You have specified both -surface and -native which conflict with each other. In this case, it will use native space which forces it to use per-session (no way to avoid this). doug
On 03/29/2013 01:08 PM, SHAHIN NASR wrote: > Hi, > I used to run my mkanalysis-sess without indicating -per-run or > -per-session, assuming that when I have pre-processed my files with > -per-run flag then selxavg3-sess will do the same. But when I checked > the analysis.info <http://analysis.info> I noticed "PerSession 1" > which I think it means system will use per-session preprocessing. So, > this time I explicitly used -per-run in my mkanalysis-sess as below: > > preproc-sess -s <SubjId> -per-run -fwhm 5 -fsd bold -fwhm 5 -surf self > rhlh > > mkanalysis-sess -analysis Reward.rh -surface self rh -native -fwhm 5 > -paradigm Conds.par -event-related -polyfit 2 -gammafit 2.25 1.25 > -mcextreg -TR 2.000 -nconditions 7 -refeventdur .10 -fsd bold -per-run > -force > > This time when I ran selxavg3-sess command I faced this error: > > ERROR: cannot determine format of > /autofs/cluster/tootell/pitcairn/1/shahin/Reward/Subjects/limi1/bold/004/fmcpr.sm5 > (MRIread) > > > Error in flac_customize (line 87) > mri = MRIread(fstem,1); > > Error in fast_selxavg3 (line 65) > flac0 = flac_customize(flac0); > > >> ------------------------------------------ > ERROR: fast_selxavg3() failed\n > > > As I checked my subjects directory I had these files in /bold/004/ > directory: > > fmcpr.nii.gz > fmcpr.sm5.self.rh.nii.gz > fmcpr.sm5.self.lh.nii.gz > > Notably, if I drop that -per-run flag from my mkanalysis-sess then > system works without any problem. But then I am not sure whether I > have processed my data in per-run or per-session mode. > > Any help will be appreciated > Regards > > > -- > Shahin Nasr > > PhD in Cognitive Neuroscience > Martinos Imaging Center, MGH > Harvard Medical School > > > _______________________________________________ > 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: 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 The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
