Diff for "FsTutorial/Data_lite"

Differences between revisions 2 and 3

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_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

-Deletions are marked like this.
+Additions are marked like this.
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-''if using bash''
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+# if using bash
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-''if using csh''
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+if using csh
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+# if using bash
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-''if using csh''
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+# if using csh
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-''if using bash''
+# if using bash
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-''if using csh''
+# if using csh