Re: [Freesurfer] recon-all script order

2015-11-18 Thread Lauren Bystrom
That's what I was thinking. Thank you ! On Wednesday, November 18, 2015, Douglas N Greve wrote: > There is not an automated way to do this. You might be able to run the > steps piecemeal by specifying the flags for each step individually > > On 11/18/2015 04:29 PM, Lauren Bystrom wrote: > > Hell

Re: [Freesurfer] recon-all script order

2015-11-18 Thread Douglas N Greve
There is not an automated way to do this. You might be able to run the steps piecemeal by specifying the flags for each step individually On 11/18/2015 04:29 PM, Lauren Bystrom wrote: > Hello all, > I am trying to run freesurfer on a set of subjects that have tumors in > their brain. To get arou

[Freesurfer] recon-all script order

2015-11-18 Thread Lauren Bystrom
Hello all, I am trying to run freesurfer on a set of subjects that have tumors in their brain. To get around the tumor, I only want to run freesurfer on one of the hemispheres. When I use hemi -?h, freesurfer exits once it hits the other hemisphere. This is a problem because it doesn't go back to f