Re: [Freesurfer] differing display colors for 2+ labels in tksurfer

2018-06-21 Thread Kathryn Devaney
External Email - Use Caution Idil, From the command line with tksurfer open you can use the labl_set_color command - label is zero indexed based on the order that they were loaded. See here for more details:

Re: [Freesurfer] funcroi-table-sess error, set: Variable name must begin with a letter

2013-08-30 Thread Kathryn Devaney
Hi Doug Surfers, I'm having this same issue. I'm running funcroi-table-sess on two analyses (lh and rh). There was no 'log' folder in my working directory, so I created it. Everythingran fine for the lh, but when I try to run it in the rh I get set: Variable name must begin with a letter

[Freesurfer] mkblockpar

2011-01-26 Thread Kathryn Devaney
Hi all, I may be the only one still using mkblockpar, but I'm wondering if there's an update for the new version of freesurfer? Currently it still outputs 2-column par files. Thanks! Katie ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] Overinclusive white matter surface

2009-04-24 Thread Kathryn Devaney
Apr 2009, Kathryn Devaney wrote: Hi Bruce surfers, That's what I thought initially, but then I did edit the wm.mgz to remove topological defects, and re-ran the reconstruction from the 'fill' step, and this problem remains. I can't find a nearby defect in the wm.mgz volume to edit

Re: [Freesurfer] Overinclusive white matter surface

2009-04-23 Thread Kathryn Devaney
an incorrectly fixed topological defect. You need to edit the wm.mgz to remove the defect and rerun autorecon2-wm cheers, Bruce On Wed, 22 Apr 2009, Kathryn Devaney wrote: Hello freesurfers, I am running a reconstruction of a macaque in stabe4, and I am having a problem with the smooth white matter

[Freesurfer] erroneous 'no space left on device' error

2007-04-04 Thread Kathryn Devaney
Hi all, I am trying to run an analysis in /space/stego/2/ (on machine 'whatever') and I can run mkanalysis, but when I try to run selxavg, I get the following error, in both std and dev environments: whatever:subj27/mystudy% selxavg-sess -sf sessid -df sesspar -analysis m4_fmc -noomnibus

Re: [Freesurfer] erroneous 'no space left on device' error

2007-04-04 Thread Kathryn Devaney
[/homes/3/jpacheco] cd /tmp/ whatever [tmp] df -h . FilesystemSize Used Avail Use% Mounted on /dev/hda2 5.8G 5.5G 0 100% / whatever [tmp] Jenni -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Kathryn Devaney Sent: Wednesday

[Freesurfer] inorm-sess trouble

2006-01-06 Thread Kathryn Devaney
Hi all, I posted a message earlier today from the end of my rope and I think it was a bit terse. Apologies. I'm hoping that someone might have some insight into a (different) problem that's come up with inorm. I'm analyzing three identical subjects. The first two went through fine, but the