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| This page provides instruction on how to update your freesurfer installation so that you can run the freesurfer tutorials. | Perform the steps below 1. If you havent already done so, please download and install freesurfer. https://surfer.nmr.mgh.harvard.edu/fswiki/DownloadAndInstall 2. Source freesurfer. {{{ # if using bash export FREESURFER_HOME=<absolute_path_to_freesurfer> source $FREESURFER_HOME/SetUpFreeSuerfer.sh }}} {{{ if using csh setenv FREESURFER_HOME <absolute_path_to_freesurfer> source $FREESURFER_HOME/SetUpFreeSuerfer.csh }}} 3. Run the commands below to apply updates to your freesurfer installation. {{{ # if using bash build=`cat $FREESURFER_HOME/build-stamp.txt` rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME }}} {{{ # if using csh set build=`cat $FREESURFER_HOME/build-stamp.txt` rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME }}} 4. Download the tutorial data. This requires you set an environment variable {{{TUTORIAL_DATA}}}. The {{{TUTORIAL_DATA}}} environment variable is used throughtout the tutorials, so set its value during the tutorials to the same value you set it here. ''(NOTE: this step involves downloading approximately 3Gigs of data, so it may take some time.)'' {{{ # if using bash build=`cat $FREESURFER_HOME/build-stamp.txt` rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME }}} {{{ # if using csh set build=`cat $FREESURFER_HOME/build-stamp.txt` rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME }}} |
FreeSurfer Tutorial Datasets
Perform the steps below
1. If you havent already done so, please download and install freesurfer.
https://surfer.nmr.mgh.harvard.edu/fswiki/DownloadAndInstall
2. Source freesurfer.
# if using bash export FREESURFER_HOME=<absolute_path_to_freesurfer> source $FREESURFER_HOME/SetUpFreeSuerfer.sh
if using csh setenv FREESURFER_HOME <absolute_path_to_freesurfer> source $FREESURFER_HOME/SetUpFreeSuerfer.csh
3. Run the commands below to apply updates to your freesurfer installation.
# if using bash
build=`cat $FREESURFER_HOME/build-stamp.txt`
rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME# if using csh
set build=`cat $FREESURFER_HOME/build-stamp.txt`
rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME4. Download the tutorial data. This requires you set an environment variable TUTORIAL_DATA. The TUTORIAL_DATA environment variable is used throughtout the tutorials, so set its value during the tutorials to the same value you set it here. (NOTE: this step involves downloading approximately 3Gigs of data, so it may take some time.)
# if using bash
build=`cat $FREESURFER_HOME/build-stamp.txt`
rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME# if using csh
set build=`cat $FREESURFER_HOME/build-stamp.txt`
rsync -zbrlv --progress --suffix=.bak_`date +%s` rsync://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/${build}/* $FREESURFER_HOME