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Hi FS  Experts,

          I meet some problem when I use QDEC for Group analysis. When I click Generate Stats Data Tables, it report the errors as follows:

       dec/gender.levels
    Female
    Male
done.
Reading discrete factor levels from config file /usr/local/freesurfer/subjects/qdec/diagnosis.levels
    TLE
    extra_TLE
done.

Data table /usr/local/freesurfer/subjects/qdec/qdec.table.dat loaded.
Verifying subject data.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_01' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_03' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_04' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_06' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_11' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_12' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_14' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_47' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_55' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_05' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_16' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_18' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_20' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_23' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_24' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_40' in SUBJECTS_DIR
.sh: 1: Syntax error: Bad fd number
ERROR: QdecProject::VerifySubjects: Couldn't find subject 'PT1_75' in SUBJECTS_DIR
Input table: /usr/local/freesurfer/subjects/qdec/qdec.table.dat
Subj#, SubjID, Data...
    1 PT1_01 Female 23.000000 TLE
    2 PT1_03 Male 38.000000 TLE
    3 PT1_04 Male 26.000000 TLE
    4 PT1_06 Female 45.000000 TLE
    5 PT1_11 Female 20.000000 TLE
    6 PT1_12 Male 23.000000 TLE
    7 PT1_14 Female 39.000000 TLE
    8 PT1_47 Female 30.000000 TLE
    9 PT1_55 Female 22.000000 TLE
   10 PT1_05 Male 42.000000 extra_TLE
   11 PT1_16 Female 34.000000 extra_TLE
   12 PT1_18 Male 30.000000 extra_TLE
   13 PT1_20 Male 40.000000 extra_TLE
   14 PT1_23 Male 30.000000 extra_TLE
   15 PT1_24 Female 29.000000 extra_TLE
   16 PT1_40 Male 30.000000 extra_TLE
   17 PT1_75 Female 24.000000 extra_TLE
1  gender  discrete 2
    1  Female
    2  Male
2  age  continuous 0
3  diagnosis  discrete 2
    1  TLE
    2  extra_TLE
                Continuous Factors:         Mean:       StdDev:
                -------------------         -----       -------
                                age        30.882         7.631

Number of subjects:   17
Number of factors:    3 (2 discrete, 1 continuous)
Number of classes:    4
Number of regressors: 8
============================================================
Data table loading completed successfully.
SUBJECTS_DIR is '/usr/local/freesurfer/subjects'
mkdir -p /usr/local/freesurfer/subjects/qdec/stats_tables/

----------------------------------------------------------
asegstats2table --common-segs --meas volume --tablefile /usr/local/freesurfer/subjects/qdec/stats_tables/aseg.volume.stats.dat --statsfile=aseg.stats --subjects PT1_01 PT1_03 PT1_04 PT1_06 PT1_11 PT1_12 PT1_14 PT1_47 PT1_55 PT1_05 PT1_16 PT1_18 PT1_20 PT1_23 PT1_24 PT1_40 PT1_75
  File "/usr/local/freesurfer/bin/asegstats2table", line 195
    print 'ERROR: subjects are not specified (use --subjects SUBJECTS)'
                                                                      ^
SyntaxError: invalid syntax

I have read some answer in the freesurfer mailing list, but  I still don't know how to deal with it. Could you please give me some suggestion?

Thanks,

Kan

 

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