There's 2 problems: 1) Do not include the "$>". That is just a symbol representing the beginning of the command line.
2) <source_freesurfer> is meant to be a generic term for the process of defining your FREESURFER_HOME environment variable and sourcing the setup script. On your macOS system this would be the following two steps: $> export FREESURFER_HOME=/Applications/freesurfer $> source $FREESURFER_HOME/SetUpFreeSurfer.sh This only needs to be done once when opening the terminal window. On 01/17/2017 11:50 AM, Shapiro, Allison L wrote: > Dear FreeSurfer support, > > > > I am a new user of the Freesurfer program and attempted to install > everything this morning on my Mac OSx 10.11.6 (El Capitan). To preface > everything, I updated my XQuartz program before installing, and I do not > have Matlab on this computer and understand that I can’t use the fMRI > functionality without this, but this is not my goal. > > > > The installation appeared to go as planned, but when I went to test the > installation with the commands: > > > > $> <source_freesurfer> > > $> freeview -v $SUBJECTS_DIR/bert/mri/brainmask.mgz -v > $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f > $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f > $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f > $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f > $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red > > > > I received the following error: > > > > -bash: $: command not found > > > > I was not able to decipher this error with The Google, so I am hoping > that you can help. > > > > Thank you so much for your time! > > > > Best Wishes, > > Allie > > > > Allison L B Shapiro, MPH, PhD > > Postdoctoral Research Fellow > > LEAD Center | Colorado School of Public Health > > Office 303.724.7708 > > > > “Those who dare to fail miserably can achieve greatly” - JFK > > > > > > > > > > _______________________________________________ > 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.
