%%/face_laura.jpg
%%DATADIR%%/face_lincoln1.jpg
%%DATADIR%%/face_lincoln2.jpg
%%DATADIR%%/face_lindachao.jpg
+%%DATADIR%%/face_lisaeyler.jpg
%%DATADIR%%/face_lizyoder.jpg
%%DATADIR%%/face_ljcox.jpg
%%DATADIR%%/face_llatour.jpg
>Release-Note:
>Audit-Trail:
>Unformatted:
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