Hmm, if you run: ls -l /media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz
what does it show? > On Aug 9, 2017, at 4:47 PM, Z Hessam <z.hes...@gmail.com> wrote: > > of course: > > hessam@ubuntu:/media/hessam/driver2/freesurfer/subjects$ freeview -v > bert/mri/T1.mgz bert/mri/wm.mgz bert/mri/brainmask.mgz > bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f > bert/surf/lh.white:edgecolor=blue bert/surf/lh.pial:edgecolor=red > bert/surf/rh.white:edgecolor=blue bert/surf/rh.pial:edgecolor=red > > mghRead(/media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz, > -1): read error > MRIread failed: Unable to read from > /media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz > mghRead(/media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz, > -1): read error > mghRead(/media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz, > -1): read error > MRIread failed: Unable to read from > /media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz > mghRead(/media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz, > -1): read error > > thanks a lot for your attention > > On Wed, Aug 9, 2017 at 10:57 PM, Ruopeng Wang <rpw...@nmr.mgh.harvard.edu > <mailto:rpw...@nmr.mgh.harvard.edu>> wrote: > Can you copy and paste the exact command line you ran and the error message? > > Ruopeng > > > On 08/09/2017 02:21 PM, Z Hessam wrote: >> >> I try it without \ chars, works for some other subjects >> but it doesn't work for one of them,and now I can even open it with GUI, >> while I could open it before. >> It seems that is time variant! >> Should I run "recon-all ..." again for that subject? >> >> >> >> >> On Wed, Aug 9, 2017 at 10:32 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu >> <mailto:fis...@nmr.mgh.harvard.edu>> wrote: >> can you try it without all the \ characters? You shouldn't need them if >> it's all on one line >> >> On Wed, 9 Aug 2017, Z Hessam wrote: >> >> >> $>freeview -v \ bert/mri/T1.mgz \ bert/mri/wm.mgz \ >> bert/mri/brainmask.mgz \ bert/mri/aseg.mgz:colormap=lut:opacity=0.2 >> mri_read(): couldn't determine type of file >> /media/hessam91/driver2/freesurfer/freesurfer/subjects/ >> MRIread failed: Unable to read from >> /media/hessam91/driver2/freesurfer/freesurfer/subjects/ >> mri_read(): couldn't determine type of file >> /media/hessam91/driver2/freesurfer/freesurfer/subjects/ >> >> >> I use the example 4 in the "download and install" page of site >> >> On Wed, Aug 9, 2017 at 8:44 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu >> <mailto:fis...@nmr.mgh.harvard.edu>> >> wrote: >> >> hmmm, that looks ok, but it's hard to tell with all the >> backslashes and blank lines and such. Can you send the full >> command on a single line (e.g. by hitting up-arrow in the >> terminal window) and the actual output of freeview? >> >> On Wed, 9 Aug 2017, Z Hessam wrote: >> >> >> Hello Freesurfer Developers, >> >> I have problem when I use "freeview" example code in >> terminal, >> freeview -v \ >> >> bert/mri/T1.mgz \ >> >> bert/mri/wm.mgz \ >> >> bert/mri/brainmask.mgz \ >> >> >> bert/mri/aseg.mgz:colormap=lut:opacity=0.2 \ >> >> -f \ >> >> bert/surf/lh.white:edgecolor=blue \ >> >> bert/surf/lh.pial:edgecolor=red \ >> >> bert/surf/rh.white:edgecolor=blue \ >> >> bert/surf/rh.pial:edgecolor=red >> it tell "Failed to load MRI <subject_dir>", >> mri_read(): couldn't determine type of file >> <subject_dir> >> MRIread failed: Unable to read from <subject_dir> >> mri_read(): couldn't determine type of file >> <subject_dir> >> but i can load wm.mgz and other existed files in >> GUI. >> >> please help me to know why this error happend? and >> what should I do to solve >> this? >> >> I've searched the list, I found a similar errors, >> but wasn't helpful answer reported. >> help me please >> >> regards >> >> On Wed, Aug 9, 2017 at 7:56 PM, Z Hessam >> <z.hes...@gmail.com <mailto:z.hes...@gmail.com>> wrote: >> >> Hello Freesurfer Developers, >> >> I have problem when I use "freeview" example code in >> terminal, >> freeview >> -v \ >> >> bert/mri/T1.mgz \ >> >> bert/mri/wm.mgz \ >> >> bert/mri/brainmask.mgz \ >> >> >> bert/mri/aseg.mgz:colormap=lut:opacity=0.2 \ >> >> -f \ >> >> bert/surf/lh.white:edgecolor=blue \ >> >> bert/surf/lh.pial:edgecolor=red \ >> >> bert/surf/rh.white:edgecolor=blue \ >> >> bert/surf/rh.pial:edgecolor=red >> it tell "Failed to load MRI <subject_dir>", but i >> can load wm.mgz and other existed files in GUI. >> >> please help me to know why this error happend? and >> what should I do to solve >> this? >> >> I've searched the list, I found a similar errors, >> but wasn't helpful answer reported. >> help me please >> >> regards >> >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> <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 >> <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 <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> <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 >> <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 <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > <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 > <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
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