[Freesurfer] rebuild_gca_atlas/mri_ca_train error

2009-06-10 Thread Kevin Scheibel
didn't think a talairach transform for my subjects would be useful. Also, it seems that this script points at seg_edited.mgz as a directory, even though I have it set up in my directory as a file. Kevin Scheibel k.schei...@ucla.edu ___ Fre

[Freesurfer] mris_anatomical_stats

2009-06-08 Thread Kevin Scheibel
7fff52ee6000-7fff5310f000 rw-p 7fff52ee6000 00:00 0 [stack] ff60-ffe0 ---p 00:00 0 [vdso] /ifs/woods/scott_temp/kevin_work/freeseg/freesurfer-4.3.0_64bit/bin/mris_ana tomical_stats.sh: line 8: 28655 Aborted /usr/local/freesurfer-4.3.0_64bit/bin/mris_anatomical_stats $@

RE: [Freesurfer] changing psubmit to qsub in rebuild script

2009-06-02 Thread Kevin Scheibel
appen to be the faster processors in our cluster) and the second just emails the user of the submission. So just submit whatever is in the '$cmd' var to qsub. Nick On Mon, 2009-06-01 at 12:29 -0700, Kevin Scheibel wrote: > Hey All, > > > > The cluster that I submit j

[Freesurfer] changing psubmit to qsub in rebuild script

2009-06-01 Thread Kevin Scheibel
guess I'm looking for the equivalent of psubmit's configuration settings in qsub. I.e. how would I write the following homologous command in qsub?: psubmit -l nodes=1:opteron -m $USER -c "$cmd" Kevin Scheibel k.schei...@ucla.edu _

[Freesurfer] mri_ca_train on primate data

2009-05-15 Thread Kevin Scheibel
cortex in our brains. Is this necessary? 2. Can I create a .gca file with mri_ca_train that can then be used by mri_ca_label to label a novel dataset without having to use rebuild_gca_atlas.csh? Thanks! Kevin Scheibel k.schei...@ucla.edu