The XQuartz website you linked makes it sound like it is identical to X11, is it different in some way? I have X11 already and it works flawlessly with other applications such as AFNI and FSL.
On Mon, Oct 28, 2013 at 12:36 PM, Z K <zkauf...@nmr.mgh.harvard.edu> wrote: > Mike, > > You need to install XQuartz: > http://xquartz.macosforge.org/**landing/<http://xquartz.macosforge.org/landing/> > > Also see the following troubleshooting page: > http://ftp.nmr.mgh.harvard.**edu/fswiki/freesurfer_GUIs_**troubleshooting<http://ftp.nmr.mgh.harvard.edu/fswiki/freesurfer_GUIs_troubleshooting> > > -Zeke > > > On 10/28/2013 03:17 PM, Michael Datko wrote: > >> Hi Anastasia, >> I've attached my configuration file, and below is pasted the contents of >> the error log. Below that, I've pasted the last few lines of the >> trac-all log (not the error log), because it says something about a >> "dyld" that cannot be loaded...might be related to the problem. >> >> Thanks, >> Mike >> >> from error log: >> >> ------------------------------ >> SUBJECT 226A >> DATE Tue Oct 15 18:38:18 PDT 2013 >> USER mdatko >> HOST captain-cosine.local >> PROCESSOR i386 >> OS Darwin >> Darwin captain-cosine.local 10.8.0 Darwin Kernel Version 10.8.0: Tue Jun >> 7 16:33:36 PDT 2011; root:xnu-1504.15.3~1/RELEASE_**I386 i386 >> $Id: trac-preproc,v 1.17.2.8 2013/02/16 20:57:05 ayendiki Exp $ >> /Applications/freesurfer/bin/**trac-preproc >> PWD /Users/mdatko/Desktop >> CMD mri_probedicom --i /Users/mdatko/Desktop/226A/**dti/i00001.CFMRI.1 >> >> Last few lines from non-error log: >> >> mri_probedicom --i /Users/mdatko/Desktop/226A/**dti/i00001.CFMRI.1 > >> /Users/mdatko/Desktop/tracula_**tutorial/data/freesurfer/226A/** >> dmri/dcminfo.dat >> dyld: Library not loaded: /opt/X11/lib/libGLU.1.dylib >> Referenced from: /Applications/freesurfer/bin/**mri_probedicom >> Reason: image not found >> Darwin captain-cosine.local 10.8.0 Darwin Kernel Version 10.8.0: Tue Jun >> 7 16:33:36 PDT 2011; root:xnu-1504.15.3~1/RELEASE_**I386 i386 >> >> trac-preproc exited with ERRORS at Tue Oct 15 18:38:18 PDT 2013 >> >> >> >> >> >> >> On Tue, Oct 22, 2013 at 8:04 AM, Anastasia Yendiki >> <ayend...@nmr.mgh.harvard.edu >> <mailto:ayend...@nmr.mgh.**harvard.edu<ayend...@nmr.mgh.harvard.edu>>> >> wrote: >> >> >> Hi Mike - I'll need to see the configuration file and trac-all.log. >> >> Thanks, >> a.y >> >> On Mon, 21 Oct 2013, Michael Datko wrote: >> >> Hello,I am running into a tracula error very early in the >> preprocessing steps. >> >> I have data that was already somewhat preprocessed >> (reconstruction, eddy >> correction and magnetic field inhomogeneity correction) that I'm >> trying to use >> as an input. I have turned off those steps in the tracula >> configuration file. >> Tracula seems to find these files and starts making a few of >> the dwi output >> files in the subject's freesurfer/dmri folder. However, it then >> says >> something about not having the correct "frames" and it can't >> find the file >> dwi_frames.nii.gz. I'm not sure what this error is referring >> to. I attempted >> to run the same subject's data from their raw dicoms instead of >> the >> slightly-preprocessed file and also ran into errors. If it makes >> a >> difference, the subject had recon-all performed with freesurfer >> version 5.0 >> and I am now using version 5.3. Perhaps the subject is missing >> some necessary >> recon-all output that is only created with 5.3? Any advice? >> >> Thanks, >> Mike Datko >> >> >> >> >> >> The information in this e-mail is intended only for the person to >> whom it is >> addressed. If you believe this e-mail was sent to you in error and >> the e-mail >> contains patient information, please contact the Partners Compliance >> HelpLine at >> >> http://www.partners.org/__**complianceline<http://www.partners.org/__complianceline> >> >> >> <http://www.partners.org/**complianceline<http://www.partners.org/complianceline>> >> . If the e-mail was sent to >> you in error >> but does not contain patient information, please contact the sender >> and properly >> dispose of the e-mail. >> >> >> >> >> ______________________________**_________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer<https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> >> >>
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