EBImage installs but won't load on Mac OS 10.6.4
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W. A. Green ▴ 40
@w-a-green-4296
Last seen 7.1 years ago
Greg, Thanks; I think I figured it out. The problem must be with the X11.app, because there's no problem loading EBImage from R64.app when there's an open X11 terminal window, only when X11 is running, but there is no open window (it used to be that X11 running in the background was enough, even when no X11 window was open; in fact on my machine, the 'new terminal' command in X11 doesn't seem to work.) Anyway, this is clearly an apple issue and I can get EBImage to run perfectly just by making sure to keep an X11 window open or by running it from a terminal window as I sometimes do anyway. Incidentally, to answer your questions: I Installed GTK and ImageMagick from macports and tested them as you suggest in the installation guide with gtk-demo and convert -version. The otool -L output for EBImage.so is below. Thanks again for your help; EBImage is a great package! Walton EBImage.so: EBImage.so (compatibility version 0.0.0, current version 0.0.0) /opt/local/lib/libgtk-x11-2.0.0.dylib (compatibility version 2001.0.0, current version 2001.1.0) /opt/local/lib/libgdk-x11-2.0.0.dylib (compatibility version 2001.0.0, current version 2001.1.0) /opt/local/lib/libatk-1.0.0.dylib (compatibility version 3010.0.0, current version 3010.1.0) /opt/local/lib/libgdk_pixbuf-2.0.0.dylib (compatibility version 2001.0.0, current version 2001.1.0) /opt/local/lib/libpangocairo-1.0.0.dylib (compatibility version 2401.0.0, current version 2401.5.0) /opt/local/lib/libXinerama.1.dylib (compatibility version 2.0.0, current version 2.0.0) /opt/local/lib/libXi.6.dylib (compatibility version 8.0.0, current version 8.0.0) /opt/local/lib/libXrandr.2.dylib (compatibility version 5.0.0, current version 5.0.0) /opt/local/lib/libXcursor.1.dylib (compatibility version 2.0.0, current version 2.2.0) /opt/local/lib/libXcomposite.1.dylib (compatibility version 2.0.0, current version 2.0.0) /opt/local/lib/libXdamage.1.dylib (compatibility version 3.0.0, current version 3.0.0) /opt/local/lib/libpangoft2-1.0.0.dylib (compatibility version 2401.0.0, current version 2401.5.0) /opt/local/lib/libgio-2.0.0.dylib (compatibility version 2601.0.0, current version 2601.0.0) /opt/local/lib/libXext.6.dylib (compatibility version 11.0.0, current version 11.0.0) /opt/local/lib/libXfixes.3.dylib (compatibility version 5.0.0, current version 5.0.0) /opt/local/lib/libcairo.2.dylib (compatibility version 10803.0.0, current version 10803.10.0) /opt/local/lib/libpixman-1.0.dylib (compatibility version 19.0.0, current version 19.2.0) /opt/local/lib/libpng12.0.dylib (compatibility version 45.0.0, current version 45.0.0) /opt/local/lib/libXrender.1.dylib (compatibility version 5.0.0, current version 5.0.0) /opt/local/lib/libX11.6.dylib (compatibility version 10.0.0, current version 10.0.0) /opt/local/lib/libXau.6.dylib (compatibility version 7.0.0, current version 7.0.0) /opt/local/lib/libXdmcp.6.dylib (compatibility version 7.0.0, current version 7.0.0) /opt/local/lib/libpango-1.0.0.dylib (compatibility version 2401.0.0, current version 2401.5.0) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 125.2.0) /opt/local/lib/libfontconfig.1.dylib (compatibility version 6.0.0, current version 6.4.0) /opt/local/lib/libexpat.1.dylib (compatibility version 7.0.0, current version 7.2.0) /opt/local/lib/libfreetype.6.dylib (compatibility version 11.0.0, current version 11.0.0) /opt/local/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.5) /opt/local/lib/libgobject-2.0.0.dylib (compatibility version 2601.0.0, current version 2601.0.0) /opt/local/lib/libgmodule-2.0.0.dylib (compatibility version 2601.0.0, current version 2601.0.0) /opt/local/lib/libgthread-2.0.0.dylib (compatibility version 2601.0.0, current version 2601.0.0) /opt/local/lib/libglib-2.0.0.dylib (compatibility version 2601.0.0, current version 2601.0.0) /opt/local/lib/libintl.8.dylib (compatibility version 10.0.0, current version 10.1.0) /opt/local/lib/libiconv.2.dylib (compatibility version 8.0.0, current version 8.0.0) /opt/local/lib/libMagickCore.4.dylib (compatibility version 5.0.0, current version 5.0.0) /opt/local/lib/liblcms.1.dylib (compatibility version 2.0.0, current version 2.19.0) /opt/local/lib/libtiff.3.dylib (compatibility version 13.0.0, current version 13.2.0) /opt/local/lib/libjpeg.8.dylib (compatibility version 9.0.0, current version 9.1.0) /opt/local/lib/libSM.6.dylib (compatibility version 7.0.0, current version 7.1.0) /opt/local/lib/libICE.6.dylib (compatibility version 10.0.0, current version 10.0.0) /opt/local/lib/libXt.6.dylib (compatibility version 7.0.0, current version 7.0.0) /opt/local/lib/libbz2.1.0.dylib (compatibility version 1.0.0, current version 1.0.5) /System/Library/Frameworks/OpenCL.framework/Versions/A/Libraries/libcl parser.dylib (compatibility version 1.0.0, current version 1.0.0) /System/Library/Frameworks/OpenCL.framework/Versions/A/OpenCL (compatibility version 1.0.0, current version 1.0.0) /opt/local/lib/libltdl.7.dylib (compatibility version 11.0.0, current version 11.0.0) /opt/local/lib/libMagickWand.4.dylib (compatibility version 5.0.0, current version 5.0.0) /Library/Frameworks/R.framework/Versions/2.11/Resources/lib/libR.dylib (compatibility version 2.11.0, current version 2.11.1) /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFou ndation (compatibility version 150.0.0, current version 550.29.0) /usr/lib/libstdc++.6.dylib (compatibility version 7.0.0, current version 7.9.0) ## .signature # Walton A. Green # E-mail: $ echo wagreenXbricol.net | tr 'X' '@' # URL: <http: www.bricol.net=""> # Phone: (203) 640-8122 #################### 60 characters wide #################### On Tue, 30 Nov 2010, Gregoire Pau wrote: > Hi Walton, > > EBImage works fine on 64-bit machines. Permissions cannot explain why R64.app > hangs. Did you check if the 64-bit versions of GTK and ImageMagick have been > correctly installed ? How did you install them ? What is the result of 'otool > -L' on the EBImage.so object ? > > Cheers, > > Greg > --- > Gregoire Pau > EMBL Research officer > http://www.embl.de/~gpau/ > > On 30/11/2010 18:25, W. A. Green wrote: >> >> Finally, after a lot of brainstorming, (mostly) fixed Turned out to be a >> permissions issue: because I installed EBImage as root, group and other >> execute permissions were not set. >> >> Tried: >> >> chmod -R a+rx /Library/Frameworks/R.framework/Resources/library/EBImage >> chmod -R g+w /Library/Frameworks/R.framework/Resources/library/EBImage >> >> and now no problem loading from R invoked in an X11 or Terminal window, >> though R64.app still hangs on: >> >> library(EBImage) >> >> Do I still have some permissions wrong? >> >> drwxrwxr-x 14 root admin 476B Nov 30 11:29 . >> drwxrwxr-x 54 root admin 1.8K Nov 30 11:30 .. >> -rw-rw-r-- 1 root admin 823B Nov 30 11:29 DESCRIPTION >> -rw-rw-r-- 1 root admin 1.9K Nov 30 11:29 INDEX >> -rw-rw-r-- 1 root admin 24K Nov 30 11:29 LICENSE >> drwxrwxr-x 8 root admin 272B Nov 30 11:29 Meta >> -rw-rw-r-- 1 root admin 1.4K Nov 30 11:29 NAMESPACE >> drwxrwxr-x 5 root admin 170B Nov 30 11:29 R >> drwxrwxr-x 10 root admin 340B Nov 30 11:29 doc >> drwxrwxr-x 7 root admin 238B Nov 30 11:29 help >> drwxrwxr-x 3 root admin 102B Nov 30 11:29 html >> drwxrwxr-x 7 root admin 238B Nov 30 11:29 images >> drwxrwxr-x 3 root admin 102B Nov 30 11:29 libs >> drwxrwxr-x 4 root admin 136B Nov 30 11:29 scripts >> >> Thanks for the help, >> >> Walton >> >> ## .signature >> # Walton A. Green >> # E-mail: $ echo wagreenXbricol.net | tr 'X' '@' >> # URL: <http: www.bricol.net=""> >> # Phone: (203) 640-8122 >> #################### 60 characters wide #################### >> >> On Fri, 15 Oct 2010, Michael Dondrup wrote: >> >>> Hi Walton, >>> >>> you are using MacPorts, right? Possibly you unintentionally installed >>> another R as a dependency through MacPorts. I had the same effect. >>> That MacPorts R will be >>> $ which R >>> /opt/local/bin/R >>> and will become your default R on the console (if you just type 'R') >>> then, but the packages you install through the GUI don't go there, the >>> package installs are distinct. The cran Mac R is >>> normally in /usr/bin/R >>> try to find our where the package is installed. >>> >>> Hope that helps >>> Michael >>> >>> Am Oct 15, 2010 um 3:10 PM schrieb Gregoire Pau: >>> >>>> Hello Walton, >>>> >>>> EBImage works fine on Mac systems. It seems that you're facing a >>>> problem caused by the concurrent installation of different versions >>>> of R and/or of different architecture (32-bit and 64-bit), unrelated >>>> to EBImage. >>>> >>>> From your R CMD INSTALL output, it appears that you installed the >>>> 64-bit version of EBImage, see: >>>> "installing to >>>> /Library/Frameworks/R.framework/Resources/library/EBImage/libs/x86_64" >>>> >>>> What is your version of R, when started from the command line ? Did >>>> you try to start R and load EBImage from the command line ? Did it >>>> work ? Did you try to start R64.app and load EBImage ? >>>> >>>> The warning message 'Xlib: extension "RANDR" missing on display >>>> ":0.0"' is caused by the MacPort version of GTK+. I don't know why it >>>> pops up but it seems harmless. >>>> >>>> Hope this helps, >>>> >>>> Greg >>>> --- >>>> Gregoire Pau >>>> EMBL Research officer >>>> http://www.embl.de/~gpau/ >>>> >>>> On 14/10/2010 07:50, W. A. Green wrote: >>>>> >>>>> Probably this is a question for Gregoire Pau, but I know there have >>>>> been >>>>> others who had trouble installing EBImage on Snow Leopard....Haven't >>>>> found a fix for my problem on BioC or R-sig-mac lists, though. >>>>> >>>>> On: >>>>> >>>>> platform x86_64-apple-darwin9.8.0 >>>>> arch x86_64 >>>>> os darwin9.8.0 >>>>> system x86_64, darwin9.8.0 >>>>> status >>>>> major 2 >>>>> minor 11.1 >>>>> year 2010 >>>>> month 05 >>>>> day 31 >>>>> svn rev 52157 >>>>> language R >>>>> version.string R version 2.11.1 (2010-05-31) >>>>> >>>>> The source installation seems to run fine (see output below), but >>>>> >>>>>> library(EBImage) >>>>> >>>>> gives: >>>>> >>>>> Error in library(EBImage) : there is no package called 'EBImage' >>>>> >>>>> The only error in the install process seems to be: >>>>> >>>>> Xlib: extension "RANDR" missing on display ":0.0". >>>>> >>>>> which doesn't seems to prevent gtk-demo from opening an X window and >>>>> running fine. >>>>> >>>>> bash-3.2$ gtk-demo >>>>> Xlib: extension "RANDR" missing on display ":0.0". >>>>> bash-3.2$ convert -version >>>>> Version: ImageMagick 6.5.8-4 2009-12-15 Q16 http://www.imagemagick.org >>>>> Copyright: Copyright (C) 1999-2009 ImageMagick Studio LLC >>>>> Features: >>>>> >>>>> bash-3.2$ pkg-config gtk+-2.0 --libs >>>>> -L/opt/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgdk_pixbuf-2.0 >>>>> -lpangocairo-1.0 -lXinerama -lXi -lXrandr -lXcursor -lXcomposite >>>>> -lXdamage -lpangoft2-1.0 -lgio-2.0 -lXext -lXfixes -lcairo -lpixman-1 >>>>> -lpng12 -lXrender -lX11 -lXau -lXdmcp -lpango-1.0 -lm -lfontconfig >>>>> -lexpat -lfreetype -lz -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 >>>>> -lglib-2.0 -lintl -liconv >>>>> bash-3.2$ Magick-config --libs >>>>> -L/opt/local/lib -lMagickCore -llcms -ltiff -lfreetype -ljpeg >>>>> -L/opt/local/lib -lfontconfig -lexpat -lfreetype -lz -liconv -lXext >>>>> -lSM >>>>> -lICE -lX11 -lXt -lbz2 -lz -lm -lgomp -lclparser -Wl,-framework,OpenCL >>>>> -L/System/Library/Frameworks/OpenCL.framework/Versions/A/Libraries -lm >>>>> -lpthread -lltdl >>>>> >>>>> I've also tried local source installs from the mac gui in both R and >>>>> R64 >>>>> and install.packages() from within R....Nothing seems to work. >>>>> >>>>> Any guidance would be much appreciated, >>>>> >>>>> Walton >>>>> >>>>> Here's the install output: >>>>> >>>>> bash-3.2$ sudo R CMD INSTALL EBImage_3.5.5.tar.gz >>>>> * installing to library >>>>> ???/Library/Frameworks/R.framework/Resources/library??? >>>>> * installing *source* package ???EBImage??? ... >>>>> checking for Magick-config... yes >>>>> * found ImageMagick version 6.6.3 Q16 >>>>> * found ImageMagick includes in -I/opt/local/include/ImageMagick >>>>> checking for pkg-config... yes >>>>> * compiling with GTK+ support >>>>> ----------------------------------------------------- >>>>> configure: creating ./config.status >>>>> config.status: creating src/Makevars >>>>> ** libs >>>>> *** arch - x86_64 >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c EBImage.c -o EBImage.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c conversions.c -o conversions.o >>>>> conversions.c: In function ???magick2SEXP???: >>>>> conversions.c:148: warning: ???DispatchImage??? is deprecated (declared >>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265) >>>>> conversions.c:153: warning: ???DispatchImage??? is deprecated (declared >>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265) >>>>> conversions.c:155: warning: ???DispatchImage??? is deprecated (declared >>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265) >>>>> conversions.c:157: warning: ???DispatchImage??? is deprecated (declared >>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265) >>>>> conversions.c:162: warning: ???DispatchImage??? is deprecated (declared >>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265) >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c display.c -o display.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c distmap.c -o distmap.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c drawable.c -o drawable.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c features_haralick.c -o features_haralick.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c features_hull.c -o features_hull.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c features_moments.c -o features_moments.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c features_zernike.c -o features_zernike.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c filters_magick.c -o filters_magick.o >>>>> g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -Wall -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick -fPIC -g -O2 -c floodFill.cpp -o >>>>> floodFill.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c io.c -o io.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c morphology.c -o morphology.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c normalize.c -o normalize.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c objects.c -o objects.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c ocontour.c -o ocontour.o >>>>> g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -Wall -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick -fPIC -g -O2 -c propagate.cpp -o >>>>> propagate.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c thresh.c -o thresh.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c tile.c -o tile.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c tools.c -o tools.o >>>>> gcc -arch x86_64 -std=gnu99 >>>>> -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -D_REENTRANT >>>>> -I/opt/local/include/gtk-2.0 -I/opt/local/lib/gtk-2.0/include >>>>> -I/opt/local/include/atk-1.0 -I/opt/local/include/cairo >>>>> -I/opt/local/include/pango-1.0 -I/opt/local/include/gio- unix-2.0/ >>>>> -I/opt/local/include -I/opt/local/include/glib-2.0 >>>>> -I/opt/local/lib/glib-2.0/include -I/opt/local/include/pixman-1 >>>>> -I/opt/local/include/freetype2 -I/opt/local/include/libpng12 -Wall >>>>> -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick >>>>> -fPIC -g -O2 -c translate.c -o translate.o >>>>> g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include >>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 >>>>> -I/usr/local/include -Wall -I/opt/local/include/ImageMagick -fopenmp >>>>> -I/opt/local/include/ImageMagick -fPIC -g -O2 -c watershed.cpp -o >>>>> watershed.o >>>>> g++ -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names >>>>> -undefined >>>>> dynamic_lookup -single_module -multiply_defined suppress >>>>> -L/usr/local/lib >>>>> -o EBImage.so EBImage.o conversions.o display.o distmap.o drawable.o >>>>> features_haralick.o features_hull.o features_moments.o >>>>> features_zernike.o >>>>> filters_magick.o floodFill.o io.o morphology.o normalize.o objects.o >>>>> ocontour.o propagate.o thresh.o tile.o tools.o translate.o watershed.o >>>>> -L/opt/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgdk_pixbuf-2.0 >>>>> -lpangocairo-1.0 -lXinerama -lXi -lXrandr -lXcursor -lXcomposite >>>>> -lXdamage >>>>> -lpangoft2-1.0 -lgio-2.0 -lXext -lXfixes -lcairo -lpixman-1 -lpng12 >>>>> -lXrender -lX11 -lXau -lXdmcp -lpango-1.0 -lm -lfontconfig -lexpat >>>>> -lfreetype -lz -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lglib-2.0 >>>>> -lintl >>>>> -liconv -L/opt/local/lib -L/opt/local/lib -L/opt/local/lib >>>>> -L/opt/local/lib -lMagickCore -llcms -ltiff -lfreetype -ljpeg >>>>> -L/opt/local/lib -lfontconfig -lexpat -lfreetype -lz -liconv -lXext >>>>> -lSM >>>>> -lICE -lX11 -lXt -lbz2 -lz -lm -lclparser -Wl,-framework,OpenCL >>>>> -L/System/Library/Frameworks/OpenCL.framework/Versions/A/Libraries -lm >>>>> -lpthread -lltdl -L/opt/local/lib -lMagickWand -lMagickCore -llcms >>>>> -ltiff >>>>> -lfreetype -ljpeg -L/opt/local/lib -lfontconfig -lexpat -lfreetype -lz >>>>> -liconv -lXext -lSM -lICE -lX11 -lXt -lbz2 -lz -lm -lclparser >>>>> -Wl,-framework,OpenCL >>>>> -L/System/Library/Frameworks/OpenCL.framework/Versions/A/Libraries -lm >>>>> -lpthread -lltdl -F/Library/Frameworks/R.framework/.. -framework R >>>>> -Wl,-framework -Wl,CoreFoundation >>>>> installing to >>>>> /Library/Frameworks/R.framework/Resources/library/EBImage/libs/x86_64 >>>>> ** R >>>>> ** inst >>>>> ** preparing package for lazy loading >>>>> ** help >>>>> *** installing help indices >>>>> ** building package indices ... >>>>> ** testing if installed package can be loaded >>>>> Xlib: extension "RANDR" missing on display ":0.0". >>>>> >>>>> * DONE (EBImage) >>>>> >>>>> ## .signature >>>>> # Walton A. Green >>>>> # E-mail: $ echo wagreenXbricol.net | tr 'X' '@' >>>>> # URL: <http: www.bricol.net=""> >>>>> # Phone: (203) 640-8122 >>>>> #################### 60 characters wide #################### >>>>> >>>>> _______________________________________________ >>>>> Bioconductor mailing list >>>>> Bioconductor at stat.math.ethz.ch >>>>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>>>> Search the archives: >>>>> http://news.gmane.org/gmane.science.biology.informatics.conductor >>>> >>>> _______________________________________________ >>>> Bioconductor mailing list >>>> Bioconductor at stat.math.ethz.ch >>>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>>> Search the archives: >>>> http://news.gmane.org/gmane.science.biology.informatics.conductor >>> >>> >
GO GUI PROcess convert EBImage GO GUI PROcess convert EBImage • 789 views
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