Re: [Freesurfer] Memory allocation problem with mri_robust_template

2011-09-06 Thread Jeff Sadino
Hello, I am having a problem with mri_robust_template using too much RAM and causing my computers to freeze. I am using fs510. I think I would like to try to convert the inputs to uchar as Martin suggested, but I am not sure exactly where to do this. Would I issue this command: For each

Re: [Freesurfer] Memory allocation problem with mri_robust_template

2011-02-11 Thread Mahen
To Martin, Thanks a bunch. I haven't tested out all the recommendations, but at least I know what's going on. If I did want to convert to uchar, how would I go about this? Is there a function included in the Freesurfer package, or would I have to write my own function to do so? It's not a

[Freesurfer] Memory allocation problem with mri_robust_template

2011-02-08 Thread Mahen
Hi all, Since upgrading to Freesurfer v5.0, I have been unable to complete the first step of recon-all ('recon-all -autorecon1 -subjid ...') when using 5 anatomical datasets (our typical load for surface reconstruction). The problem seems to come when the third dataset is being registered, at

Re: [Freesurfer] Memory allocation problem with mri_robust_template

2011-02-08 Thread Martin Reuter
Hi Mahen, 4.5 is based on flirt registration which does a pairwise registration to the first image. Since 5.0 we use the mri_robust_template tool (as it can ignore outlier regions and produces more accurate registrations, see Reuter et al Neuroimage 2010 ..robust registration), but it is more