Hi Doug, When I run: preproc-sess -debug -s nmasa_031_130412 -fsd bold -stc up -surface fsaverage lhrh -min305 -fwhm 5 -per* |& tee fordoug.log
I get: preproc-sess: No match. Thanks, Keji > On Jul 22, 2015, at 3:37 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> > wrote: > > * > Can you run the following > > preproc-sess -debug -s nmasa_031_130412 -fsd bold -stc up -surface > fsaverage lhrh -min305 -fwhm 5 -per* |& tee fordoug.log > > and send me fordoug.log > > > > > On 07/22/2015 02:12 PM, Morenikeji Adebayo wrote: >> Hi there, >> >> I’m running stable: >> >> source /usr/local/freesurfer/stable5_3_0 >> >> Thanks, >> Keji >> >>> On Jul 21, 2015, at 4:56 PM, Douglas Greve <gr...@nmr.mgh.harvard.edu >>> <mailto:gr...@nmr.mgh.harvard.edu>> wrote: >>> >>> what environment are you running in? ie, dev or stable? >>> >>> On 7/21/15 2:12 PM, Morenikeji Adebayo wrote: >>>> Hi there, >>>> >>>> *When running selxavg for the following session:* >>>> >>>> nmasa_031_130412 >>>> * >>>> * >>>> *The following error message was generated:* >>>> * >>>> * >>>> Error using MRIread (line 76) >>>> ERROR: cannot determine format of >>>> /autofs/cluster/iaslab/NMASA/mri/func/encoding/nmasa_031_130412/bold/015/masks/brain.mni305.2mm >>>> (MRIread) >>>> >>>> Error in fast_selxavg3 (line 146) >>>> runmask = MRIread(flac.maskfspec); >>>> * >>>> * >>>> *I did some investigating and discovered that all the bold runs for >>>> this participant are missing the following files:* >>>> * >>>> * >>>> .../func/encoding/nmasa_031_130412/bold/015/masks/brain.mni305.2mm >>>> .../func/encoding/nmasa_031_130412/bold/015/masks/brain.fsaverage.lh.nii.gz >>>> .../func/encoding/nmasa_031_130412/bold/015/masks/brain.fsaverage.rh.nii.gz >>>> * >>>> * >>>> * >>>> So I ran: >>>> >>>> preproc-sess -s nmasa_031_130412 -fsd bold -stc up -surface >>>> fsaverage lhrh -min305 -fwhm 5 -per >>>> >>>> * >>>> * >>>> * >>>> *Which generated the following error message:* >>>> >>>> if: Expression Syntax >>>> >>>> **Do you have any idea what might be going wrong with this subject >>>> or what this error message (**if: Expression Syntax) **means?** >>>> * >>>> * >>>> * >>>> * >>>> Thanks, >>>> Keji >>>> --- >>>> Morenikeji Adebayo >>>> Clinical Research Coordinator >>>> Department of Psychiatric Neuroscience >>>> Massachusetts General Hospital >>>> (p) 617.643.6347 >>>> k...@nmr.mgh.harvard.edu <mailto:k...@nmr.mgh.harvard.edu> >>>> >>>> >>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> --- >> Morenikeji Adebayo >> Clinical Research Coordinator >> Department of Psychiatric Neuroscience >> Massachusetts General Hospital >> (p) 617.643.6347 >> k...@nmr.mgh.harvard.edu <mailto:k...@nmr.mgh.harvard.edu> >> >> >> >> _______________________________________________ >> 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 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > --- Morenikeji Adebayo Clinical Research Coordinator Department of Psychiatric Neuroscience Massachusetts General Hospital (p) 617.643.6347 k...@nmr.mgh.harvard.edu
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