It is supposed to be created by recon-all. If you already ran recon-all, then it probably failed. Look at the log file. doug
On 07/20/2012 12:27 PM, David Eugene Klein wrote:
I suppose not. How do I create one?
These are the options I get when I list (ls):
brainmask.auto.mgz brainmask.mgz ctrl_pts.mgz mri_nu_correct.mni.log mri_nu_correct.mni.log.bak norm.mgz nu.mgz orig orig,mgz rawavg.mgz T1.mgz talairach.label_intensitites.txt talairach.log talairach_with_skill.og transforms
On Jul 20, 2012, at 11:21 AM, Douglas N Greve wrote:
ls $SUBJECTS_DIR/subject/mri/wm.mgz
On 07/20/2012 11:55 AM, David Eugene Klein wrote:
It should…how can I check if it does? On Jul 20, 2012, at 10:48 AM, Douglas N Greve wrote:
Does wm.mgz exist? doug
On 07/20/2012 11:02 AM, David Eugene Klein wrote:
Hello,
I'm using freesurfer edit in the tkmedit format and running into issues.
I'm editing them in quest server. I type the following command:
tkmedit<subjid> brainmask.mgz -aux wm.mgz -surfs
where<subjid> is the subject.
The subject loads but I get the following error message, and the red and yellow lines that are supposed to appear do not:
Error: Loading volume wm.mgz
Couldn't read the anatomical volume. Tkmedit couldn't read the volume you specified.
This could be because the image format wasn't recognized, or it couldn't find the proper header, or the file (s) were unreadable, or it was the wrong size.
I have run recon-all so I don't think that's the problem. If someone could help me figure this out it would be greatly appreciated.
Thank you.
David Klein _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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 . 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.
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html