External Email - Use Caution Hi Anastasia,
I'm using FSL 6! Hope this helps, Jocelyn On Thu, Jul 23, 2020 at 8:47 AM Yendiki, Anastasia <ayend...@mgh.harvard.edu> wrote: > Hi Jocelyn - I'm having a hard time replicating this error. What version > of FSL are you using? You can see this in the file $FSLDIR/etc/fslversion. > > Thanks! > > a.y > ------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Jocelyn Ra < > jocelyn...@yale.edu> > *Sent:* Wednesday, July 8, 2020 7:22 AM > *To:* Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Subject:* Re: [Freesurfer] Error in Trac-All Pre-Processing step > > > External Email - Use Caution > > Hi Anastasia! > > Thank you for taking the time to help me with this! > I will send along the trac-all.log file for my run directly to you via > email, since my previous attempts to post it were rejected by the > Freesurfer mailing list moderators. > > Thank you once again! > Sincerely, > Jocelyn > > On Tue, Jun 30, 2020 at 12:51 AM Yendiki, Anastasia < > ayend...@mgh.harvard.edu> wrote: > > Hi Jocelyn - It's strange to get this in the tutorial data, it's the kind > of thing you might get if the FS recon was missing part of the brain or if > the alignment between datasets was not good. So I'm surprised you're > getting this in the tutorial data. Can you please send your entire > trac-all.log file? > > Thanks! > a.y > ------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Jocelyn Ra < > jocelyn...@yale.edu> > *Sent:* Monday, June 29, 2020 11:08 AM > *To:* freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu> > *Subject:* [Freesurfer] Error in Trac-All Pre-Processing step > > > External Email - Use Caution > > Hi all, > > After running the trac-all command in the pre-processing step in the > official TRACULA tutorial, I ran into the following error: > > WARN: Could not find satisfactory control point fit - try 4718 > Writing output files to > /home1/jr2359/diffusion_tutorial_april2018/diffusion_tutorial/elmo.2005/dlabel/mni/rh.cst_AS_avg33_mni_bbr_* > Writing spline volume to > /home1/jr2359/diffusion_tutorial_april2018/diffusion_tutorial/elmo.2005/dlabel/mni/rh.cst_AS_avg33_mni_bbr_cpts_6.nii.gz > Segmentation fault > > The "WARN" message repeated several times before this final message, > making me believe the issue is with the control points. For reference, I am > using the tutorial data set, "set ncpts = (6 6 5 5 5 5 7 5 5 5 5 5 4 4 5 5 > 5 5)" for the control points, and LINUX. > > Has anyone else run into this error, and could someone please help me with > this issue? > > Thank you in advance! > Sincerely, > Jocelyn > _______________________________________________ > 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
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
