[Insight-users] Tuning parameters of MultiResMIRegistration

Sat Apr 29 19:08:51 EDT 2006

Hi Yan,

Thanks for your detailed message.

What is the size of your moving and fixed images ?

That is, what is their number of pixels along every dimension ?
and what is the pixel size in millimeters ?

You are using an unusual shrinking schedule:

 > Fixed image shrink factors: [8, 4, 1]
 > Moving image shrink factors: [4, 1, 4]

Does it really correspond to the size of your images ?

In practice, when you are doing multiresolution,
you should start by using a single level, and
fine tune the parameters for that single level
until you reach a reasonable convergence.

There is no point in moving to subsequent resolution
levels if your first level has not reached convergence.

Please start by setting the number of levels to 1,
and let us know about the size of your images.

   Thanks

      Luis

=================
Yan Yang wrote:
> Hi All,
>  
> I am trying to register CT and MRI 3D images using a program apdated 
> from MultiResMIRegistration, using Viola-Wells MI, 
> QuaternionRigidTransform and CenteredTransformInitializer, but the 
> registration result is pathetic, I attached the optimization monitoring 
> file to the email and type the parameters value in the following, I 
> would be very grateful if you could give me any suggestion.
>  
> Number of levels: 5
> Fixed image shrink factors: [8, 4, 1]
> Moving image shrink factors: [4, 1, 4]
> Number of iterations: [500, 500, 500, 500, 500]
> Learning rates: [1e-005, 1e-006, 5e-007, 1e-007, 5e-008]
> Translation scale: 38
> Output filename: ..\data3D\registered_ext.mhd
>  
> Preprocess the images ...
>  
> Writing filpped and permuted moving image.
> spacing = [0.395, 0.5, 0.395]
> size = [380, 87, 206]
> origin = [-74.8525, -21.5, -40.4875]
> Register the images ...
> The begin time is Mon Apr 24 17:27:23 2006
>  
> --- Starting level 0
>  No. Iterations: 500 Learning rate: 1e-005
> --- Starting level 1
>  No. Iterations: 500 Learning rate: 1e-006
> --- Starting level 2
>  No. Iterations: 500 Learning rate: 5e-007
> --- Starting level 3
>  No. Iterations: 500 Learning rate: 1e-007
> --- Starting level 4
>  No. Iterations: 500 Learning rate: 5e-008
> The end time is Mon Apr 24 17:28:17 2006
>  
> Registration began at 1145896043
> Registration ended at 1145896097
> Registration running time = 54
> 0 minutes and 54 seconds
> Final parameters: [0.000277114, 0.000158241, -0.00288847, 0.999996, 
> 0.00904399,
> 0.11804, -1.76944]
> Overall transform matrix:
> 0.999983 0.005777 0.00031488
> -0.00577683 0.999983 -0.00055514
> -0.000318082 0.000553311 1
>  
> Overall transform offset:
> [-0.163204, -5.31732, -1.69768]
>  
>  
>  
> Kind regards,
>  
> Yan
> 
>  
> 
> ------------------------------------------------------------------------
> 
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> 
> 
> ------------------------------------------------------------------------
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> -0.0307112 [-3.47386e-006, 5.3716e-006, -0.000264872, 1, 0.0485158, 0.104262, -1.733
> 0.267121 [-3.02591e-006, 5.77878e-006, -0.000264631, 1, 0.0485379, 0.104238, -1.733
> 0.225435 [-3.35545e-006, 7.88956e-006, -0.000265816, 1, 0.0485346, 0.104242, -1.733
> 0.135232 [-3.13399e-006, 7.43081e-006, -0.000265669, 1, 0.0485452, 0.104246, -1.733
> 0.170269 [-3.56979e-006, 7.9701e-006, -0.000265437, 1, 0.0485027, 0.104258, -1.733
> 0.25928 [-3.47769e-006, 8.68284e-006, -0.000264388, 1, 0.0484782, 0.104225, -1.733
> 0.176889 [-1.78043e-006, 9.21345e-006, -0.000263412, 1, 0.0485098, 0.104196, -1.733
> 0.273276 [-1.63251e-006, 1.47662e-005, -0.000265573, 1, 0.0484005, 0.104169, -1.733
> 0.0328016 [-4.38593e-007, 1.72283e-005, -0.00026837, 1, 0.0483316, 0.104202, -1.733
> 0.119674 [-1.00828e-006, 1.89709e-005, -0.000267565, 1, 0.0484854, 0.104139, -1.733
> 0.150546 [-1.3535e-006, 1.84436e-005, -0.000268277, 1, 0.0484571, 0.104156, -1.733
> 0.199588 [-1.21384e-007, 1.75129e-005, -0.000267327, 1, 0.048442, 0.104145, -1.733
> 0.0421532 [-8.12446e-008, 1.746e-005, -0.000267218, 1, 0.0484405, 0.104145, -1.733
> 0.233293 [-2.97853e-007, 1.81197e-005, -0.000267045, 1, 0.0484385, 0.10413, -1.733
> 0.298035 [-3.42439e-007, 1.80603e-005, -0.000267192, 1, 0.0484446, 0.104128, -1.733
> 0.180849 [5.57599e-007, 1.70907e-005, -0.000268043, 1, 0.0484398, 0.104114, -1.733
> 0.218159 [5.58853e-007, 1.72565e-005, -0.000268154, 1, 0.0484291, 0.10411, -1.733
> 0.14361 [5.72836e-007, 1.70732e-005, -0.000268165, 1, 0.0484322, 0.104107, -1.733
> 0.179329 [5.9044e-007, 1.71211e-005, -0.000267997, 1, 0.0484314, 0.104099, -1.733
> 0.169128 [4.70171e-007, 1.74075e-005, -0.00026797, 1, 0.0484315, 0.104101, -1.733
> 0.244296 [4.57623e-007, 1.74983e-005, -0.000268099, 1, 0.048432, 0.104099, -1.733
> 0.182109 [3.83654e-007, 1.75772e-005, -0.000268169, 1, 0.0484345, 0.104097, -1.733
> 0.182825 [3.83271e-007, 1.75649e-005, -0.000268241, 1, 0.0484369, 0.104097, -1.733
> 0.251138 [4.36631e-007, 1.73946e-005, -0.000268865, 1, 0.0484185, 0.10409, -1.733
> 0.308367 [4.27093e-007, 1.74633e-005, -0.000268821, 1, 0.0484215, 0.104088, -1.733
> 0.0373939 [4.45022e-007, 1.74372e-005, -0.000268841, 1, 0.048422, 0.10409, -1.733
> 0.260163 [4.59416e-007, 1.75289e-005, -0.000269192, 1, 0.0484092, 0.104093, -1.733
> 0.197713 [3.65727e-007, 1.76257e-005, -0.000269222, 1, 0.048411, 0.104087, -1.733
> 0.156414 [3.78095e-007, 1.72758e-005, -0.000269254, 1, 0.0484144, 0.104088, -1.733
> 0.224365 [4.71579e-007, 1.80741e-005, -0.000269203, 1, 0.0484038, 0.104088, -1.733
> 0.137584 [3.26164e-007, 1.83243e-005, -0.000269301, 1, 0.048412, 0.104086, -1.733
> 0.145317 [2.52943e-007, 1.81768e-005, -0.000269209, 1, 0.0484116, 0.104087, -1.733
> 0.253537 [2.12908e-007, 1.83453e-005, -0.000269213, 1, 0.0484112, 0.104085, -1.733
> 0.00745139 [2.47705e-007, 1.81828e-005, -0.000269149, 1, 0.0484092, 0.10409, -1.733
> -0.00662493 [3.72215e-007, 1.82354e-005, -0.0002692, 1, 0.0484055, 0.10409, -1.733
> 0.220555 [2.66117e-007, 1.82583e-005, -0.00026919, 1, 0.048398, 0.104084, -1.733
> 0.112016 [2.68124e-007, 1.81616e-005, -0.000269178, 1, 0.0484014, 0.104077, -1.733
> 0.236557 [3.77301e-007, 1.81146e-005, -0.000269236, 1, 0.0484008, 0.104077, -1.733
> 0.227724 [4.78291e-007, 1.80569e-005, -0.000269227, 1, 0.0484047, 0.104076, -1.733
> -0.0958704 [3.63768e-007, 1.79447e-005, -0.000269412, 1, 0.0483951, 0.104069, -1.733
> 0.369382 [3.02475e-007, 1.75416e-005, -0.000269291, 1, 0.0484042, 0.104068, -1.733
> 0.110691 [3.63215e-007, 1.74132e-005, -0.000269289, 1, 0.0484044, 0.104069, -1.733
> 0.307167 [6.00665e-007, 1.72379e-005, -0.000269552, 1, 0.0483971, 0.10407, -1.733
> 0.238741 [6.39365e-007, 1.72111e-005, -0.000269639, 1, 0.0483938, 0.104071, -1.733
> 0.228773 [5.39778e-007, 1.69821e-005, -0.000269708, 1, 0.0484103, 0.104067, -1.733
> 0.272943 [4.69759e-007, 1.68571e-005, -0.000269683, 1, 0.0484075, 0.104067, -1.733
> 0.162898 [4.47994e-007, 1.69451e-005, -0.000270116, 1, 0.0483988, 0.104074, -1.733
> 0.182195 [5.2831e-007, 1.68349e-005, -0.00026995, 1, 0.0484069, 0.104077, -1.73
> 0.281013 [5.17389e-007, 1.67275e-005, -0.000269874, 1, 0.0484084, 0.104078, -1.733
> 0.287557 [4.41161e-007, 1.67851e-005, -0.00026976, 1, 0.0484044, 0.104082, -1.733
> 0.188596 [4.36069e-007, 1.66882e-005, -0.000269757, 1, 0.0484063, 0.104079, -1.733
> 0.23852 [3.78576e-007, 1.6713e-005, -0.00026973, 1, 0.0484044, 0.104083, -1.733
> 0.317084 [3.15116e-007, 1.67042e-005, -0.000269633, 1, 0.0484111, 0.104084, -1.733
> 0.104998 [3.2735e-007, 1.67854e-005, -0.000269614, 1, 0.048411, 0.104086, -1.733
> 0.231423 [4.53019e-007, 1.65263e-005, -0.000269762, 1, 0.0484018, 0.10409, -1.73
> 0.124306 [3.25496e-007, 1.67548e-005, -0.000269769, 1, 0.0484087, 0.104084, -1.733
> 0.142462 [3.41482e-007, 1.70343e-005, -0.000270005, 1, 0.0484016, 0.10409, -1.733
> 0.211889 [4.98441e-007, 1.70232e-005, -0.000270196, 1, 0.0483995, 0.104087, -1.73
> 0.105006 [4.45856e-007, 1.68903e-005, -0.000270197, 1, 0.0483932, 0.104094, -1.733
> 0.27417 [5.37113e-007, 1.714e-005, -0.000269958, 1, 0.0483927, 0.104095, -1.733
> 0.186966 [3.54797e-007, 1.72525e-005, -0.000270004, 1, 0.0483914, 0.104092, -1.733
> 0.279228 [4.432e-007, 1.72946e-005, -0.000270064, 1, 0.0483847, 0.104093, -1.733
> 0.259679 [4.4297e-007, 1.72882e-005, -0.000270008, 1, 0.0483855, 0.104093, -1.733
> 0.168269 [4.54885e-007, 1.72915e-005, -0.000270087, 1, 0.048386, 0.104092, -1.733
> 0.373982 [4.53486e-007, 1.72491e-005, -0.000270034, 1, 0.048387, 0.104095, -1.73
> 0.117211 [4.48051e-007, 1.72278e-005, -0.00027001, 1, 0.0483854, 0.104095, -1.73
> 0.198045 [4.56098e-007, 1.7282e-005, -0.000269997, 1, 0.0483829, 0.104096, -1.73
> 0.123972 [4.46195e-007, 1.72898e-005, -0.000270032, 1, 0.04838, 0.104096, -1.73
> 0.165281 [7.98115e-007, 1.73572e-005, -0.000269995, 1, 0.0483778, 0.104103, -1.733
> 0.209476 [9.17775e-007, 1.73088e-005, -0.000270123, 1, 0.0483789, 0.104099, -1.733
> 0.141074 [9.74127e-007, 1.73481e-005, -0.000270097, 1, 0.0483784, 0.104098, -1.733
> 0.351728 [9.63521e-007, 1.73581e-005, -0.000270241, 1, 0.0483811, 0.104096, -1.733
> 0.12563 [9.22613e-007, 1.73213e-005, -0.000270246, 1, 0.0483807, 0.104096, -1.733
> 0.200074 [9.81039e-007, 1.73109e-005, -0.000270106, 1, 0.0483742, 0.104101, -1.733
> 0.374288 [1.04591e-006, 1.72184e-005, -0.000270219, 1, 0.0483721, 0.104103, -1.733
> 0.381142 [1.03812e-006, 1.72308e-005, -0.000270261, 1, 0.0483722, 0.104103, -1.733
> 0.286537 [1.04788e-006, 1.7152e-005, -0.000270229, 1, 0.0483705, 0.104101, -1.733
> 0.248469 [1.04916e-006, 1.70772e-005, -0.000270225, 1, 0.0483692, 0.104102, -1.733
> 0.356694 [1.10964e-006, 1.70952e-005, -0.00027025, 1, 0.0483687, 0.104102, -1.733
> 0.325377 [1.22712e-006, 1.7211e-005, -0.000270311, 1, 0.0483662, 0.104101, -1.733
> 0.237952 [1.3743e-006, 1.7359e-005, -0.000270443, 1, 0.0483623, 0.104101, -1.733
> 0.0278325 [1.56019e-006, 1.71143e-005, -0.00027073, 1, 0.0483526, 0.104102, -1.733
> 0.130066 [1.98804e-006, 1.70785e-005, -0.000271007, 1, 0.0483532, 0.104101, -1.733
> 0.333803 [2.05928e-006, 1.70914e-005, -0.000271122, 1, 0.0483504, 0.104102, -1.733
> 0.0779847 [1.69135e-006, 1.69233e-005, -0.000271067, 1, 0.0483509, 0.104106, -1.733
> 0.277382 [1.70346e-006, 1.69558e-005, -0.000271079, 1, 0.0483487, 0.104107, -1.733
> -0.00879167 [1.69345e-006, 1.70528e-005, -0.000271087, 1, 0.0483509, 0.104112, -1.733
> 0.106598 [1.76929e-006, 1.71036e-005, -0.000270904, 1, 0.0483556, 0.104106, -1.733
> 0.14599 [1.8065e-006, 1.70716e-005, -0.00027075, 1, 0.0483589, 0.104107, -1.733
> 0.129158 [1.52481e-006, 1.7457e-005, -0.000270835, 1, 0.0483635, 0.104126, -1.733
> 0.258397 [1.61354e-006, 1.74284e-005, -0.000270866, 1, 0.0483604, 0.104125, -1.733
> 0.103098 [1.61172e-006, 1.748e-005, -0.000270749, 1, 0.0483603, 0.104123, -1.733
> 0.243297 [1.65113e-006, 1.73993e-005, -0.000270761, 1, 0.0483607, 0.104123, -1.733
> 0.141481 [1.67791e-006, 1.72904e-005, -0.000270711, 1, 0.0483602, 0.104124, -1.733
> 0.342872 [1.68275e-006, 1.73177e-005, -0.000270702, 1, 0.0483601, 0.104124, -1.733
> 0.154759 [1.67479e-006, 1.73319e-005, -0.000270709, 1, 0.0483575, 0.104126, -1.733
> 0.246108 [1.78262e-006, 1.72846e-005, -0.000270724, 1, 0.0483561, 0.104126, -1.733
> 0.234435 [1.75003e-006, 1.72559e-005, -0.000270688, 1, 0.048356, 0.104125, -1.733
> 0.269162 [1.74614e-006, 1.72982e-005, -0.000270657, 1, 0.0483553, 0.104126, -1.733
> 0.317759 [1.77637e-006, 1.72699e-005, -0.000270623, 1, 0.0483685, 0.104127, -1.733
> -0.00983419 [1.91803e-006, 1.71713e-005, -0.000270968, 1, 0.0483622, 0.104129, -1.733
> 0.0911276 [1.86754e-006, 1.7268e-005, -0.00027099, 1, 0.0483611, 0.104128, -1.733
> 0.287432 [1.82159e-006, 1.71028e-005, -0.000271008, 1, 0.0483526, 0.104132, -1.733
> 0.110034 [1.89559e-006, 1.71308e-005, -0.000271448, 1, 0.0483446, 0.104141, -1.733
> 0.213644 [1.78034e-006, 1.70592e-005, -0.000271604, 1, 0.0483413, 0.104142, -1.733
> 0.236235 [1.79843e-006, 1.71834e-005, -0.000271584, 1, 0.0483417, 0.104145, -1.733
> 0.408602 [1.74092e-006, 1.71818e-005, -0.000271559, 1, 0.048341, 0.104146, -1.733
> 0.318794 [1.75801e-006, 1.71454e-005, -0.000271585, 1, 0.0483411, 0.104143, -1.733
> 0.284945 [1.71875e-006, 1.71349e-005, -0.000271513, 1, 0.0483409, 0.104145, -1.733
> 0.287279 [1.62897e-006, 1.69515e-005, -0.00027151, 1, 0.0483422, 0.104146, -1.733
> 0.0696961 [1.60875e-006, 1.69404e-005, -0.000271567, 1, 0.0483415, 0.104145, -1.733
>  
> 
> 
> ------------------------------------------------------------------------
> 
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