Hi Dr. Greve, Somehow even after adding variables, it's not working, although same qdec file works fine when I perform GLM in qdec. So I replaced the flag with subjectsfile and provided subject list.txt file. So in that way, it's working fine now.
I was also wondering (a) how can I average these thickness stats (b) are these in fsaverage (standard) space and (c) how can I display it on standard fsaverage for publications purpose? Thanks a lot. On Wed, Nov 9, 2016 at 7:39 AM, Douglas Greve <gr...@nmr.mgh.harvard.edu> wrote: > Appears to be having problems reading the qdec table. It might be > expecting the qdec table to actually variables in it. Can you try adding > variables? Also, try it without the --qdec flag instead specifying the > subjects with --subjects HC003_1 HC004_1 ... > > On 11/8/16 8:09 PM, Martin Juneja wrote: > > Hi everyone, > > I am trying to use following command to save stats from a set of subjects > in a table format: > > aparcstats2table --qdec qdec.dat --hemi lh --meas thickness -t zzz.txt > > But after I run this, I get following error: > > Traceback (most recent call last): > > File "/usr/local/freesurfer/bin/aparcstats2table", line 353, in <module> > > subj_listoftuples = assemble_inputs(options) > > File "/usr/local/freesurfer/bin/aparcstats2table", line 228, in > assemble_inputs > > fsid=row['fsid'].strip() > > KeyError: 'fsid' > > My qdec.dat file looks like below: > > fsid HC003_1 > HC004_1 > HC006_1 > HC015_1 > > This command works fine if I use subject IDs individually here e.g. > aparcstats2table --subjects HC_Example HC003_1 HC004_1 HC006_1 HC015_1 > --hemi lh --meas thickness -t zzz.txt > > Another question I have here is: How can I average these thickness stats > and display it on standard fsaverage? > > Any help would be really appreciated. > > > > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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