BEAR Applications

FreeSurfer 6.0.1-centos6_x86_64

Deprecated: Use of this version of FreeSurfer is deprecated. More information on our Applications Support and Retention Policy.

There is a newer version of FreeSurfer

FreeSurfer is a set of tools for analysis and visualization of structural and functional brain imaging data. FreeSurfer contains a fully automatic structural imaging stream for processing cross sectional and longitudinal data.

Accessing FreeSurfer 6.0.1-centos6_x86_64

To load the module for FreeSurfer 6.0.1-centos6_x86_64 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load FreeSurfer/6.0.1-centos6_x86_64

BEAR Apps Version

2018b

Architectures

EL8-cascadelake — EL8-haswell — Ubuntu20.04-haswell

The listed architectures consist of two part: OS-CPU.

• BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
• BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

Licensing

FreeSurfer licenses are free, but they use registrations to keep rough statistics on the number of users, which they can use in grants and presentations as a demonstration of their contribution to the neuroimaging community.

Please register for a licence here: https://surfer.nmr.mgh.harvard.edu/registration.html

Then to use your licence, set the FS_LICENSE environment variable with the path of the file, e.g. in your batch script:

export FS_LICENSE=${HOME}/.freesurfer_licence

More Information

For more information visit the FreeSurfer website.

Required By

This version of FreeSurfer is a direct dependent of: FMRIprep/20.2.0-foss-2019a-Python-3.7.2 FMRIprep/1.5.1-foss-2019a-Python-3.7.2 FMRIprep/20.0.6-foss-2019a-Python-3.7.2

Other Versions

These versions of FreeSurfer are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 4th June 2019