Can you verify that that run has the proper number of frames (eg, it does not have a single frame)? Did it create fmcpr.mcdat and/or mcdat2extreg.log? In the projectdir/log folder, there should be a file with a name like /mc-subjectname-bold.log. Can you send that?
On 4/10/19 4:30 PM, Mcnorgan, Christopher wrote: > > External Email - Use Caution > > Hello, I’ve been trying to get to the bottom of why selxavg3-sess is > failing for lack of a mcprextreg motion correction parameters file for > one or more of the functional runs. > I have 6 runs of BOLD data, and following the last failed attempt, we > cleared out the run folders to start again from scratch with > preprocess on the f.nii volumes. > > We are running preproc-sess on a per-run basis: > preproc-sess -sSUBJECTNAME -per-run -surface fsaverage lhrh -mni305 -fsd > bold-fwhm 4 -sliceorder up > After doing this, we find that the folders for runs 1,2,3,4 and 6 > contain the file mcprextreg, but run 5 does not. Consequently, > selxavg3-sess throws an error and aborts when it fails to find this > file for run 5. Prior to our do-over, we had the same issue, so it > appears that this file is reliably not being generated only for run 5. > To further the mystery, a second dataset (different participant) was > recently preprocessed and also is missing this file for runs 1 and 5. > > I notice that the runs with the missing motion correction parameter > each contain a tmpdir.mcdat2extreg.##### folder, which suggests that > the process might have not completed, though it’s odd that it would > have completed for runs 1-4 and 6, but not 5. > > I was hoping someone might have some suggestions for debugging why > this file might not be getting generated, as well as what steps might > be taken to force its creation. I’m going to start by deleting the > tmpdir folders. > > Thanks, > Chris > > /********************************************** > * Chris McNorgan > * Assistant Professor > * Department of Psychology > * University at Buffalo, > * The State University of New York > * http://ccnlab.buffalo.edu/ > * Office: 716.645.0236 > * Lab: 716.645.0222 > **********************************************/ > > > _______________________________________________ > 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
