Preparing an MNE Analysis

In order to use MNE, you have to run the setup command:

mne_setup_2.6.0, mne_setup_2.7.1_32bit, or mne_setup_2.7.3_32bit

for Versions 2.6, 2.7.1. or 2.7.3, respectively.

You can also use the 64 bit equivalents:

mne_setup_2.7.0_64bit, or mne_setup_2.7.3_64bit

for Versions 2.7.0 or 2.7.3. The 64 bit versions still have limited functionality compared to the 32 bit equivalents.

You can actually see al these options by typing 'alias' into your terminal window. It will show all aliases currently active, including all mne_setup variations.

For most operations, MNE expects that the environment variable SUBJECTS_DIR is set, e.g.

setenv SUBJECTS_DIR /mydatadirectory/MRIs

and in some cases also the SUBJECT variable:

setenv SUBJECT /mydatadirectory/Subject1

You shouldn't mix MNE versions (unless you know what you are doing, but who does?). If you are starting an MNE analysis now, the latest version is 2.7.3 (and Freesurfer 5.1.0).