[BioC] EBImage installs but won't load on Mac OS 10.6.4

Tue Nov 30 21:28:58 CET 2010

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
>>>> â??/Library/Frameworks/R.framework/Resources/libraryâ??
>>>> * installing *source* package â??EBImageâ?? ...
>>>> 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 â??magick2SEXPâ??:
>>>> conversions.c:148: warning: â??DispatchImageâ?? is deprecated (declared
>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265)
>>>> conversions.c:153: warning: â??DispatchImageâ?? is deprecated (declared
>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265)
>>>> conversions.c:155: warning: â??DispatchImageâ?? is deprecated (declared
>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265)
>>>> conversions.c:157: warning: â??DispatchImageâ?? is deprecated (declared
>>>> at /opt/local/include/ImageMagick/magick/deprecate.h:265)
>>>> conversions.c:162: warning: â??DispatchImageâ?? 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
>>
>>