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> 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> > 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 >>> > >>> 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> 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 >>> 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 >> >> >> 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 > listfreesur...@nmr.mgh.harvard.eduhttps://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. > >
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