Tidbits

To run EMSegmenter from the command line: ./Slicer3-build/lib/Slicer3/Plugins/EMSegmentCommandLine --mrmlSceneFileName ../EMSegmenterT1Example/EMSeg-Brain-MRT1.mrml --targetVolumeFileNames SPGR-1178.nrrd --resultVolumeFileName 1178_SPGR_emseg.nrrd

Note: To get access to SPM variables in Matlab (while running SPM, of course - bring them into command-line namespace) do this:
- global so <enter>
- load spm <enter>