diff options
| -rw-r--r-- | science/afni/Makefile | 159 | ||||
| -rw-r--r-- | science/afni/distinfo | 5 | ||||
| -rw-r--r-- | science/afni/files/Makefile | 8 | ||||
| -rw-r--r-- | science/afni/files/patch-Makefile.INCLUDE | 72 | ||||
| -rw-r--r-- | science/afni/files/patch-crorden_dcm2niix__console_makefile | 24 | ||||
| -rw-r--r-- | science/afni/files/patch-misc_math.c | 16 | ||||
| -rw-r--r-- | science/afni/files/patch-netcdf-3.5.0_src_configure | 4 | ||||
| -rw-r--r-- | science/afni/files/patch-prf__common__circular.c | 18 | ||||
| -rw-r--r-- | science/afni/pkg-descr | 6 | ||||
| -rw-r--r-- | science/afni/pkg-plist | 869 |
10 files changed, 702 insertions, 479 deletions
diff --git a/science/afni/Makefile b/science/afni/Makefile index 8744258258fe..393a627ad67e 100644 --- a/science/afni/Makefile +++ b/science/afni/Makefile @@ -1,28 +1,21 @@ # $FreeBSD$ -############################################################################ -# 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= 8 -CATEGORIES= science biology graphics -MASTER_SITES= http://www.acadix.biz/Ports/distfiles/ +PORTNAME= afni +DISTVERSIONPREFIX= AFNI_ +DISTVERSION= 19.1.08 +CATEGORIES= science biology graphics perl5 python MAINTAINER= jwb@FreeBSD.org COMMENT= Advanced Functional Neuro Imaging LICENSE= GPLv2 -BUILD_DEPENDS= gm4:devel/m4 +BROKEN_sparc64= Does not compile: "undefined reference to '_mcount'" + +BUILD_DEPENDS= gm4:devel/m4 \ + R:math/R LIB_DEPENDS= libexpat.so:textproc/expat2 \ libf2c.so:lang/f2c \ - libR.so:math/R \ libgsl.so:math/gsl \ libnetcdff.so:science/netcdf-fortran \ libxml2.so:textproc/libxml2 \ @@ -30,33 +23,32 @@ LIB_DEPENDS= libexpat.so:textproc/expat2 \ RUN_DEPENDS= endian:sysutils/endian \ mpeg_encode:multimedia/mpeg_encode \ ppmtogif:graphics/netpbm \ - qhull:math/qhull5 - -BROKEN_aarch64= fails to compile: suma_utils.c:3043:10: statement requires expression of scalar type -BROKEN_sparc64= fails to compile: undefined reference to '_mcount' - -CONFLICTS= im-[0-9]* \ - nifticlib-[0-9]* \ - open-usp-tukubai-[0-9]* + qhull:math/qhull5 \ + R:math/R -USES= gettext gmake iconv jpeg:run motif perl5 python shebangfix tar:xz -SHEBANG_FILES= suma_change_spec \ - 3dPAR2AFNI.pl \ - python_scripts/*.py \ - pkundu/meica.py \ - pkundu/meica.libs/*.py \ - pkundu/meica.libs/mdp/test/run_tests.py +USES= compiler:openmp gettext gl gmake gnome iconv jpeg:run motif \ + perl5 python shebangfix tar:xz USE_GNOME= glib20 +USE_GITHUB= yes + +SHEBANG_FILES= scripts_install/* \ + python_scripts/afni_python/*.py \ + jzosky/*.py \ + jzosky/lib_RetroTS/*.py \ + discoraj/ClusterExplorer/*.py \ + roopchansinghv/PsychoPy-NeuroFeedback-Demo/*.py \ + roopchansinghv/PsychoPy-NeuroFeedback-Demo/*/*.py \ + pkundu/*.py \ + pkundu/meica.libs/*.py \ + pkundu/meica.libs/*/*.py \ + pkundu/meica.libs/*/*/*.py -OPTIONS_DEFINE= DOCS - -.include <bsd.port.options.mk> - -USE_GL= gl glu glw +USE_GL= gl glu USE_XORG= x11 xext xi xmu xp xt MAKE_ENV= CC="${CC}" R_SHARE_DIR=${LOCALBASE}/lib/R/share MAKE_JOBS_UNSAFE=yes +WRKSRC_SUBDIR= src ALL_TARGET= vastness suma ########################################################################### @@ -65,8 +57,17 @@ ALL_TARGET= vastness suma SUB_FILES= pkg-message afni.cshrc afni.profile INSTALL_WRKSRC= ${WRKSRC}/BSD +INSTALL_TMP= ${INSTALL_WRKSRC}-temp PRESTAGE= ${WRKSRC}/prestage +OPTIONS_DEFINE= DOCS + +.include <bsd.port.options.mk> + +CONFLICTS= im-[0-9]* \ + nifticlib-[0-9]* \ + open-usp-tukubai-[0-9]* + X11R6_FILES= coxplot/Makefile \ coxplot/Makefile.f2c \ 3DEdge/src/Makefile \ @@ -86,21 +87,20 @@ post-extract: .endfor @${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: - ${REINPLACE_CMD} -e "s|-lglib|-lglib-2.0|g" \ +# @${REINPLACE_CMD} -e "s|/bin/python|${PYTHON_CMD}|g" \ +# ${WRKSRC}/python_scripts/afni_python/lib_fat_Rfactor.py + +pre-configure: + @${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\[0\])|"${PREFIX}/libexec"|g' \ + @${REINPLACE_CMD} \ + -e 's|os\.path\.dirname(sys\.argv\[0\])|"${DATADIR}"|g' \ ${WRKSRC}/pkundu/meica.py - ${REINPLACE_CMD} \ + @${REINPLACE_CMD} \ -e 's|g_info|afni_g_info|g' \ ${WRKSRC}/rickr/Dimon.c \ ${WRKSRC}/rickr/Dimon1.c \ @@ -111,53 +111,58 @@ post-patch: ${WRKSRC}/to3d.c \ ${WRKSRC}/mri_dicom_stuff.h -post-build: - ${MKDIR} ${PRESTAGE}/bin \ +do-install: + # AFNI install just dumps everything into one flat directory + # Preserve original install dir and make a sacrificial temp copy + # to be pruned and rearranged for easy staging + @${RM} -r ${INSTALL_TMP} + @${CP} -R ${INSTALL_WRKSRC} ${INSTALL_TMP} + + # Clean up and organize files into ${PRESTAGE}, destroying + # temp copy in the process + @${RM} -rf ${PRESTAGE} + @${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 \ - ${INSTALL_WRKSRC}/afnigui* \ + @${RM} ${INSTALL_TMP}/libf2c.a + @${MV} ${INSTALL_TMP}/meica.libs \ + ${INSTALL_TMP}/shiny \ + ${INSTALL_TMP}/lib_RetroTS \ + ${INSTALL_TMP}/afniInterfaceRT \ + ${INSTALL_TMP}/funstuff \ + ${INSTALL_TMP}/AFNI.*rc \ + ${INSTALL_TMP}/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 $$1 }'` ; do \ + @${MV} ${INSTALL_TMP}/*.a \ + ${INSTALL_TMP}/*.so \ + ${PRESTAGE}/lib + @${MV} ${INSTALL_TMP}/*.h ${PRESTAGE}/include + @${CP} ${WRKDIR}/afni-AFNI_${PORTVERSION}/doc/README/* ${PRESTAGE}/doc + @for binary in `${FILE} ${INSTALL_TMP}/* | fgrep 'ELF' | ${AWK} -F ':' ' { print $$1 }'` ; do \ ${MV} $${binary} ${PRESTAGE}/bin ; \ done - ${MV} ${INSTALL_WRKSRC}/* \ - ${PRESTAGE}/scripts - ${MV} ${PRESTAGE}/scripts/meica.libs ${PRESTAGE} + @${MV} ${INSTALL_TMP}/* ${PRESTAGE}/scripts -do-install: - ${MKDIR} ${STAGEDIR}${DATADIR} \ + # Install to STAGEDIR using proper ports tools + @${MKDIR} \ + ${STAGEDIR}${DATADIR} \ ${STAGEDIR}${PREFIX}/lib/afni \ - ${STAGEDIR}${PREFIX}/include/afni - for f in ${PRESTAGE}/lib/*; do \ - ${STRIP_CMD} $${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} + ${STAGEDIR}${PREFIX}/include/afni \ + ${STAGEDIR}${DOCSDIR} \ + ${STAGEDIR}${PREFIX}/etc/mri ${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_DATA} ${PRESTAGE}/lib/* ${STAGEDIR}${PREFIX}/lib/afni + ${INSTALL_DATA} ${PRESTAGE}/include/* ${STAGEDIR}${PREFIX}/include/afni + (cd ${PRESTAGE}/share && ${COPYTREE_SHARE} . ${STAGEDIR}${DATADIR}) ${INSTALL_SCRIPT} ${WRKDIR}/afni.cshrc ${WRKDIR}/afni.profile \ ${STAGEDIR}${PREFIX}/etc/mri +do-install-DOCS-on: + ${INSTALL_DATA} ${PRESTAGE}/doc/* ${STAGEDIR}${DOCSDIR} + .include <bsd.port.mk> diff --git a/science/afni/distinfo b/science/afni/distinfo index 95dcb05123df..ba5c91280c59 100644 --- a/science/afni/distinfo +++ b/science/afni/distinfo @@ -1,2 +1,3 @@ -SHA256 (afni-2015.11.13.tar.xz) = b8647ed2f522a520d90cbfd3da70d34849cec421678ff3baf0ecbb6e9e72414b -SIZE (afni-2015.11.13.tar.xz) = 48722840 +TIMESTAMP = 1557698397 +SHA256 (afni-afni-AFNI_19.1.08_GH0.tar.gz) = 15dcb04412c68e3ca2673eaf90cdd9bb26c1d23c09ed3346bf330ecbf18c4269 +SIZE (afni-afni-AFNI_19.1.08_GH0.tar.gz) = 38767080 diff --git a/science/afni/files/Makefile b/science/afni/files/Makefile index db7e4f4a4f40..9c6e28e2e4d4 100644 --- a/science/afni/files/Makefile +++ b/science/afni/files/Makefile @@ -100,11 +100,15 @@ LLIBS = -lmri -lf2c -lXm -lXp -lXpm -lXext -lXmu -lXt -lX11 -lm $(LZLIB) $(LGIF # vvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvvv # For suma (NO STATIC LINKING OF GL libs) -SUMA_INCLUDE_PATH = -I${LOCALBASE}/include/glib-2.0 -I${LOCALBASE}/lib/glib-2.0/include -I${LOCALBASE}/include -I./ -I../ -I../niml/ -Igts/src +# Use -IGLw_local and -lGLws to avert the following suma runtime error due +# to lack of extern modifier in GLwDrawA.h: +# ** ERROR: glwMDrawingAreaWidgetClass is NULL +# This may break if bundled GLw is not kept up-to-date, +SUMA_INCLUDE_PATH = -IGLw_local -I${LOCALBASE}/include/glib-2.0 -I${LOCALBASE}/lib/glib-2.0/include -I${LOCALBASE}/include -I./ -I../ -I../niml/ -Igts/src SUMA_LINK_PATH = -L/usr/lib -L${LOCALBASE}/lib -L../ #use -lGLw if you have libGLw.a or libGLw.so* or # -lMesaGLw if you have Mesa's version (libMesaGLw*) of libGLw -SUMA_LINK_LIB = -lXm -lGLw -lGLU -lGL -lXmu -lXp -lXt -lXext -lX11 -lm $(LZLIB) -lxml2 -lexpat +SUMA_LINK_LIB = -lXm -lGLws -lGLU -lGL -lXmu -lXp -lXt -lXext -lX11 -lm $(LZLIB) -lxml2 -lexpat SUMA_MAKEFILE_NAME = SUMA_Makefile SUMA_BIN_ARCHIVE = SUMA_FreeBSD.tar SUMA_GLIB_VER = -2.0 diff --git a/science/afni/files/patch-Makefile.INCLUDE b/science/afni/files/patch-Makefile.INCLUDE index 11cff7353590..adbfdb0f19f6 100644 --- a/science/afni/files/patch-Makefile.INCLUDE +++ b/science/afni/files/patch-Makefile.INCLUDE @@ -1,16 +1,16 @@ ---- Makefile.INCLUDE.orig 2015-11-06 21:25:04 UTC +--- Makefile.INCLUDE.orig 2019-05-10 21:23:56 UTC +++ Makefile.INCLUDE -@@ -50,7 +50,7 @@ MISC = AFNI_atlas_spaces.niml AFNI.Xd +@@ -64,7 +64,7 @@ MISC = AFNI_atlas_spaces.niml AFNI.Xdefaults AFNI.a ## 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 mycat quotize $(EXPROGS) -+EXTRAS = 3dClustBust whirlgif myget Xphace rmz aiv mycat quotize $(EXPROGS) ++EXTRAS = whirlgif myget Xphace rmz aiv mycat quotize $(EXPROGS) # mpegtoppm in above list -@@ -60,7 +60,7 @@ EXTRAS = cjpeg djpeg whirlgif mpeg_enc - PROGRAMS = afni to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge count \ +@@ -77,7 +77,7 @@ EXTRAS = cjpeg djpeg whirlgif mpeg_encode myget Xpha + PROGS_1 = afni to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge count \ sfim tfim ftosh 3dttest 3ddup imrotate imreg imstat 3dnvals \ fim2 imand FD2 sqwave immask imdump imaver 3dhistog 3dfim 3daxialize \ - cdf 2swap 4swap mritopgm 3dANOVA 3dANOVA2 3dANOVA3 plugout_tta \ @@ -18,7 +18,7 @@ waver 3dnewid 3dcalc ccalc imcalc 1dmatcalc 3drefit 3dbucket \ 3dNLfim 3dTSgen AlphaSim 3dFWHM plugout_tt 3dnoise plugout_ijk \ 3dMannWhitney 3dWilcoxon 3dKruskalWallis 3dFriedman 3dRegAna \ -@@ -72,7 +72,7 @@ PROGRAMS = afni to3d from3d abut 3dclust +@@ -90,7 +90,7 @@ PROGS_2 = 3dTshift 3dDetrend 1dfft 1dcat 3drename 1dn 3dWavelets 3dfim+ imcutup imcat 3dWinsor 3dZeropad 3dTagalign \ 3dMean 3dAttribute cat_matvec 3dOverlap 3dClipLevel 3dZregrid \ 3dEntropy 3ddelay ent16 3dRowFillin 1dgrayplot 3dToutcount 1dsum \ @@ -27,8 +27,8 @@ 3dTcorrelate 3dAnatNudge 3dcopy Vecwarp 3dMINCtoAFNI 3dCM fdrval \ 3dAFNItoANALYZE siemens_vision ge_header mayo_analyze 3dAFNItoNIFTI \ 3dAutoTcorrelate 3dFDR rtfeedme 3dAutomask 3dAFNItoMINC 3dBrickStat \ -@@ -92,7 +92,7 @@ PROGRAMS = afni to3d from3d abut 3dclust - 3dBlurInMask 3dRank 3dFFT 1dgenARMA11 3dPeriodogram 1dAstrip \ +@@ -112,7 +112,7 @@ PROGS_3 = 3dDeconvolve_f 3dAnhist 3dAFNIto3D 3dUnifor + PROGS_4 = 3dBlurInMask 3dRank 3dFFT 1dgenARMA11 3dPeriodogram 1dAstrip \ 3dLocalPV 3dBandpass 3dSetupGroupInCorr 3dGroupInCorr 3dTcorr1D \ 3dClustSim 3dRetinoPhase 3dMaskToASCII 3dttest++ 3dDTtoDWI \ - niccc rbox qdelaunay 3dkmeans 3dXYZcat 3dPolyfit 3dNwarpApply \ @@ -36,7 +36,7 @@ 1dCorrelate 3dCountSpikes 3dNwarpCalc dicom_hinfo apsearch 1dBport \ 3dNormalityTest 3dmask_tool FIRdesign help_format 2perm 3dClustCount \ column_cat 3dUnifize 3dNwarpCat 3dQwarp 3dLocalHistog 3dNwarpAdjust \ -@@ -104,7 +104,7 @@ PROGRAMS = afni to3d from3d abut 3dclust +@@ -138,7 +138,7 @@ PROGRAMS = $(PROGS_1) $(PROGS_2) $(PROGS_3) $(PROGS_4) PROGRAMS_NOPLUG = afni to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge \ sfim tfim ftosh 3dttest 3ddup imrotate imreg imstat 3dnoise count \ fim2 imand FD2 sqwave immask imdump imaver 3dhistog 3dfim imupsam \ @@ -45,7 +45,7 @@ waver 3dnewid 3dcalc ccalc imcalc 2dImReg 3dmaskave adwarp fdrval \ 3dMannWhitney 3dWilcoxon 3dKruskalWallis 3dFriedman 3dRegAna \ imstack byteorder 3dDeconvolve 3dTcat 3drotate 3dvolreg 1dplot \ -@@ -144,7 +144,7 @@ PROGRAMS_NOPLUG = afni to3d from3d abut +@@ -181,7 +181,7 @@ PROGRAMS_NOPLUG = afni to3d from3d abut 3dclust nsize PROGRAMS_EXE = afni.exe to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge \ sfim tfim ftosh 3dttest 3ddup imrotate imreg imstat 3dnvals count \ fim2 imand FD2 sqwave immask imdump imaver 3dhistog 3dfim 3dGetrow \ @@ -54,26 +54,25 @@ waver 3dnewid 3dcalc ccalc imcalc 1dmatcalc 3drefit 3dbucket \ 3dAFNItoNIML AlphaSim 3dFWHM plugout_tt 3dnoise plugout_ijk \ 3dMannWhitney 3dWilcoxon 3dKruskalWallis 3dFriedman 3dRegAna \ -@@ -276,7 +276,7 @@ prog_list: - echo "$(PROGRAMS) $(SCRIPTS) $(SUMA_PROGS) $(SUMA_GTS_PROGS) \ - $(PY_SCRIPTS)" | tr ' ' '\n' | LC_COLLATE=C sort | uniq \ - > ___prog_list.txt -- make -s -f ptaylor/Makefile.ptaylor.INCLUDE echo_progs | \ -+ $(MAKE) -s -f ptaylor/Makefile.ptaylor.INCLUDE echo_progs | \ - tr ' ' '\n' | LC_COLLATE=C sort | uniq >> ___prog_list.txt - cat ___prog_list.txt | LC_COLLATE=C sort | uniq >> prog_list.txt - \rm -f ___prog_list.txt -@@ -364,6 +364,9 @@ byteorder:byteorder.o - 3dbuc2fim:3dbuc2fim.o - $(CC) -o 3dbuc2fim 3dbuc2fim.o $(LFLAGS) $(LLIBS) +@@ -303,7 +303,7 @@ echo_progs: + prog_list_bin: + echo "$(PROGRAMS) $(SUMA_PROGS) $(SUMA_GTS_PROGS)" \ + | tr ' ' '\n' > ___plist_bin.txt +- make -s -f ptaylor/Makefile.ptaylor.INCLUDE echo_progs \ ++ $(MAKE) -s -f ptaylor/Makefile.ptaylor.INCLUDE echo_progs \ + | tr ' ' '\n' >> ___plist_bin.txt + cat ___plist_bin.txt | LC_COLLATE=C sort | uniq > prog_list_bin.txt + \rm -f ___plist_bin.txt +@@ -2884,7 +2884,7 @@ r_misc.o: rickr/r_misc.c rickr/r_misc.h -+3dClustBust:3dClustBust.c -+ $(CC) -o 3dClustBust 3dClustBust.c $(INFLAGS) $(LFLAGS) $(LLIBS) -+ - mritopgm:mritopgm.c - $(CC) -o mritopgm mritopgm.c $(INFLAGS) $(LFLAGS) $(LLIBS) + dcm2niix_afni: + ( cd crorden/dcm2niix_console ; \ +- make ; \ ++ $(MAKE) ; \ + $(MV) dcm2niix ../../dcm2niix_afni ; \ + cd ../../ ; ) -@@ -2728,8 +2731,8 @@ cjpeg: +@@ -3108,8 +3108,8 @@ libjpeg.a: $(MAKE) clean ; $(RM) Makefile ) libXmHTML.a: @@ -82,18 +81,19 @@ + ( cd XmHTML ; $(MAKE) lib 'CC=$(CC)' 'II=$(IFLAGS)' ; \ + $(MV) lib/libXmHTML.a .. ; $(MAKE) clean ) - thd_xwebber.o:thd_xwebber.c - $(CC) -c thd_xwebber.c -I./XmHTML/include $(INFLAGS) -@@ -3518,8 +3521,9 @@ toyR: toyR.c AFNI_embeddedRCall.o + xutil_webber.o:xutil_webber.c + $(CC) -c xutil_webber.c -I./XmHTML/include $(INFLAGS) +@@ -3920,9 +3920,10 @@ toyR: toyR.c AFNI_embeddedRCall.o #### - R_io.so:R_io.c libmri.a + R_io.so:R_io.c $(LIBMRI_OBJ) ( if which R >/dev/null ; then \ - echo PKG_CPPFLAGS = $(INFLAGS) > Makevars ;\ -- echo PKG_LIBS = $(LFLAGS) $(LLIBS) >> Makevars ;\ -- R CMD SHLIB R_io.c ; \ +- echo PKG_LIBS = $(LFLAGS) $(LLIBS) $(RLIB_CONVERT) >> Makevars ;\ +- R CMD SHLIB -o R_io.so R_io.c ; \ + echo PKG_CPPFLAGS = $(INFLAGS) -I${LOCALBASE}/lib/R/include > Makevars ;\ -+ echo PKG_LIBS = $(LFLAGS) $(LLIBS) -L${LOCALBASE}/lib/R/lib >> Makevars ;\ -+ # Fails because R uses 'make' instead of gmake R CMD SHLIB -n R_io.c; \ ++ echo PKG_LIBS = $(LFLAGS) $(LLIBS) $(RLIB_CONVERT) -L${LOCALBASE}/lib/R/lib >> Makevars ;\ ++ # Fails because R uses 'make' instead of gmake: R CMD SHLIB -n R_io.c; \ + $(MAKE) -f 'Makevars' -f '/usr/local/lib/R/etc/Makeconf' -f '/usr/local/lib/R/share/make/shlib.mk' SHLIB='R_io.so' OBJECTS='R_io.o';\ else echo WARNING: Cannot build R_io.so because R is not installed;\ fi ; ) + diff --git a/science/afni/files/patch-crorden_dcm2niix__console_makefile b/science/afni/files/patch-crorden_dcm2niix__console_makefile new file mode 100644 index 000000000000..c20e41c355ea --- /dev/null +++ b/science/afni/files/patch-crorden_dcm2niix__console_makefile @@ -0,0 +1,24 @@ +--- crorden/dcm2niix_console/makefile.orig 2019-05-12 14:54:20 UTC ++++ crorden/dcm2niix_console/makefile +@@ -1,8 +1,8 @@ + # Regular use +-CFLAGS=-s -O3 ++CXXFLAGS?=-s -O3 + + # Debugging +-#CFLAGS=-g ++#CXXFLAGS=-g + + #run "make" for default build + #run "JPEGLS=1 make" for JPEGLS build +@@ -14,8 +14,8 @@ endif + ifneq ($(OS),Windows_NT) + OS = $(shell uname) + ifeq "$(OS)" "Darwin" +- CFLAGS=-dead_strip -O3 ++ CXXFLAGS=-dead_strip -O3 + endif + endif + all: +- g++ $(CFLAGS) -I. $(JFLAGS) main_console.cpp nii_foreign.cpp nii_dicom.cpp jpg_0XC3.cpp ujpeg.cpp nifti1_io_core.cpp nii_ortho.cpp nii_dicom_batch.cpp -o dcm2niix -DmyDisableOpenJPEG ++ $(CXX) $(CXXFLAGS) -I. $(JFLAGS) main_console.cpp nii_foreign.cpp nii_dicom.cpp jpg_0XC3.cpp ujpeg.cpp nifti1_io_core.cpp nii_ortho.cpp nii_dicom_batch.cpp -o dcm2niix -DmyDisableOpenJPEG diff --git a/science/afni/files/patch-misc_math.c b/science/afni/files/patch-misc_math.c deleted file mode 100644 index 50623944f078..000000000000 --- a/science/afni/files/patch-misc_math.c +++ /dev/null @@ -1,16 +0,0 @@ ---- misc_math.c.orig 2015-11-06 21:25:08 UTC -+++ misc_math.c -@@ -1,6 +1,13 @@ - -+/* For older libm */ -+double log2(double n) -+{ -+ return log(n) / log(2.0); -+} -+ - /* move from Deconvolve.c into libmri.a 21 Jun 2010 [rickr] */ - -+ - double legendre( double x , int m ) /* Legendre polynomials over [-1,1] */ - { - if( m < 0 ) return 1.0 ; /* bad input */ diff --git a/science/afni/files/patch-netcdf-3.5.0_src_configure b/science/afni/files/patch-netcdf-3.5.0_src_configure index e7a491b4a1ac..2cea4c66380a 100644 --- a/science/afni/files/patch-netcdf-3.5.0_src_configure +++ b/science/afni/files/patch-netcdf-3.5.0_src_configure @@ -1,6 +1,6 @@ ---- netcdf-3.5.0/src/configure.orig 2015-11-06 21:25:09 UTC +--- netcdf-3.5.0/src/configure.orig 2019-05-10 21:23:56 UTC +++ netcdf-3.5.0/src/configure -@@ -933,10 +933,10 @@ echo "configure:928: checking for top-le +@@ -933,10 +933,10 @@ echo "configure:928: checking for top-level source-dir diff --git a/science/afni/files/patch-prf__common__circular.c b/science/afni/files/patch-prf__common__circular.c new file mode 100644 index 000000000000..cfcaf2d3f01d --- /dev/null +++ b/science/afni/files/patch-prf__common__circular.c @@ -0,0 +1,18 @@ +--- prf_common_circular.c.orig 2019-05-10 21:23:56 UTC ++++ prf_common_circular.c +@@ -318,8 +318,14 @@ static int show_malloc_stats(char * mesg) + + if( show_stats ) { + fprintf(stderr,"\n----- malloc stats: %s\n", mesg); +-#ifndef DARWIN ++#if defined(__linux__) + malloc_stats(); ++#elif defined(__FreeBSD__) ++ #include <stdlib.h> ++ #include <malloc_np.h> ++ malloc_stats_print(NULL, NULL, "g"); ++#else ++ fprintf(stderr, "No malloc_stats() on this platform.\n"); + #endif + } + diff --git a/science/afni/pkg-descr b/science/afni/pkg-descr index 0ea153f1f534..960c4832beb5 100644 --- a/science/afni/pkg-descr +++ b/science/afni/pkg-descr @@ -1,5 +1,5 @@ -This is a port of AFNI, Analysis of Functional Neuro Imaging. AFNI is -a tool for analyzing 3 dimensional images, especially functional MRI -images used in brain mapping research. +AFNI (Analysis of Functional Neuro Imaging) is a tool for analyzing +3-dimensional images, especially functional MRI images used in brain mapping +research. WWW: http://afni.nimh.nih.gov/afni/ diff --git a/science/afni/pkg-plist b/science/afni/pkg-plist index b44514a4eec0..efc23f03605e 100644 --- a/science/afni/pkg-plist +++ b/science/afni/pkg-plist @@ -1,11 +1,12 @@ +bin/1dApar2mat bin/1dAstrip bin/1dBandpass bin/1dBport bin/1dCorrelate -bin/1dDW_Grad_o_Mat bin/1dFlagMotion bin/1dGC.R bin/1dMarry +bin/1dNLfit bin/1dRplot bin/1dRplot.R bin/1dSEM @@ -23,6 +24,8 @@ bin/1dgrayplot bin/1dmatcalc bin/1dnorm bin/1dplot +bin/1dplot.py +bin/1dsound bin/1dsum bin/1dsvd bin/1dtranspose @@ -54,11 +57,11 @@ bin/3dBRAIN_VOYAGERtoAFNI bin/3dBandpass bin/3dBlurInMask bin/3dBlurToFWHM +bin/3dBrainSync bin/3dBrickStat bin/3dCM bin/3dCRUISEtoAFNI bin/3dClipLevel -bin/3dClustBust bin/3dClustCount bin/3dClustSim bin/3dConformist @@ -67,17 +70,17 @@ bin/3dCountSpikes bin/3dDFT bin/3dDTeig bin/3dDTtoDWI -bin/3dDTtoNoisyDWI bin/3dDWItoDT -bin/3dDWUncert bin/3dDeconvolve bin/3dDeconvolve_f +bin/3dDegreeCentrality bin/3dDespike bin/3dDetrend -bin/3dEigsToDT +bin/3dECM bin/3dEmpty bin/3dEntropy bin/3dErrtsCormat +bin/3dExtractGroupInCorr bin/3dExtrema bin/3dFDR bin/3dFFT @@ -89,6 +92,7 @@ bin/3dGC.R bin/3dGenFeatureDist bin/3dGenPriors bin/3dGetrow +bin/3dGrayplot bin/3dGroupInCorr bin/3dHist bin/3dICA.R @@ -98,10 +102,12 @@ bin/3dIntracranial bin/3dInvFMRI bin/3dKS.R bin/3dKruskalWallis +bin/3dLFCD bin/3dLME bin/3dLME.R bin/3dLRflip bin/3dLSS +bin/3dLocalACF bin/3dLocalBistat bin/3dLocalHistog bin/3dLocalPV @@ -109,17 +115,20 @@ bin/3dLocalSVD bin/3dLocalstat bin/3dMEMA bin/3dMEMA.R +bin/3dMEPFM +bin/3dMEPFM.R bin/3dMINCtoAFNI +bin/3dMSE bin/3dMVM bin/3dMVM.R +bin/3dMVM_validator bin/3dMannWhitney bin/3dMaskToASCII -bin/3dMatch bin/3dMax bin/3dMean bin/3dMedianFilter +bin/3dMultiThresh bin/3dNLfim -bin/3dNetCorr bin/3dNormalityTest bin/3dNotes bin/3dNwarpAdjust @@ -132,18 +141,16 @@ bin/3dOverlap bin/3dPAR2AFNI.pl bin/3dPFM bin/3dPFM.R +bin/3dPVmap bin/3dPeriodogram bin/3dPolyfit bin/3dProbTrackID bin/3dPval bin/3dQwarp bin/3dREMLfit -bin/3dROIMaker bin/3dROIstats -bin/3dRSFC bin/3dRank bin/3dRankizer -bin/3dReHo bin/3dRegAna bin/3dRetinoPhase bin/3dRowFillin @@ -151,6 +158,7 @@ bin/3dRprogDemo bin/3dRprogDemo.R bin/3dSeg bin/3dSetupGroupInCorr +bin/3dSharpen bin/3dSignatures bin/3dSignatures.R bin/3dSkullStrip @@ -159,7 +167,6 @@ bin/3dStatClust bin/3dSurf2Vol bin/3dSurfMask bin/3dSynthesize -bin/3dTORTOISEtoHere bin/3dTRfix bin/3dTSgen bin/3dTagalign @@ -167,6 +174,7 @@ bin/3dTcat bin/3dTcorr1D bin/3dTcorrMap bin/3dTcorrelate +bin/3dTfilter bin/3dTfitter bin/3dThreetoRGB bin/3dTnorm @@ -178,7 +186,9 @@ bin/3dTrackID bin/3dTshift bin/3dTsmooth bin/3dTsort +bin/3dTsplit4D bin/3dTstat +bin/3dTto1D bin/3dTwotoComplex bin/3dUndump bin/3dUnifize @@ -190,6 +200,7 @@ bin/3dWarpDrive bin/3dWavelets bin/3dWilcoxon bin/3dWinsor +bin/3dXClustSim bin/3dXYZcat bin/3dZcat bin/3dZcutup @@ -232,6 +243,8 @@ bin/3dresample bin/3dretroicor bin/3drotate bin/3dsvm +bin/3dsvm_linpredict +bin/3dtoXdataset bin/3dttest bin/3dttest++ bin/3dvolreg @@ -249,6 +262,8 @@ bin/@Align_Centers bin/@Atlasize bin/@Center_Distance bin/@CheckForAfniDset +bin/@ClustExp_CatLab +bin/@ClustExp_run_shiny bin/@CommandGlobb bin/@DO.examples bin/@DTI_studio_reposition @@ -271,14 +286,18 @@ bin/@GetAfniOrient bin/@GetAfniPrefix bin/@GetAfniRes bin/@GetAfniView +bin/@GradFlipTest bin/@Install_3dPFM_Demo bin/@Install_AfniRetinoDemo bin/@Install_ClustScat_Demo +bin/@Install_D99_macaque bin/@Install_DBSproc bin/@Install_FATCAT_DEMO +bin/@Install_FATCAT_DEMO2 bin/@Install_FATMVM_DEMO bin/@Install_InstaCorr_Demo bin/@Install_MEICA_Demo +bin/@Install_NIH_Marmoset bin/@Install_RSFMRI_Motion_Group_Demo bin/@Install_TSrestMovieDemo bin/@IsoMasks @@ -293,15 +312,18 @@ bin/@R_funclist bin/@RenamePanga bin/@Reorder bin/@RetinoProc +bin/@SSwarper bin/@SUMA_AlignToExperiment bin/@SUMA_FSvolToBRIK bin/@SUMA_Make_Spec_Caret bin/@SUMA_Make_Spec_FS bin/@SUMA_Make_Spec_SF +bin/@SUMA_renumber_FS bin/@ScaleVolume bin/@ScriptCheck bin/@Shift_Volume bin/@ShowDynamicRange +bin/@SkullStrip_TouchUp bin/@Spharm.examples bin/@SurfSmooth.HEAT_07.examples bin/@T1scale @@ -310,42 +332,77 @@ bin/@ToRAI bin/@UpdateAfni bin/@VolCenter bin/@afni.run.me +bin/@afni_R_package_install +bin/@afni_refacer_make_master +bin/@afni_refacer_make_onebigA12 +bin/@afni_refacer_run bin/@align_partial_oblique bin/@auto_align bin/@auto_tlrc bin/@build_afni_Xlib +bin/@chauffeur_afni bin/@clean_help_dir bin/@clip_volume +bin/@compute_OC_weights bin/@compute_gcor bin/@demo_prompt bin/@diff.files bin/@diff.tree +bin/@djunct_4d_imager +bin/@djunct_4d_slices_to_3d_vol +bin/@djunct_calc_mont_dims.py +bin/@djunct_combine_str.py +bin/@djunct_dwi_selector.tcsh +bin/@djunct_edgy_align_check +bin/@djunct_is_label.py +bin/@djunct_montage_coordinator +bin/@djunct_select_str.py +bin/@djunct_slice_space +bin/@djunct_vol_3slice_select bin/@escape- +bin/@extract_meica_ortvec bin/@fast_roi +bin/@fat_tract_colorize bin/@fix_FSsphere bin/@float_fix +bin/@get.afni.version bin/@global_parse +bin/@grayplot bin/@help.AFNI bin/@isOblique bin/@make_plug_diff bin/@make_stim_file +bin/@measure_bb_thick +bin/@measure_erosion_thick +bin/@measure_in2out bin/@move.to.series.dirs bin/@np bin/@parse_afni_name bin/@parse_name bin/@radial_correlate bin/@simulate_motion +bin/@snapshot_volreg +bin/@snapshot_volreg3 bin/@statauxcode +bin/@suma_reprefixize_spec +bin/@surf_to_vol_spackle +bin/@thickness_master bin/@toMNI_Awarp bin/@toMNI_Qwarpar bin/@update.afni.binaries +bin/@xyz_to_ijk bin/AFNI_Batch_R bin/AFNI_atlas_spaces.niml +bin/AFNI_version.txt bin/AFNIio.R bin/AFNIplot.R bin/AlphaSim bin/AnalyzeTrace +bin/BayesianGroupAna.R +bin/BayesianGroupAna.py bin/BrainSkin +bin/ClustExp_HistTable.py +bin/ClustExp_StatParse.py bin/CompareSurfaces bin/ConvertDset bin/ConvertSurface @@ -357,6 +414,7 @@ bin/Dimon1 bin/DriveSuma bin/ExamineXmat bin/ExamineXmat.R +bin/FATCAT_matplot bin/FD2 bin/FIRdesign bin/FSread_annot @@ -366,12 +424,17 @@ bin/Ifile bin/InstaTract bin/IsoSurface bin/Level2.R +bin/MBA +bin/MBA.R bin/MakeColorMap bin/MapIcosahedron bin/ParseName +bin/RBA +bin/RBA.R bin/ROI2dataset bin/ROIgrow bin/RSFgen +bin/RetroTS.py bin/SUMA_glxdino bin/SUMA_paperplane bin/SUMA_pixmap2eps @@ -396,10 +459,17 @@ bin/SurfToSurf bin/SurfaceMetrics bin/Vecwarp bin/Xphace +bin/abids_json_info.py +bin/abids_json_tool.py +bin/abids_lib.py +bin/abids_tool.py bin/abut bin/adwarp bin/afni bin/afni_base.py +bin/afni_check_omp +bin/afni_fs_aparc+aseg_2000.txt +bin/afni_fs_aparc+aseg_2009.txt bin/afni_history bin/afni_open bin/afni_proc.py @@ -412,6 +482,8 @@ bin/afni_vcheck bin/afni_xmat.py bin/aiv bin/align_epi_anat.py +bin/apqc_make_html.py +bin/apqc_make_tcsh.py bin/apsearch bin/ask_me.py bin/auto_warp.py @@ -422,8 +494,10 @@ bin/cifti_tool bin/column_cat bin/count bin/db_mod.py +bin/dcm2niix_afni bin/demo.fixed.niml.do bin/demo.mobile.niml.do +bin/demoExpt.py bin/dicom_hdr bin/dicom_hinfo bin/dicom_to_raw @@ -435,6 +509,18 @@ bin/fat_mvm_gridconv.py bin/fat_mvm_prep.py bin/fat_mvm_review.py bin/fat_mvm_scripter.py +bin/fat_proc_align_anat_pair +bin/fat_proc_axialize_anat +bin/fat_proc_connec_vis +bin/fat_proc_convert_dcm_anat +bin/fat_proc_convert_dcm_dwis +bin/fat_proc_decmap +bin/fat_proc_dwi_to_dt +bin/fat_proc_filter_dwis +bin/fat_proc_grad_plot +bin/fat_proc_imit2w_from_t1w +bin/fat_proc_map_to_dti +bin/fat_proc_select_vols bin/fat_roi_row.py bin/fdrval bin/fftest @@ -448,6 +534,9 @@ bin/gen_epi_review.py bin/gen_group_command.py bin/gen_ss_review_scripts.py bin/gen_ss_review_table.py +bin/get_afni_model_PRF +bin/get_afni_model_PRF_6 +bin/get_afni_model_PRF_6_BAD bin/gifti_tool bin/gui_uber_align_test.py bin/gui_uber_skel.py @@ -472,12 +561,22 @@ bin/imupsam bin/inspec bin/lib_RR_plot.py bin/lib_afni1D.py +bin/lib_apqc_html.py +bin/lib_apqc_html_css.py +bin/lib_apqc_html_helps.py +bin/lib_apqc_io.py +bin/lib_apqc_tcsh.py +bin/lib_decay_timing.py +bin/lib_dti_sundry.py bin/lib_fat_Rfactor.py bin/lib_fat_funcs.py bin/lib_fat_plot_sel.py bin/lib_matplot.py +bin/lib_plot_1D.py bin/lib_qt_gui.py +bin/lib_rand_timing.py bin/lib_realtime.py +bin/lib_ss_review.py bin/lib_subjects.py bin/lib_surf_clustsim.py bin/lib_system_check.py @@ -493,7 +592,6 @@ bin/lpc_align.py bin/make_pq_script.py bin/make_random_timing.py bin/make_stim_times.py -bin/map_TrackID bin/mayo_analyze bin/meica.py bin/module_test_lib.py @@ -503,17 +601,19 @@ bin/myget bin/neuro_deconvolve.py bin/nicat bin/niccc -bin/nifti1_test bin/nifti1_tool bin/nifti_tool bin/niml_feedme bin/niprobe bin/nsize bin/option_list.py +bin/p2dsetstat +bin/parse_fs_lt_log.py bin/plugout_drive bin/plugout_ijk bin/plugout_tt bin/plugout_tta +bin/prompt_popup bin/prompt_user bin/python_module_test.py bin/quick.alpha.vals.py @@ -532,18 +632,22 @@ bin/siemens_vision bin/slow_surf_clustsim.py bin/smooth.R bin/sqwave +bin/stimband bin/strblast bin/suma bin/suma_change_spec +bin/tedana_wrapper.py bin/tfim bin/timing_tool.py bin/to3d +bin/tokens bin/uber_align_test.py bin/uber_proc.py bin/uber_skel.py bin/uber_subject.py bin/uber_ttest.py bin/ui_xmat.py +bin/unWarpEPI.py bin/uniq_images bin/waver bin/whereami @@ -577,7 +681,7 @@ include/afni/mri_warpfield.h include/afni/mrilib.h include/afni/multivector.h include/afni/nifti1.h -include/afni/nifti1_io.h +include/afni/nifti2_io.h include/afni/nifticdf.h include/afni/niml.h include/afni/r_idisp.h @@ -593,7 +697,6 @@ include/afni/thd_ttatlas_CA_EZ.h include/afni/thd_ttatlas_query.h include/afni/vecmat.h include/afni/vol2surf.h -include/afni/volpack.h include/afni/znzlib.h lib/afni/R_io.so lib/afni/libGLws.a @@ -601,11 +704,12 @@ lib/afni/libSUMA.a lib/afni/libcoxplot.a lib/afni/libmri.a lib/afni/libmrix.a -lib/afni/libvolpack.a lib/afni/model_beta.so lib/afni/model_constant.so lib/afni/model_conv_PRF.so lib/afni/model_conv_PRF_6.so +lib/afni/model_conv_PRF_6_BAD.so +lib/afni/model_conv_PRF_DOG.so lib/afni/model_conv_cosine4.so lib/afni/model_conv_diffgamma.so lib/afni/model_convgamma.so @@ -666,7 +770,6 @@ lib/afni/plug_permtest.so lib/afni/plug_power.so lib/afni/plug_realtime.so lib/afni/plug_rename.so -lib/afni/plug_render.so lib/afni/plug_reorder.so lib/afni/plug_retroicor.so lib/afni/plug_roiedit.so @@ -682,330 +785,13 @@ lib/afni/plug_vol2surf.so lib/afni/plug_volreg.so lib/afni/plug_wavelets.so lib/afni/plug_zeropad.so -libexec/meica.libs/alignp_mepi_anat.py -libexec/meica.libs/mdp/__init__.py -libexec/meica.libs/mdp/caching/__init__.py -libexec/meica.libs/mdp/caching/caching_extension.py -libexec/meica.libs/mdp/classifier_node.py -libexec/meica.libs/mdp/configuration.py -libexec/meica.libs/mdp/extension.py -libexec/meica.libs/mdp/graph/__init__.py -libexec/meica.libs/mdp/graph/graph.py -libexec/meica.libs/mdp/helper_funcs.py -libexec/meica.libs/mdp/hinet/__init__.py -libexec/meica.libs/mdp/hinet/flownode.py -libexec/meica.libs/mdp/hinet/hinet.css -libexec/meica.libs/mdp/hinet/htmlvisitor.py -libexec/meica.libs/mdp/hinet/layer.py -libexec/meica.libs/mdp/hinet/switchboard.py -libexec/meica.libs/mdp/hinet/switchboard_factory.py -libexec/meica.libs/mdp/linear_flows.py -libexec/meica.libs/mdp/nodes/__init__.py -libexec/meica.libs/mdp/nodes/classifier_nodes.py -libexec/meica.libs/mdp/nodes/convolution_nodes.py -libexec/meica.libs/mdp/nodes/em_nodes.py -libexec/meica.libs/mdp/nodes/expansion_nodes.py -libexec/meica.libs/mdp/nodes/fda_nodes.py -libexec/meica.libs/mdp/nodes/ica_nodes.py -libexec/meica.libs/mdp/nodes/ica_nodes.py~ -libexec/meica.libs/mdp/nodes/ica_nodes_old.py -libexec/meica.libs/mdp/nodes/isfa_nodes.py -libexec/meica.libs/mdp/nodes/jade.py -libexec/meica.libs/mdp/nodes/libsvm_classifier.py -libexec/meica.libs/mdp/nodes/lle_nodes.py -libexec/meica.libs/mdp/nodes/misc_nodes.py -libexec/meica.libs/mdp/nodes/neural_gas_nodes.py -libexec/meica.libs/mdp/nodes/nipals.py -libexec/meica.libs/mdp/nodes/pca_nodes.py -libexec/meica.libs/mdp/nodes/rbm_nodes.py -libexec/meica.libs/mdp/nodes/regression_nodes.py 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%%DATADIR%%/funstuff/face_greatminds.jpg +%%DATADIR%%/funstuff/face_grenadier_sean.jpg %%DATADIR%%/funstuff/face_guidon.jpg %%DATADIR%%/funstuff/face_gumballguy.jpg %%DATADIR%%/funstuff/face_hamepark.jpg @@ -1179,6 +981,7 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_hendrik_mandelkow.jpg %%DATADIR%%/funstuff/face_hjjo2.jpg %%DATADIR%%/funstuff/face_hoffmangobbini.jpg +%%DATADIR%%/funstuff/face_hornbill.jpg %%DATADIR%%/funstuff/face_houstonbull.jpg %%DATADIR%%/funstuff/face_iaindewitt.jpg %%DATADIR%%/funstuff/face_ibitter.jpg @@ -1187,6 +990,8 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_ioana.jpg %%DATADIR%%/funstuff/face_ioana2.jpg %%DATADIR%%/funstuff/face_iordanis.jpg +%%DATADIR%%/funstuff/face_ipc1.jpg +%%DATADIR%%/funstuff/face_ipc2.jpg %%DATADIR%%/funstuff/face_isaac.jpg %%DATADIR%%/funstuff/face_jaehun.jpg %%DATADIR%%/funstuff/face_jaehun2.jpg @@ -1197,16 +1002,21 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_jcbeer.jpg %%DATADIR%%/funstuff/face_jchoi.jpg %%DATADIR%%/funstuff/face_jeff_bloch.jpg +%%DATADIR%%/funstuff/face_jeffpic.jpg %%DATADIR%%/funstuff/face_jen_britton.jpg %%DATADIR%%/funstuff/face_jenevans.jpg +%%DATADIR%%/funstuff/face_jenevans2.jpg %%DATADIR%%/funstuff/face_jguo_khall.jpg %%DATADIR%%/funstuff/face_jia.n.wenday.jpg %%DATADIR%%/funstuff/face_jigokudani.jpg +%%DATADIR%%/funstuff/face_jillian_baby.jpg +%%DATADIR%%/funstuff/face_jillian_sdsu.jpg %%DATADIR%%/funstuff/face_jimhaxby.jpg %%DATADIR%%/funstuff/face_jiye_kim.jpg %%DATADIR%%/funstuff/face_jkurata.jpg %%DATADIR%%/funstuff/face_jlisinski.jpg %%DATADIR%%/funstuff/face_joecal.jpg +%%DATADIR%%/funstuff/face_johnmilton.jpg %%DATADIR%%/funstuff/face_jon_scott.jpg %%DATADIR%%/funstuff/face_jongminlee.jpg %%DATADIR%%/funstuff/face_josie.jpg @@ -1216,8 +1026,8 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_jskipper.jpg %%DATADIR%%/funstuff/face_jsmucny.jpg %%DATADIR%%/funstuff/face_julie_2.jpg -%%DATADIR%%/funstuff/face_juliefrost.jpg %%DATADIR%%/funstuff/face_juliet.jpg +%%DATADIR%%/funstuff/face_justin.jpg %%DATADIR%%/funstuff/face_jweisberg.jpg %%DATADIR%%/funstuff/face_kabbas.jpg %%DATADIR%%/funstuff/face_kalidurga.jpg @@ -1255,13 +1065,17 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_lindathede.jpg %%DATADIR%%/funstuff/face_lionshead.jpg %%DATADIR%%/funstuff/face_lisaeyler.jpg +%%DATADIR%%/funstuff/face_lisamash.jpg %%DATADIR%%/funstuff/face_lizyoder.jpg %%DATADIR%%/funstuff/face_ljcox.jpg +%%DATADIR%%/funstuff/face_ljcox2.jpg %%DATADIR%%/funstuff/face_ll_and_zmn.jpg %%DATADIR%%/funstuff/face_llatour.jpg %%DATADIR%%/funstuff/face_lmccall.jpg %%DATADIR%%/funstuff/face_locikidsucsd.jpg %%DATADIR%%/funstuff/face_lucasglover.jpg +%%DATADIR%%/funstuff/face_lucca1.jpg +%%DATADIR%%/funstuff/face_lucca2.jpg %%DATADIR%%/funstuff/face_luiz_pessoa.jpg %%DATADIR%%/funstuff/face_lukas.jpg %%DATADIR%%/funstuff/face_lundin.jpg @@ -1291,7 +1105,9 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_mmk3.jpg %%DATADIR%%/funstuff/face_mmk4.jpg %%DATADIR%%/funstuff/face_mmur.jpg +%%DATADIR%%/funstuff/face_mounties_prefer_afni.jpg %%DATADIR%%/funstuff/face_mpinsk.jpg +%%DATADIR%%/funstuff/face_mpschallmo.jpg %%DATADIR%%/funstuff/face_mpschroeder.jpg %%DATADIR%%/funstuff/face_mruppe.jpg %%DATADIR%%/funstuff/face_mscohen.jpg @@ -1326,14 +1142,17 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_phoebechan.jpg %%DATADIR%%/funstuff/face_pilyoung_kim.jpg %%DATADIR%%/funstuff/face_pkochunov.jpg +%%DATADIR%%/funstuff/face_potomac.jpg %%DATADIR%%/funstuff/face_prantik.jpg %%DATADIR%%/funstuff/face_prowser.jpg %%DATADIR%%/funstuff/face_psfb.jpg %%DATADIR%%/funstuff/face_psfb_serious.jpg %%DATADIR%%/funstuff/face_psfbx.jpg %%DATADIR%%/funstuff/face_pshukla.jpg +%%DATADIR%%/funstuff/face_pumpkin.jpg %%DATADIR%%/funstuff/face_qiulin.jpg %%DATADIR%%/funstuff/face_qutian.jpg +%%DATADIR%%/funstuff/face_qyue.jpg %%DATADIR%%/funstuff/face_rabeauchamp.jpg %%DATADIR%%/funstuff/face_rafaelsutherland.jpg %%DATADIR%%/funstuff/face_rameses.jpg @@ -1349,6 +1168,7 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_rickr_forbid.jpg %%DATADIR%%/funstuff/face_rjsquirrel.jpg %%DATADIR%%/funstuff/face_rmbirn.jpg +%%DATADIR%%/funstuff/face_roadbrain.jpg %%DATADIR%%/funstuff/face_robinkampe.jpg %%DATADIR%%/funstuff/face_robterwill.jpg %%DATADIR%%/funstuff/face_rory.jpg @@ -1377,10 +1197,24 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_rwcoxH.jpg %%DATADIR%%/funstuff/face_rwcoxI.jpg %%DATADIR%%/funstuff/face_rwcoxJ.jpg +%%DATADIR%%/funstuff/face_rwcoxK.jpg +%%DATADIR%%/funstuff/face_rwcoxL.jpg +%%DATADIR%%/funstuff/face_rwcoxM.jpg +%%DATADIR%%/funstuff/face_rwcoxN.jpg +%%DATADIR%%/funstuff/face_rwcoxO.jpg +%%DATADIR%%/funstuff/face_rwcoxP.jpg +%%DATADIR%%/funstuff/face_rwcoxQ.jpg +%%DATADIR%%/funstuff/face_rwcoxR.jpg +%%DATADIR%%/funstuff/face_rwcoxS.jpg +%%DATADIR%%/funstuff/face_rwcoxT.jpg +%%DATADIR%%/funstuff/face_rwcoxU.jpg +%%DATADIR%%/funstuff/face_rwcoxV.jpg %%DATADIR%%/funstuff/face_rwcox_di_milano.jpg %%DATADIR%%/funstuff/face_s_torrisi.jpg %%DATADIR%%/funstuff/face_saccanch.jpg %%DATADIR%%/funstuff/face_sara_inati.jpg +%%DATADIR%%/funstuff/face_scowlybrain.jpg +%%DATADIR%%/funstuff/face_sdsu2016_1.jpg %%DATADIR%%/funstuff/face_sean2.jpg %%DATADIR%%/funstuff/face_shayna3.jpg %%DATADIR%%/funstuff/face_shyaustrian.jpg @@ -1417,6 +1251,8 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/face_tolkien.jpg %%DATADIR%%/funstuff/face_tomholroyd.jpg %%DATADIR%%/funstuff/face_tross.jpg +%%DATADIR%%/funstuff/face_tubbing_leias.jpg +%%DATADIR%%/funstuff/face_tulsa4.jpg %%DATADIR%%/funstuff/face_unknown1.jpg %%DATADIR%%/funstuff/face_vader.jpg %%DATADIR%%/funstuff/face_vdcosta.jpg @@ -1470,13 +1306,19 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/poem_ww2.txt %%DATADIR%%/funstuff/splash_12Apostles.jpg %%DATADIR%%/funstuff/splash_3monkeys.jpg +%%DATADIR%%/funstuff/splash_Bpark.jpg +%%DATADIR%%/funstuff/splash_Feb2016.jpg %%DATADIR%%/funstuff/splash_NMcloud.jpg +%%DATADIR%%/funstuff/splash_Utah_Dog.jpg +%%DATADIR%%/funstuff/splash_Utah_Tree.jpg %%DATADIR%%/funstuff/splash_afnicake20.jpg +%%DATADIR%%/funstuff/splash_afnicalling.jpg %%DATADIR%%/funstuff/splash_afniegypt.jpg %%DATADIR%%/funstuff/splash_afnigoogle.jpg %%DATADIR%%/funstuff/splash_afnirocks.jpg %%DATADIR%%/funstuff/splash_afnistuff.jpg %%DATADIR%%/funstuff/splash_afnisuma.jpg +%%DATADIR%%/funstuff/splash_afnisun2.jpg %%DATADIR%%/funstuff/splash_afnitree.jpg %%DATADIR%%/funstuff/splash_airplane.jpg %%DATADIR%%/funstuff/splash_allfaces.jpg @@ -1484,6 +1326,7 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/splash_arno.jpg %%DATADIR%%/funstuff/splash_aruba.jpg %%DATADIR%%/funstuff/splash_asosan.jpg +%%DATADIR%%/funstuff/splash_atacama.jpg %%DATADIR%%/funstuff/splash_babytaj.jpg %%DATADIR%%/funstuff/splash_backyard1.jpg %%DATADIR%%/funstuff/splash_barcelona.jpg @@ -1493,13 +1336,19 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/splash_birds.jpg %%DATADIR%%/funstuff/splash_blackdesert.jpg 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%%DATADIR%%/funstuff/splash_chipmunk.jpg %%DATADIR%%/funstuff/splash_chongqing.jpg %%DATADIR%%/funstuff/splash_clearcreek.jpg @@ -1517,34 +1368,55 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/splash_cupcakes.jpg %%DATADIR%%/funstuff/splash_dartmouth.jpg %%DATADIR%%/funstuff/splash_dartmouth2014.jpg +%%DATADIR%%/funstuff/splash_dartmouth2017.jpg %%DATADIR%%/funstuff/splash_deadsea.jpg %%DATADIR%%/funstuff/splash_deertrap.jpg %%DATADIR%%/funstuff/splash_discovery.jpg +%%DATADIR%%/funstuff/splash_doha.jpg %%DATADIR%%/funstuff/splash_domerock.jpg %%DATADIR%%/funstuff/splash_earth.jpg %%DATADIR%%/funstuff/splash_earthtopo.jpg +%%DATADIR%%/funstuff/splash_easterA.jpg +%%DATADIR%%/funstuff/splash_easterB.jpg +%%DATADIR%%/funstuff/splash_einsteinA.jpg %%DATADIR%%/funstuff/splash_elephant.jpg %%DATADIR%%/funstuff/splash_emars.jpg %%DATADIR%%/funstuff/splash_emperorzhark.jpg %%DATADIR%%/funstuff/splash_evilafni.jpg +%%DATADIR%%/funstuff/splash_gameofblobs.jpg +%%DATADIR%%/funstuff/splash_gc2015a.jpg +%%DATADIR%%/funstuff/splash_gcbob.jpg %%DATADIR%%/funstuff/splash_giza.jpg %%DATADIR%%/funstuff/splash_gokyo2015.jpg +%%DATADIR%%/funstuff/splash_greatfalls.jpg %%DATADIR%%/funstuff/splash_gwalior.jpg +%%DATADIR%%/funstuff/splash_gzbridge.jpg %%DATADIR%%/funstuff/splash_hagiasophia.jpg +%%DATADIR%%/funstuff/splash_halloweenA.jpg +%%DATADIR%%/funstuff/splash_hangzhou.jpg %%DATADIR%%/funstuff/splash_hanyang.jpg %%DATADIR%%/funstuff/splash_harleyjeff.jpg %%DATADIR%%/funstuff/splash_haskins.jpg %%DATADIR%%/funstuff/splash_hbm2013.jpg +%%DATADIR%%/funstuff/splash_heroic_gosia.jpg %%DATADIR%%/funstuff/splash_hikeofdoom.jpg +%%DATADIR%%/funstuff/splash_hkferris.jpg +%%DATADIR%%/funstuff/splash_hongkong.jpg %%DATADIR%%/funstuff/splash_horus.jpg %%DATADIR%%/funstuff/splash_houston.jpg %%DATADIR%%/funstuff/splash_imcheon.jpg +%%DATADIR%%/funstuff/splash_jeeparch.jpg %%DATADIR%%/funstuff/splash_jerzytulsa.jpg %%DATADIR%%/funstuff/splash_joesun.jpg %%DATADIR%%/funstuff/splash_kalachakra.jpg %%DATADIR%%/funstuff/splash_karski.jpg %%DATADIR%%/funstuff/splash_kebb.jpg +%%DATADIR%%/funstuff/splash_kissing.jpg +%%DATADIR%%/funstuff/splash_lasvegas.jpg +%%DATADIR%%/funstuff/splash_laworder.jpg +%%DATADIR%%/funstuff/splash_leaves2018.jpg %%DATADIR%%/funstuff/splash_lightsaber.jpg +%%DATADIR%%/funstuff/splash_listerhill2017.jpg %%DATADIR%%/funstuff/splash_littlepetra.jpg %%DATADIR%%/funstuff/splash_lunchtime.jpg %%DATADIR%%/funstuff/splash_machu.jpg @@ -1553,6 +1425,8 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/splash_mathlab.jpg %%DATADIR%%/funstuff/splash_mayanmexico.jpg %%DATADIR%%/funstuff/splash_mcw03.jpg +%%DATADIR%%/funstuff/splash_mcw_gang.jpg +%%DATADIR%%/funstuff/splash_megadonut.jpg %%DATADIR%%/funstuff/splash_melbourne.jpg %%DATADIR%%/funstuff/splash_merrycoxpainting.jpg %%DATADIR%%/funstuff/splash_monastery.jpg @@ -1560,11 +1434,17 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/splash_monumentvalley.jpg %%DATADIR%%/funstuff/splash_mteverest.jpg %%DATADIR%%/funstuff/splash_mtyale.jpg +%%DATADIR%%/funstuff/splash_nashville.jpg %%DATADIR%%/funstuff/splash_ncku.jpg %%DATADIR%%/funstuff/splash_nepalbridge.jpg %%DATADIR%%/funstuff/splash_nepalmani.jpg %%DATADIR%%/funstuff/splash_nepalphortse.jpg +%%DATADIR%%/funstuff/splash_nihb31.jpg +%%DATADIR%%/funstuff/splash_nihb50.jpg %%DATADIR%%/funstuff/splash_nihfall2014.jpg +%%DATADIR%%/funstuff/splash_nihfence.jpg +%%DATADIR%%/funstuff/splash_nihwalk.jpg +%%DATADIR%%/funstuff/splash_okazaki_A.jpg %%DATADIR%%/funstuff/splash_palenque.jpg %%DATADIR%%/funstuff/splash_palk.jpg %%DATADIR%%/funstuff/splash_pba5.jpg @@ -1577,21 +1457,31 @@ man/man1/afni.1.gz %%DATADIR%%/funstuff/splash_potomac.jpg %%DATADIR%%/funstuff/splash_prayerflags.jpg %%DATADIR%%/funstuff/splash_qufu.jpg +%%DATADIR%%/funstuff/splash_rapture.jpg %%DATADIR%%/funstuff/splash_rasnov.jpg %%DATADIR%%/funstuff/splash_redtree.jpg %%DATADIR%%/funstuff/splash_rhinos.jpg %%DATADIR%%/funstuff/splash_romaniachurch.jpg %%DATADIR%%/funstuff/splash_sandiego.jpg +%%DATADIR%%/funstuff/splash_sarawak1.jpg +%%DATADIR%%/funstuff/splash_scnu.jpg %%DATADIR%%/funstuff/splash_sdyb.jpg %%DATADIR%%/funstuff/splash_seoul.jpg %%DATADIR%%/funstuff/splash_seoul2011.jpg %%DATADIR%%/funstuff/splash_shadowbob.jpg +%%DATADIR%%/funstuff/splash_sharksign.jpg +%%DATADIR%%/funstuff/splash_shenzhen.jpg %%DATADIR%%/funstuff/splash_sixpoles.jpg +%%DATADIR%%/funstuff/splash_skullarch.jpg +%%DATADIR%%/funstuff/splash_snowzilla.jpg %%DATADIR%%/funstuff/splash_soren.jpg %%DATADIR%%/funstuff/splash_squidding.jpg %%DATADIR%%/funstuff/splash_sscc03.jpg %%DATADIR%%/funstuff/splash_sscc2006.jpg %%DATADIR%%/funstuff/splash_sscc2009.jpg +%%DATADIR%%/funstuff/splash_sscc2018.jpg +%%DATADIR%%/funstuff/splash_sscc2018a.jpg +%%DATADIR%%/funstuff/splash_subway.jpg %%DATADIR%%/funstuff/splash_sunriseganges.jpg %%DATADIR%%/funstuff/splash_sunset.jpg %%DATADIR%%/funstuff/splash_tajmahal.jpg @@ 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