Hi Derek - Indeed this looks not to be in MNI coordinates, and I haven't been able to replicate the problem in our own longitudinal data. Did you by any chance have any subjects that had only a single time point?
a.y On Thu, 7 Jul 2016, Derek Pisner wrote: > Sure thing. fmajor mean.txt file is attached. > > > Thanks a bunch, > -Derek > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Anastasia Yendiki > [ayend...@nmr.mgh.harvard.edu] > Sent: Thursday, July 07, 2016 4:48 AM > To: Freesurfer support list > Subject: Re: [Freesurfer] TRACULA group stats visualization > > Hi Derek - this is strange. The dev and 5.3 version of freeview should > display them differently. Can you send me one of those mean.txt files? > > a.y > > On Wed, 6 Jul 2016, Derek Pisner wrote: > >> Hi Anastasia, >> >> This occurs for me on both stable and dev versions of freview and trac-all >> -stat >> >> -Derek >> ________________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Anastasia Yendiki >> [ayend...@nmr.mgh.harvard.edu] >> Sent: Monday, July 04, 2016 12:47 AM >> To: Freesurfer support list >> Subject: Re: [Freesurfer] TRACULA group stats visualization >> >> Hi Derek - Are you by any chance using the dev version of freeview? >> >> a.y >> >> On Fri, 1 Jul 2016, Derek Pisner wrote: >> >>> Dear Anastasia, >>> I am running into an issue with the trac-all -stat option on our >>> longitudinal TRACULA data. >>> >>> Everything runs smoothly through all earlier stages, and I checked >>> individual subjects' merged outputs in freeview with -tv mode. Everything >>> looks fine. >>> >>> Also, then when I run trac-all -c dmric_config -stat, everything finishes >>> without error. >>> >>> But then when I open the results with the command: >>> freeview -v $FSLDIR/data/standard/MNI152_T1_1mm_brain.nii.gz -w >>> /data/blt/TRACULA/tractography_output/stats.long/*.path.mean.txt >>> >>> I get the image seen in the attached .png file. Any idea what might be >>> causing this? >>> >>> Many thanks in advance for you help. >>> >>> Best, >>> Derek >>> >>> >>> >>> >> >> _______________________________________________ >> 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 > > > 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. > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
