Hi Mishkin,
Are all the fields blank in the aseg.stats table, or just for some things? It shouldn't be like this. It may be that there are some structures listed in that file that are not labeled in the aseg and then reported as a zero, but it shouldn't be all of them. Were there any error messages at the end of this particular subject's scripts/recon-all.log?
Jenni
On Tue, 5 Jun 2007, Mishkin Derakhshan wrote:
Hi, After running the -subcortseg option, i see the output volumes of certain structures on the screen. Are they stored anywhere in a text file? I checked stats/aseg.stats, and while the column headers indicate that there should be values for NVoxels and Volume_mm3, in the table those two fields are blank for all labels. Is this a bug, or is there another option I need to set to get those fields filled in? thanks, mishkin
On 6/1/07, Doug Greve greve@nmr.mgh.harvard.edu wrote:
unfortunately, you have to go thru the segmentation as that is part of the surface-based stream.
doug
David Perlman wrote:
On this topic, if I *don't* want subcortical segmentation, but rather only surface generation and thickness maps, what's the best option to use for that? It seems like it might be -noaseg, but I couldn't find any references to this flag being used with human data, only with non- human primates, so I thought I'd ask before I assumed I'd figured it out.
On Jun 1, 2007, at 1:49 PM, Bruce Fischl wrote:
yes, sorry. The subcortical segmentation is early in the processing stream, and pretty much the slowest step.
-- -dave---------------------------------------------------------------- Science arose from poetry... when times change the two can meet again on a higher level as friends. -Göthe
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