Re: [Freesurfer] Maximum number of subjects in make_average_subject?

Martijn, The problem you are encountering with the number of subjects allowed by make_average_subject does not appear to be a memory leak as originally thought, but rather simply a 'too many open files' limit. On the Mac, the limit to the number of open files is 256 (on Linux its 1024). The solu

Re: [Freesurfer] lh.thickness error

This is a problem with how the average subject is generated. There is a bug in the thickness output (it gets mapped to the last subject in the list instead of the average subject). I might not be able to get to it until next week. You can still get it to work if you do not include --projfrac

[Freesurfer] lh.thickness error

Hi all, I was doing mri_vol2surf to overlay functional average(FSL) onto anatomical average (Freesurfer) and got the following error message, ERROR: .. Reading thickness /home/nam/V4RET/average/surf/lh.thickness MRISreadCurvature: could not open /home/nam/V4RET/average/surf/lh.thi

Re: [Freesurfer] surface area

Hi Aaron, they are generated from the ?h.white and the ?h.pial surfaces, and should be what you want. cheers, Bruce On Thu, 22 Feb 2007, Goldman, Aaron (NIH/NIMH) [C] wrote: Hi, I was interested in comparing surface area between two groups on a node-by-node basis (something like average are

Re: [Freesurfer] surface area

Yes, that is exactly what this is. You can run mris_preproc with --meas area and then continue with mri_glmfit just as if you were doing a thickness analysis. doug Goldman, Aaron (NIH/NIMH) [C] wrote: Hi, I was interested in comparing surface area between two groups on a node-by-node ba

[Freesurfer] surface area

Hi, I was interested in comparing surface area between two groups on a node-by-node basis (something like average area of the triangles touching each node) and noticed there were automatically-generated files named lh.area and lh.area.pial I was wondering if these files contained the appropriate d

Re: [Freesurfer] Anonymous svn checkouts?

The freesurfer source code is not yet publicly available. On Thu, 2007-02-22 at 10:19 -0800, James Kyle wrote: > The freesurfer source is a fairly large download. I was hoping to > keep our local copies up to date using an incremental update method > like rsync or, ideally, a versioning system

[Freesurfer] Anonymous svn checkouts?

The freesurfer source is a fairly large download. I was hoping to keep our local copies up to date using an incremental update method like rsync or, ideally, a versioning system like svn. Forgive me if I've missed this information on the wiki. James A. Kyle UCLA Center for Cognitive Neuro S

Re: [Freesurfer] Maximum number of subjects in make_average_subject?

Are you sure the problem isn't simply that, even though your machine is 64-bit, the FreeSurfer MacIntel distribution is only 32-bit? Cheers, Steve. On 22 Feb 2007, at 15:00, martijn van den heuvel wrote: thanks, Ill try to find a Linux machine and run the average. martijn On 2/22/07, Bru

Re: [Freesurfer] Maximum number of subjects in make_average_subject?

let us know if it works, as it will change how high a priority fixing the bug is. cheers, Bruce On Thu, 22 Feb 2007, martijn van den heuvel wrote: thanks, Ill try to find a Linux machine and run the average. martijn On 2/22/07, Bruce Fischl <[EMAIL PROTECTED]> wrote: sure, sorry for the

Re: [Freesurfer] Maximum number of subjects in make_average_subject?

thanks, Ill try to find a Linux machine and run the average. martijn On 2/22/07, Bruce Fischl <[EMAIL PROTECTED]> wrote: sure, sorry for the bug. If you have a linux machine around with a fair amount of ram you should be able to run them though. Not sure why the mac runs out so much more qui

Re: [Freesurfer] Maximum number of subjects in make_average_subject?

sure, sorry for the bug. If you have a linux machine around with a fair amount of ram you should be able to run them though. Not sure why the mac runs out so much more quickly. On Thu, 22 Feb 2007, martijn van den heuvel wrote: Hi bruce, Thanks for looking into my 'maximumnumber?' problem.