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| [[DownloadAndInstall|top]] | [[Installation|previous]] | [[SetupConfiguration|next]] | [[DownloadAndInstall|top]] | [[Installation|previous]] | [[TestingFreeSurfer|next]] |
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| == Viewing contents == To view the contents of a distribution, once downloaded, type: {{{ tar tzf freesurfer-Linux-<platform>-<release>-full.tar.gz }}} replacing <platform>-<release> with whatever is appropriate. The 'tar tzf' command will not install the contents, just show the contents of the tar.gz file. |
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| The tar.gz file will extract to a directory called 'freesurfer'. Installing into the directory {{{/usr/local}}} is recommended. To install, mv the tar.gz file to whereever you wish to install freesurfer (in this example {{{/usr/local}}}) and type: |
The tar.gz file will extract to a directory called 'freesurfer'. Installation simply involves extracting the contents of the .tar.gz file. Installing into the directory {{{/usr/local}}} is recommended. For example: |
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| cd /usr/local tar xzvf freesurfer-Linux-<platform>-<release>-full.tar.gz |
$> tar -C /usr/local -xzvf freesurfer-Linux-<platform>-<release>-full.tar.gz |
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| Note that for this installation example, your FREESURFER_HOME becomes: | == Setup and Configuration == Type the following command into a terminal window to setup and source the !FreeSurfer environment. Note that you must choose the directory where you extracted freesurfer to become your FREESURFER_HOME ({{{/usr/local/freesurfer}}} in our example): |
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| setenv FREESURFER_HOME /usr/local/freesurfer | bash $> export FREESURFER_HOME=/usr/local/freesurfer $> source $FREESURFER_HOME/SetUpFreeSurfer.sh (t)csh $> setenv FREESURFER_HOME /usr/local/freesurfer $> source $FREESURFER_HOME/SetUpFreeSurfer.csh |
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| lines of the license information to a file named .license (that's DOT license) and copy that file to your $FREESURFER_HOME. |
lines of the license information to a file named license.txt and copy that file to your $FREESURFER_HOME. |
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| == Setup and Configuration == | ------ |
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| Otherwise, go to this page to [[SetupConfiguration|setup and configure FreeSurfer]]. |
FreeSurfer Linux Installation
Installing contents
The tar.gz file will extract to a directory called 'freesurfer'. Installation simply involves extracting the contents of the .tar.gz file. Installing into the directory /usr/local is recommended. For example:
$> tar -C /usr/local -xzvf freesurfer-Linux-<platform>-<release>-full.tar.gz
Again, replacing <platform>-<release> with your Linux variant.
Setup and Configuration
Type the following command into a terminal window to setup and source the FreeSurfer environment. Note that you must choose the directory where you extracted freesurfer to become your FREESURFER_HOME (/usr/local/freesurfer in our example):
bash $> export FREESURFER_HOME=/usr/local/freesurfer $> source $FREESURFER_HOME/SetUpFreeSurfer.sh (t)csh $> setenv FREESURFER_HOME /usr/local/freesurfer $> source $FREESURFER_HOME/SetUpFreeSurfer.csh
Reminder to NMR Center users! You already have FreeSurfer installed on your system!
Freesurfer license file
A license file is required to enable the tools. One can be obtained for free by registering at:
https://surfer.nmr.mgh.harvard.edu/registration.html
Upon receiving the license information by email, copy the three lines of the license information to a file named license.txt and copy that file to your $FREESURFER_HOME.
If you came from the Quick Install page, return to that here.