Re: [Freesurfer] Qdec "create stats tables" error

Hi Markus,

maybe for some weird reason it uses the subjects_dir from the environment variable instead of the qdec file (that would probably be a bug). If that's the case, try setting the subject dir on the command line before starting qdec: setenv SUBJECTS_DIR ~/Documents/ARNAUD/ (or the full path). If you use a bash shell, use the equivalent export command for that.

Best, Martin

On 09/12/2014 03:30 PM, Markus Gschwind wrote:

Dear all,

I am trying to make work Qdec on my system ubuntu 12.04.

freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0

After I have loaded my qdec.table.dat and renamed the analysis folder , when I then try to create the "stats tables", I get an error and it blocks at 20% of the waiting bar.

    Data table loading completed successfully.

    SUBJECTS_DIR is '~/Documents/ARNAUD/'

    mkdir -p /usr/local/freesurfer/subjects/qdec/stats_tables/

    mkdir: cannot create directory
    `/usr/local/freesurfer/subjects/qdec': Permission denied

    ERROR: In
    /usr/pubsw/packages/KWWidgets/CVS-vtk560/KWWidgets/vtkKWTkUtilities.cxx,
    line 230

    vtkKWQdecApp (0x289a94e0): 

      Script: 

    vtkTemp2 GenerateStatsDataTables

      Returned Error on line 1: 

    Uncaught exception: command failed: mkdir -p
    /usr/local/freesurfer/subjects/qdec/stats_tables/


    Stack trace: 

    Uncaught exception: command failed: mkdir -p
    /usr/local/freesurfer/subjects/qdec/stats_tables/


      while executing

    "vtkTemp2 GenerateStatsDataTables"

It seems that it tries to write into the default SUBJECT_DIR, thing that I do not understand as I put the actual SUBJECT_DIR in the top line of qdec.table.dat (and it is correctly recognized in the qdec window SUBJECTS_DIR).

How could I come around that problem?

Thanks in advance! Markus

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