NEW: option to use segmentations during registration (with pointwise)
NEW: option to use segmentations during registration (with pointwise)

Former-commit-id: 02e89ed755191910b335b6b13f32080d0b535ed6 [formerly b44e2c0128e02b0c1e7836d1c95f008f80dc3b90]
Former-commit-id: 7500b3e818c5a8093343dd22ac6772fc367b1dc8
Former-commit-id: 53feaa4315fe6eaedeebc2b65d65a3f8bbf89d51
neuropoly/spinalcordtoolbox,neuropoly/spinalcordtoolbox,neuropoly/spinalcordtoolbox,neuropoly/spinalcordtoolbox,neuropoly/spinalcordtoolbox,neuropoly/spinalcordtoolbox,neuropoly/spinalcordtoolbox