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> 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> 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> > 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> 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/freesu >> rfer/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/freesu >> rfer/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. >>> >>> >> _______________________________________________ >> 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 > > > > _______________________________________________ > 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.
