Dear Bruce, This is the input command and the output that I get:
bash-3.2$ mris_anatomical_stats -l anon/label/lh.BA45.label -f anon lh anon lh limiting computations to label anon/label/lh.BA45.label. reading volume /Applications/freesurfer/experimental_data/TG/anon/lh/mri/wm.mgz... mghRead(/Applications/freesurfer/experimental_data/TG/anon/lh/mri/wm.mgz, -1): could not open file mris_anatomical_stats: could not read input volume /Applications/freesurfer/experimental_data/TG/anon/lh/mri/wm.mgz or: mris_anatomical_stats -l anon/label/lh.BA45.label anon lh limiting computations to label anon/label/lh.BA45.label. reading volume /Applications/freesurfer/experimental_data/TG/anon/anon/mri/wm.mgz... mghRead(/Applications/freesurfer/experimental_data/TG/anon/anon/mri/wm.mgz, -1): could not open file mris_anatomical_stats: could not read input volume /Applications/freesurfer/experimental_data/TG/anon/anon/mri/wm.mgz This is the SUBJECTS_DIR export SUBJECTS_DIR=/Applications/freesurfer/experimental_data/TG/anon cd $SUBJECTS_DIR Best Regards, Mahtab. On 19 May 2016 at 13:41, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Mahtab > > can you please send the screen output of the command you ran and what it > printed, and also what the environment variable SUBJECTS_DIR is? > > cheers > Bruce > > On Thu, 19 May 2016, Mahtab Farahbakhsh wrote: > > Dear FreeSurfer, >> I have a problem when I use mris_anatomical_stats. It gives me an error >> saying that it couldn't read the input volume which is the wm.mgz file. >> would you please help me how I should fix this problem? >> >> Best Regards, >> Mahtab. >> >> > _______________________________________________ > 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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