Hello,

you are right, further up I get an error, that it couldnt find the subjects in the SUBJECTS_DIR

So I tried bert, which I copied into my SUBJECTS_DIR, but this doesnt work either.. It should be enough for qdec to find the subjects directory, if the SubjID (in the qdec.table.dat) is bert, right? Here is the error:

SUBJECTS_DIR is '/home/ubuntubeast/Documents/freesurfer_subj_dir' Verifying subject data.ERROR: QdecProject::VerifySubjects: Couldn't find subject 'bert' in SUBJECTS_DIR Input table: /home/ubuntubeast/Documents/freesurfer_subj_dir/qdec/qdec.table.dat Subj#, SubjID, Data... 1 bert 10.900000 control 1 Age continuous 0 2 Group discrete 3 1 positive 2 negative 3 control Continuous Factors: Mean: StdDev: ------------------- ----- ------- Age 10.900 -nan

Number of subjects: 1 Number of factors: 2 (1 discrete, 1 continuous) Number of classes: 3 Number of regressors: 6 ============================================================ Data table loading completed successfully. SUBJECTS_DIR is '/home/ubuntubeast/Documents/freesurfer_subj_dir'

Thanks!

________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [greve@nmr.mgh.harvard.edu] Sent: Wednesday, September 7, 2016 11:44 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] qdec: Generate Stats Data tables {Disarmed}

Is that all the terminal output it gave? If not, can you provide the rest? Did it print out an asegstats2table command in the terminal?

On 09/07/2016 05:40 PM, C.Anastasopoulos@lumc.nl wrote:

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Hello,

I am facing a problem similar to what others in the community have reported: when trying to "Generate Stats Data tables" in qdec, I get following error:

SUBJECTS_DIR is '/home/ubuntubeast/Documents/freesurfer_subj_dir' mkdir -p /home/ubuntubeast/Documents/freesurfer_subj_dir/qdec/stats_tables/ ERROR: In /usr/pubsw/packages/KWWidgets/CVS-vtk560/KWWidgets/vtkKWTkUtilities.cxx, line 230 vtkKWQdecApp (0x287ec5a0): Script: vtkTemp2 GenerateStatsDataTables Returned Error on line 1: Uncaught exception: command failed: mkdir -p /home/ubuntubeast/Documents/freesurfer_subj_dir/qdec/stats_tables/

Stack trace: Uncaught exception: command failed: mkdir -p /home/ubuntubeast/Documents/freesurfer_subj_dir/qdec/stats_tables/

while executing

"vtkTemp2 GenerateStatsDataTables"

I tried using the command asegstats2table --common-segs --meas volume --e /home/ubuntubeast/Documents/freesurfer_subj_dir/qdec/stats_tables/aseg.volume.stats.dat --statsfile=aseg.stats --subjects 001 002 003 004

which gave NO errors.

Do you have any suggestions? I am using .csh and freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 on a Ubuntu 14.04

Thank you in advance, Constantin

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