Hi Falk
thanks for catching the typo. I fixed it - nice to have an easy thing to fix for a change :)
Bruce
On Fri, 25 Jan 2019, falk.luesebrink@med.ovgu.de wrote:
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Dear Juergen,
Thanks for your quick reply! Actually the spelling error is in the error message. Taken from http://martinos.org/~mreuter/long/long_mris_slopes
# extensive error checks
# if options.fsgd is None and
if options.qdec is None:
# print 'ERROR: Specify --fsgd or --qedc'
parser.print_help()
print '\nERROR: Specify --qedc (and other required arguments)\n'
sys.exit(1)
# if options.fsgd is not None and options.qdec is not None:
# print 'ERROR: Specify either --fsgd or --qedc, not both'
# sys.exit(1)
At least Martin is consistent with his typo. :D
Best,
Falk
Von: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu Im Auftrag von Juergen Haenggi Gesendet: Freitag, 25. Januar 2019 10:35 An: Freesurfer Mailinglist freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] Longitudinal processing with windows subsystem for linux (WSL) using ubuntu 18.04.1 LTS
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Dear Falk
I have no idea, but recognised that the error refers to --qedc and not to --qdec.
maybe there is a spelling error somewhere that is related to your problem.
HTH
Cheers
Jürgen
University of Zurich
Dr. Jürgen Hänggi, Ph.D.
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On 25 Jan 2019, at 10:26, falk.luesebrink@med.ovgu.de wrote:External Email - Use Caution
Dear all,
Has anyone run the longitudinal pipeline successfully using the WSL? I’m running it with Ubuntu 18.04.1 LTS and freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c.
I’m trying to process my first longitudinal data set following the instructions of the tutorial as close as possible. The data has been processed without issues and now I want to do the statistical analysis. When I run:
long_mris_slopes --qdec ./long.qdec.table.dat --meas thickness --hemi lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time years --qcache fsaverage --sd $SUBJECTS_DIR
I get the following error:
File "/home/luesebri/Software/FreeSurfer/bin/long_mris_slopes", line 448
print '\nERROR: Specify --qedc (and other required arguments)\n'
^
SyntaxError: invalid syntax
I get comparable errors for any other long_* command I try to run, e.g. long_qdec_table with or without any arguments gives:
File "/home/luesebri/Software/FreeSurfer/bin/long_qdec_table", line 119
print '\nERROR: Specify --qedc'
^
SyntaxError: Missing parentheses in call to 'print'. Did you mean print('\nERROR: Specify --qedc')?
Does anyone have a clue where this error originates from using either WSL or Ubuntu 18.04?
Best,
Falk
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