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-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve
[gr...@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.anastasopou...@lumc.nl wrote:
> F5_removeLastScript(document,'F5_cookieInitId');F5_initializeCookiesFromMeta();
>
> 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
>
>
> _______________________________________________
> Freesurfer mailing list
> 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
Phone Number: 617-724-2358
Fax: 617-726-7422
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Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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