3DRegistration (subvolume + elastix) step by step

[amymmorton]

As learned from prototype workflow #149 | Using data #110

Bigger Picture

inputs:

• from file load models (stl)
• optional model hierarchy (?) - needed - identification of 'parent' bone (wrist-> radius)
• reference volume node 'refVol'
• target volume (or sequence and frame #)

for N frames

Needed first with single frame

• construct roi from (each) model bounds {roi_'bone'}

• {subVol_'bone''refVol'} as crop of {roi'bone'} from 'refVol'

• new initial transform {initial_'bone'2'targetVol'} (interactive 3d view) ->apply to model

  -pause /prompt *manual user adjustment of parent bone model to initial registration in target volume/frame 1) 
  
  - apply  {initial_'bone'2'targetVol_N'} to {roi_'bone'}
  - {subVol_'bone'_'targetVol_N'} as crop of {initial_'bone'2'targetVol_N'} to {roi_'bone'}
  - elastix rigid registration (output tform  {E_'bone'2'targetVol_N'})   of {subVol_'bone'_'refVol'}  to {subVol_'bone'_'targetVol_N'} 
  

• copy {E_'bone'2'targetVol_N'} -> {initial_'childBone'2'targetVol'}

[amymmorton]

Being addressed 3D-reg-from-roi