Hi Zeke,
That resolved the issue. Thank you very much.
Warmest Regards, Anderson Napolitano ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of freesurfer-request@nmr.mgh.harvard.edu freesurfer-request@nmr.mgh.harvard.edu Sent: Wednesday, January 18, 2017 10:00 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Freesurfer Digest, Vol 155, Issue 27
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Today's Topics:
1. installation fail :( (Shapiro, Allison L) 2. Re: TRACULA in FreeSurfer 6.0 trac-paths error (Derek A Pisner) 3. PETSURFER Tutorial Problems <Repost> (Anderson Napolitano) 4. question about cortical volume group analyses (Ritobrato Datta) 5. Re: V6beta: recon-all --noasegfusion does not initialize using longbase aseg.mgz; how to handle aseg edits in longitudinal stream (Antonin Skoch) 6. FS Anatomic ROIs Atlas (Da, Xiao) 7. Anatomical ROI parcellation (Aya Kabbara) 8. Re: Anatomical ROI parcellation (Anthony Dick) 9. Re: FS Anatomic ROIs Atlas (Douglas N Greve) 10. Re: V6beta: recon-all --noasegfusion does not initialize using longbase aseg.mgz; how to handle aseg edits in longitudinal stream (Antonin Skoch) 11. WM lobes and Corpus Callosum (Bharadwaj, Pradyumna - (prad)) 12. Re: WM lobes and Corpus Callosum (Yendiki, Anastasia) 13. Re: mri_vol2surf (Zhivago) 14. 'nuisance factors adjusted' values (hiroki.sato@med.tohoku.ac.jp) 15. recon-all error (Freesurfer) ( Gwang-Won Kim ) 16. Question (N Saf) 17. Re: mri_vol2surf (Bruce Fischl) 18. Neuroimaging postdoctoral position (Tiril Pedersen Gurholt) 19. Re: Question (Bruce Fischl) 20. mris_make_surfaces error with bbr-init-header (Sneha Pandya) 21. Re: mris_make_surfaces error with bbr-init-header (Bruce Fischl) 22. Re: Fwd: QDEC versus Terminal annotation (Douglas N Greve)
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Message: 1 Date: Tue, 17 Jan 2017 16:50:29 +0000 From: "Shapiro, Allison L" ALLISON.SHAPIRO@ucdenver.edu Subject: [Freesurfer] installation fail :( To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Message-ID: CB7C3006-2F82-44E5-BE71-0A5354DF90B6@ucdenver.edu Content-Type: text/plain; charset="utf-8"
Dear FreeSurfer support,
I am a new user of the Freesurfer program and attempted to install everything this morning on my Mac OSx 10.11.6 (El Capitan). To preface everything, I updated my XQuartz program before installing, and I do not have Matlab on this computer and understand that I can?t use the fMRI functionality without this, but this is not my goal.
The installation appeared to go as planned, but when I went to test the installation with the commands:
$> <source_freesurfer> $> freeview -v $SUBJECTS_DIR/bert/mri/brainmask.mgz -v $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red
I received the following error:
-bash: $: command not found
I was not able to decipher this error with The Google, so I am hoping that you can help.
Thank you so much for your time!
Best Wishes, Allie
Allison L B Shapiro, MPH, PhD Postdoctoral Research Fellow LEAD Center | Colorado School of Public Health Office 303.724.7708
?Those who dare to fail miserably can achieve greatly? - JFK