Hi Elissa,

this is the real error:
SyntaxError: Missing parentheses in call to 'print'

those scripts use the Python 2 print command and you are running them with Python 3.

In 3, print needs to be like
print("Hello world!")
in 2 it was simply
print "Hello world!"

so make sure you run them with Python 2.

Best, Martin


On 11/13/2015 03:04 PM, Elissa Ash wrote:
Dear Freesurfer support,

I am very new to freesurfer and I thank you in advance for your assistance. I have been trying to run the group analysis tutorial (qdec) and I have encountered the following error messages. I was unable to generate the stats data tables in the tutorial and received the following types of error messages:

1) When trying to run asestats2table in qdec I get an error message that says that the subjects are not specified although they are. The $SUBJECTS_DIR is correct. I even encounter the same error when I just try to run asegstats2table --help (see below):

tegmentum:group_analysis_tutorial gazzlab16$ asegstats2table --subjects 004 045 091 --meas volume --tablefile aseg_stats.txt
  File "/Applications/freesurfer/bin/asegstats2table", line 186
    print 'ERROR: subjects are not specified (use --subjects SUBJECTS)'
                                                                      ^
SyntaxError: invalid syntax

tegmentum:freesurfer gazzlab16$ asegstats2table --help
  File "/Applications/freesurfer/bin/asegstats2table", line 186
    print 'ERROR: subjects are not specified (use --subjects SUBJECTS)'
                                                                      ^
SyntaxError: invalid syntax

2) When trying to run asestats2table I get an error message that says that at least one subject must be provided although they are. The $SUBJECTS_DIR is correct. I even encounter the same error when I just try to run aparcstats2table --help (see below):

tegmentum:group_analysis_tutorial gazzlab16$ aparcstats2table --subjects 004 045 091 --hemi rh --meas thickness --tablefile aparc_stats.txt
  File "/Applications/freesurfer/bin/aparcstats2table", line 151
    print 'ERROR: atleast 1 subject must be provided'
                                                    ^
SyntaxError: Missing parentheses in call to 'print'
tegmentum:group_analysis_tutorial gazzlab16$ aparcstats2table --help
  File "/Applications/freesurfer/bin/aparcstats2table", line 151
    print 'ERROR: atleast 1 subject must be provided'
                                                    ^
SyntaxError: Missing parentheses in call to 'print'


I am not sure how to proceed. Thank you again for your assistance.

Sincerely,
Elissa
-- 
Elissa Ash, MD, PhD
Director, Center for Memory and Attention Disorders
Department of Neurology
Tel Aviv Sourasky Medical Center




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-- 
Martin Reuter, PhD
Assistant Professor of Radiology, Harvard Medical School
Assistant Professor of Neurology, Harvard Medical School
A.A.Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate, CSAIL, MIT
Phone: +1-617-724-5652
Web  : http://reuter.mit.edu