You can make the output talairached EPI dataset match any dataset you like in terms of grid resolution and coordinate space using the -master_tlrc option to align_epi_anat.py. Here is an example using the TT_EPI+tlrc as the master template. Values for master_tlrc include a specified dataset, as in this example, the minimum voxel dimension on the grid of the talairach anatomy parent (the default), BASE (the voxel dimensions and the extents of the talairach anatomy parent), SOURCE (the voxel dimensions and the extents of the EPI dataset), and a specified cubic voxel dimension within the talairach anatomy dataset extents.


# first copy the talairach EPI template here
cp ~/abin/TT_EPI+tlrc.* .

align_epi_anat.py -tlrc_apar anat+tlrc -anat anat+orig -epi epi_r1+orig. -master_tlrc TT_EPI+tlrc. -epi_base 0 -suffix _e2a_tlrctest

The output epi_r1_tlrc_e2a_tlrctest+tlrc dataset should be aligned to the anat+tlrc input dataset.