Unix Tutorial for FreeSurfer Users：UNIX教程Freesurfer用户.pptVIP

* -can use tab with mynotes.txt “less” is similar to more, however it lets you scroll up and down pages. Must enter ‘q’ to get out of less command. * “less” is similar to more, however it lets you scroll up and down pages. Must enter ‘q’ to get out of less command. * mv is like cut and paste * Gone forever; no trash can * more commands in reference sheet hand out * -for the tutorials today, FREESURFER_HOME will already be set for you. But when you go home and use FreeSurfer on your own machine, you will need to make sure you have these variables set before you can begin working with FreeSurfer. -during the course SUBJECTS_DIR will change often, so pay attention to instructions at top of tutorial and change it accordingly * -Set up environment or initialize freesurfer (see setenv a lot) -cd SUJBECTS_DIR is shortcut to cd /path/to/data -in tutorial will often have to cd $SUBJECTS_DIR * -Set up environment or initialize freesurfer (see setenv a lot) * echo prints to the screen whatever you type after it * * Copying files ls cp --help cp mynotes.txt stuff cd stuff less mynotes.txt learn all the options or “arguments” is the copy command cp Changing Directories shows one directory up ls .. pwd /home/nmrclass/practice/stuff ls ../.. goes up two! cd .. should see cd ../.. can also do (but don’t): Copying / Moving files cp mynotes.txt myothernotes.txt Could also use do: mv myothernotes.txt hernotes.txt mv hernotes.txt .. Removing Files rm mynotes.txt ls pwd should be in “stuff” ls Review no double clicking mkdir ls cd pwd emacs, gedit, vi, pico cp rm Using FreeSurfer With FreeSurfer, certain variables must be set in order to use it correctly: FREESURFER_HOME SUBJECTS_DIR tell Operating System where FreeSurfer is tell FreeSurfer where data is Required Variables To go to location of your data: $ means take the value of the variable cd $SUBJECTS_DIR setenv SUBJECTS_DIR /path/to/data Required Va