REF: major refactoring-- created module msct_moco
TEST: new testing function
TEST: updated test_all
REF: sct_dmri_moco now functional with major refactoring
REF: removed unused functions (replaced by new module: msct_moco)
DOC: now display UNIX command without the ">>" for easier copy/paste (also now printed in blue)
REF: minor changes
DOC: minor change
BUG: forgot to add -R field -- now fixed
OPT: non-rigid moco now working with ANTs. However the deformation is too fine-scale. Need to implement a method that only does a translation in the XY plane.
OPT: implemented elastic deformation with ANTs-- still far from being acceptable. Added /dev/moco_elastic with snapshot and tracking notes.
DEV: added script to generate WM atlas and validation
DEV: updated script to generate WM atlas
DEV: trying to replace ants with antsRegistration for affine-- still need work
NEW: now possible to use ANTS affine-- works much better than flirt. Also, BSpline interpolation is better than with flirt
REF: now handles interpolation for flirt and ants
Merge branch 'master' into moco_julien