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| [wiki:Self:DownloadAndInstall top] | [wiki:Self:Installation previous] | [wiki:Self:SetupConfiguration next] | [[DownloadAndInstall|top]] | [[Installation|previous]] | [[SetupConfiguration|next]] |
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| 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. | 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'. To install, mv the tar.gz file to whereever you wish to install freesurfer, and type: |
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: |
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| cd /usr/local | |
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| == MINC toolkit perl path fix-up == Some of the MNI tools currently contain hard-coded paths to perl. To fix this situation, type: |
Note that for this installation example, your FREESURFER_HOME becomes: |
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| fixup_mni_perl_path | setenv FREESURFER_HOME /usr/local/freesurfer |
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| Now the MNI tools will find the perl binary on your platform. You can confirm this by typing 'nu_correct', which should return version information (v1.10). | Reminder to NMR Center users! [[InternalFreeSurferDistributions|You already have FreeSurfer installed on your system!]] |
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| A license file is required to enable the tools. One can be | A license file is required to enable the tools. One can be |
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| http://surfer.nmr.mgh.harvard.edu/registration.html | https://surfer.nmr.mgh.harvard.edu/registration.html |
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| lines of the license information to a file named .license (thats | lines of the license information to a file named .license (that's |
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| Next: [wiki:Self:SetupConfiguration setup and configure FreeSurfer]. | Next: [[SetupConfiguration|setup and configure FreeSurfer]]. |
FreeSurfer Linux Installation
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.
Installing contents
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:
cd /usr/local tar xzvf freesurfer-Linux-<platform>-<release>-full.tar.gz
Again, replacing <platform>-<release> with your Linux variant.
Note that for this installation example, your FREESURFER_HOME becomes:
setenv FREESURFER_HOME /usr/local/freesurfer
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 (that's DOT license) and copy that file to your $FREESURFER_HOME.