Julia,

Most likely the processed data for that subject is out of sync (stuff rerun later and out of order). If you run:

recon-all -s subjid -make all

then it should do nothing if all the data files were created in the right order. I would add -dontrun to that recon-all command so it just prints what it will run in case stuff is out of sync.

The -qcache option will print a warning to the recon-all.log if it cant find a measure. It prints a warning instead of stopping because some measures (jacobian_white for instance) dont exist on older freesurfer data.

So, in short, run recon-all -s subj -make all

on your subjects.

Nick

On Fri, 2008-12-05 at 21:38 +0000, Julia Altenburg wrote:

Hi, when running qdec the following error shows up. It is possible to run the analysis for the lh. thickness and area but not for the same in rh. In the single subject folders the averages for rh. are missing. qcache did run without any error messages.

I thought it could have something to do with the fsaverage or qcache, but changes within those didn't change the message.

With -emacx I found out that there were problems within the lh. process allready. It seems to be the same error then the following I found something simmilar in the mailing list:

ERROR: number of vertices in /usr/local/freesurfer/subjects/4964-14_recon/surf/lh.thickness does not match surface (138139,137319)ERROR: reading curvature file

why is it that rh. isn't readable then? Is there anything then running the whole recon-all process again I could do?

Thanks a lot in advance I'm thankful for any advice

Julia

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