How did you put the data on your drive? > On Aug 10, 2017, at 9:25 AM, Z Hessam <z.hes...@gmail.com> wrote: > > I didn't copy the file, and drive has 3.7GB free space > > On Thu, Aug 10, 2017 at 5:41 PM, Ruopeng Wang <rpw...@nmr.mgh.harvard.edu > <mailto:rpw...@nmr.mgh.harvard.edu>> wrote: > Wait, the file size looks too small. Only 1590 bytes. Did the data get copied > properly? Is your drive full? > >> On Aug 10, 2017, at 4:40 AM, Z Hessam <z.hes...@gmail.com >> <mailto:z.hes...@gmail.com>> wrote: >> >> it shows: >> >> -rwxrwxrwx 1 8481 1590 0 Aug 9 22:30 >> /media/hessam91/driver2/freesurfer/freesurfer/subjects/bert/mri/T1.mgz >> >> >> On Thu, Aug 10, 2017 at 2:55 AM, Ruopeng Wang <rpw...@nmr.mgh.harvard.edu >> <mailto:rpw...@nmr.mgh.harvard.edu>> wrote: >> 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 >>> <mailto: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 <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 <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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