Re: [Freesurfer] tksurfer

2009-10-01 Thread Ahmed, F, Me
Hello, I seem to have a slight problem. I tried to update the Nvidia graphics driver, as I do have this, however, when I typed in: su root /sbin/init 3 It closed my terminal, closed the desktop and seemed to be restarting VMware, it went to the start up page for VMware, and asked me for usern

Re: [Freesurfer] tksurfer

2009-10-01 Thread Ahmed, F, Me
Please disregard my last email, my computer restarted and after this, VMware loaded up normally. -Original Message- From: Ahmed, F, Me Sent: 01 October 2009 09:24 To: 'Nick Schmansky'; Abe, Sumiko Cc: Freesurfer Mailing List Subject: RE: [Freesurfer] tksurfer Hello, I seem to have a

Re: [Freesurfer] tksurfer

2009-10-01 Thread Ahmed, F, Me
Tim, How does one install VirtualGL and its dependencies on their system? Thanks -Original Message- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Timothy Vickery Sent: 30 September 2009 18:12 To: Nick Schmansky Cc: Ahmed, F,

[Freesurfer] RES: R:Re: Re: problem display tksurfer in vmware

2009-10-01 Thread Pedro Paulo de Magalhaes Oliveira Jr
The sudo password is brain2009 with this information you can succesfully install FSL using that procedure. Cheers PPJ -- Enviado do meu celular Nokia E71 -Msg original- De: giacomo.man...@gmail.com Enviado: 01/10/2009 07:00:09 Assunto: R:Re: Re: [Freesurfer] problem display tksurfer

Re: [Freesurfer] How to calculate differences using the longitudinal data

2009-10-01 Thread Weisinger, Brian (NIH/OD) [E]
So if the stats file in the tpN.long.base is empty then something went wrong when I ran the longitudinal stream? I checked the stats file and nothing was in there. On 9/30/09 2:49 PM, "Martin Reuter" wrote: Hi Brian, after the longitudinal runs are through you have directories tpN.long.base f

Re: [Freesurfer] How to calculate differences using the longitudinal data

2009-10-01 Thread Martin Reuter
Yes, you should for example have a file in tpN.long.base/stats/aseg.stats with the volume information. If those are not there, something went wrong. Take a look at *.long.*/scripts/recon-all.log. Martin On Thu, 2009-10-01 at 09:13 -0400, Weisinger, Brian (NIH/OD) [E] wrote: > So if the stats f

Re: [Freesurfer] map .xls or .txt file to fsaverage

2009-10-01 Thread Douglas N Greve
The easiest thing to do is to specify your output of mri_surf2surf as mgh format instead of curv. The read that directly into matlab with our MRIread() matlab command (ie, no mris_convert stage). Make your computations in matlab, then write them out as mgh format using MRIwrite(). doug Feng-Xi

Re: [Freesurfer] How to calculate differences using the longitudinal data

2009-10-01 Thread Martin Reuter
Hi Brian, when you use the longitudinal stream in FreeSurfer, it accounts for the 'relatedness' therefore the resulting information (e.g. segmentation labels, volume measures, thickness measures, surface locations etc. ) will be more accurate (on average) than if you'd just process the different t

Re: [Freesurfer] How to calculate differences using the longitudinal data

2009-10-01 Thread Douglas N Greve
If you do a text search on our wiki for "paired" it will take you to the instructions for doing a paired analysis. doug Martin Reuter wrote: > Hi Brian, > > when you use the longitudinal stream in FreeSurfer, it accounts for the > 'relatedness' therefore the resulting information (e.g. segmentat