those look ok. Can you run your selxavg3-sess command with -debug and capture the output in a log file? Eg,
selxavg3-sess -s sess -a SIRP_LoadRegression_Stable5_072915 -debug |& tee doug.log and send me doug.log On 07/30/2015 12:09 PM, Rodriguez-Thompson, Anais wrote: > My preproc-sess command is preproc-sess -s (subject) -d $SUBJECTS_DIR -fsd > bold -fwhm 5 -per-run > > My mkanalysis command is mkanalysis-sess -analysis > SIRP_LoadRegression_Stable5_072915 -TR 2 -paradigm slopepar -event-related > -fsd bold -runlistfile runlistfile -tpef tpef_1.5mm.txt -native -timewindow > 20 -TER 2 -nconditions 9 -gammafit 2.25 1.25 -refeventdur 2 -fwhm 5 -per-run > > Thanks, > Anais > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Thursday, July 30, 2015 12:02 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] selxavg3-sess error > > What is your preproc-sess command and your mkanalysis-sess command? > > > On 07/30/2015 12:00 PM, Rodriguez-Thompson, Anais wrote: >> Hi Freesurfer experts, >> >> I'm having trouble running selxavg3-sess in 5.3 because it is looking for a >> file that does not exist (fmcpr.sm5.nii.gz). I read in another freesurfer >> mail thread that this issue can be fixed by preprocessing the subject. >> However, even after re-preprocessing my subjects at fwhm= 5, this file is >> still not generated. My subjects do have a fmcpr.nii.gz file. Should I >> remake my analysis with fwhm=0 so that it uses this file, or is there a way >> to generate fmcpr.sm5? >> >> Thanks for your help, >> Anais >> _______________________________________________ >> 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 > > _______________________________________________ > 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 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.
