Anil, I was able to successfully run -autorecon1 (after performing my own tal alignment). This included the skullstrip.
How much memory does your machine have? It needs to have at least 2GB. Nick On Wed, 2007-02-14 at 15:49 -0600, Anil Roy wrote: > Nick, > > The files were acquired axially(120 slices) on a GE scanner. These > scans are a couple of years old. I should also inform you that I > converted the orginal 120 slices into afni brik format (afni was able > to read them) and then used mri_convert to convert the BRIK to cor. > Freesurfer then used this cor to run the recon-all pipeline. > > The original files could not be read by Freesurfer which is why I did > that. > > Also, this may be obvious to you but cannot the contrast be simply > changed by Freesurfer. In tkmedit, the brightness and contrast can be > adjusted so isn't there a way that recon-all can use this change while > running the brain. > > Thanks - Anil > > > On 2/14/07, Nick Schmansky <[EMAIL PROTECTED]> wrote: > Anil, > > The image has almost no contrast. I've attached a TIFF of one > slice. > How was this acquired? Bruce, any idea why it would be so > white? > > Nick > > > On Wed, 2007-02-14 at 16:10 -0500, [EMAIL PROTECTED] wrote: > > The following files have been uploaded to the Martinos > Center FileDrop site > > by Anil Roy for you to download: > > > > (1) orig.mgz > > > > > > > > These files will expire in 30 days. > > > > To view or download these files, go in your web browser to: > > > > > > https://www.nmr.mgh.harvard.edu/facility/filedrop/showgroup/5010/426/7389dc72a7ad03d19b7736c8a7adff69 > > > > DO NOT SHARE this web address with anyone else. It is your > personal access key to the files. > > > > Overall Comment about files from Anil Roy: > > > > Hi, > > > > Attached is the orig.mgz file for the subject that quits at > the watershed step. > > > > Thanks, > > > > Anil. > > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
