Re: [Freesurfer] qdec permission denied

2009-09-11 Thread Ahmed, F, Me
Nick, I tried running '/usr/sbin/setenforce 0' as root and it worked. Qdec opened. Thank you! -Original Message- From: Nick Schmansky [mailto:ni...@nmr.mgh.harvard.edu] Sent: 10 September 2009 17:50 To: Ahmed, F, Me Cc: Freesurfer Mailing List Subject: RE: [Freesurfer] qdec permissio

[Freesurfer] Calculating ROI size from label, min ROI size

2009-09-11 Thread Agnieszka Burzynska
Dear all, I have 2 questions: 1) I created labels for some ROIs on fsavgerage (qdec analysis). I got statistics from these rois for each individual subject (by map-to-subjects, etc.), but what I am now interested in is to know the size of the ROI on the group level (so on the fsaverage surface).

Re: [Freesurfer] longitudinal processing QA, and problem with aparc+aseg

2009-09-11 Thread muet0005
Hi Bruce, Yes, this was with the longitudinal stream. The command I used was: recon-all -base 2829 -tp 20648 -tp 20995 -all I've uploaded these data to the ftp site: transfer/incoming/RLM_umn_problem_caseB.tgz tp1 20648 & tp2 20995 were fully processed using the cross-sectional stream (recon-

[Freesurfer] Coordinates of center of gravity of FS parcellations

2009-09-11 Thread Jürgen Hänggi
Dear FS experts I am looking for the MNI or Tal-coordinates of the center of gravity (COG) of the aparc.a2005s parcellations of the FS average brain. Do these coordinates exist or how can I compute them easily? Thanks Regards Jürgen --

Re: [Freesurfer] editing aseg.mgz?

2009-09-11 Thread Bruce Fischl
hmmm, I guess the ribbons should override the aseg w.r.t. cerebellum label as well. On Fri, 11 Sep 2009, Kim, Miyoung wrote: > Hi, Doug. > > It is the output after autorecon3 (so yes, aparc+aseg.mgz). > > I found another situation similar to this (different subject) - see attached. > It se