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FreeSurfer: Difference between revisions
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=FreeSurfer 5.3 as a global module= <!--T:2--> | =FreeSurfer 5.3 as a global module= <!--T:2--> | ||
In | In our software stack, you may load the <code>freesurfer/5.3.0</code> module. | ||
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==Installation in your /home directory with EasyBuild== <!--T:6--> | ==Installation in your /home directory with EasyBuild== <!--T:6--> | ||
The following procedure will install FreeSurfer 6.0.0 in <code>/home/$USER/.local/easybuild/software/2020/Core/freesurfer/6.0.0/</code>. The installation | The following procedure will install FreeSurfer 6.0.0 in <code>/home/$USER/.local/easybuild/software/2020/Core/freesurfer/6.0.0/</code>. The installation requires some memory and due to the restrictions of memory stack size on the login nodes on our clusters, the installation may fail because of the memory. To overcome this issue, you may need to use an [[Running_jobs#Interactive_jobs|interactive job]] by asking for enough memory (8 GB or so) to install the code. | ||
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As of August 2020, | As of August 2020, we were supporting up to version 6.0.1. You can check for [https://github.com/ComputeCanada/easybuild-easyconfigs/tree/computecanada-master/easybuild/easyconfigs/f/FreeSurfer newer versions here]. | ||
==EasyBuild recipes== <!--T:11--> | ==EasyBuild recipes== <!--T:11--> | ||
You can check the EasyBuild recipes for FreeSurfer [https://github.com/ComputeCanada/easybuild-easyconfigs/tree/computecanada-master/easybuild/easyconfigs/f/FreeSurfer online] on GitHub or via a command line ,<code>eb -S FreeSurfer</code>, from any | You can check the EasyBuild recipes for FreeSurfer [https://github.com/ComputeCanada/easybuild-easyconfigs/tree/computecanada-master/easybuild/easyconfigs/f/FreeSurfer online] on GitHub or via a command line ,<code>eb -S FreeSurfer</code>, from any of our clusters. If the version you are looking for is not listed, you may try to install the program with the option <code>--try-software-version=<the new version></code>. If that did not work, please contact the [[Technical support/en|technical support]] for help. | ||
==Installation in a shared folder== <!--T:12--> | ==Installation in a shared folder== <!--T:12--> | ||
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</pre> | </pre> | ||
<translate> | <translate> | ||
==Example of working batch script for | ==Example of working batch script for FreeSurfer version >= 6.0.0== <!--T:22--> | ||
</translate> | </translate> | ||
{{File | {{File | ||