Fixed bug in affine initialisation from rigid results minor updates to transformation base class and output options
Fixed bug in affine initialisation from rigid results
minor updates to transformation base class and output options

MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3