They must be in a single folder and the $SUBJECTS_DIR env variable must be set to that folder. If you know a little unix, you can set up folders with symbolic links to subjects' true directories.
doug On 01/23/2013 02:58 PM, Nucleos P wrote: > Thank you for your help Doug! > I was trying to specify the path to get to the subjects. Do I have to > have all the subjects in a folder called 'subjects'? I know the naming > conventions are important. > Thanks again, > Catherine > > On Fri, Jan 18, 2013 at 6:31 PM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > > actually, looking at your cmd line more I see that you have > slashes (/) > in the subject names. The argument to --subjects should just be a list > of name. See the help (aparcstats2table -h) for examples. > doug > > > On 01/18/2013 04:58 PM, Nucleos P wrote: > > Hello experts: > > > > Can someone please help me understand what I am doing wrong? This is > > the first time I am trying this command and it will not work... > > > > COMMAND: aparcstats2table --subjects /RGS4_31p/rgs0868_raw > > /RGS4_31p/rgs0871_raw /RGS4_31p/rgs0883_raw/ > /RGS4_31p/rgs1194_raw144/ > > /RGS4_31p/rgs1311a/ /RGS4_31p/rgs1370a/ /RGS4_31p/rgs1383a/ -t > > RGS4_31p/aparc.volume.rh -m volume --hemi=rh > > > > PATH: > [/usr/local/freesurfer/subjects/RGS4_31p/rgs0868_raw/stats]:pwd > > /usr/local/freesurfer/subjects/RGS4_31p/rgs0868_raw/stats > > > > ERROR: SUBJECTS_DIR : /usr/local/freesurfer/subjects > > Parsing the .stats files > > ERROR: The stats file /RGS4_31p/rgs0868_raw/stats/rh.aparc.stats is > > not found or is too small to be a valid statsfile > > Use --skip flag to automatically skip bad stats files > > > > > > Thank you, > > Catherine > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 <tel:617-724-2358> > Fax: 617-726-7422 <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > Outgoing: > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto: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. > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
