mia-3dfluid-syn-registration {-i io} {-r io} {-o io} {-O io} [
options
...]
This program implements the registration of two gray scale 3D images. The transformation applied is a symmeric diffeomorpic fluid dynamic registration. To work most efficiently, this program makes a few assumptions about the imput data, i.e. the image must be of the same size, have the same voxel spacing, and any intensity range normalization or equalization should also be done before calling this program.
verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are:
| debug: | Debug output |
| message: | Normal messages |
| info: | Low level messages |
| error: | Report errors |
| fatal: | Report only fatal errors |
| trace: | Function call trace |
| warning: | Warnings |
| fail: | Report test failures |
print copyright information
print this help
print a short help
print the version number and exit
test image. For supported file types see Plugin type: 3dimage/io
reference image. For supported file types see Plugin type: 3dimage/io
output transformation. For supported file types see Plugin type: 3dtransform/io
inverse output transformation. For supported file types see Plugin type: 3dtransform/io
Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).
Number of multi-resolution levels to run the registration on. Not that some registration parameters can be given as a coma seperated list to indicate per level values. In these cases if the number of given values is smaller than the number of multi-resolution levels (this parameter), the the last given value is used for all subsequest multi-resolution levels.
Initial step size for all levels
Image similarity function to be minimized. For supported plug-ins see Plugin type: 3dimage/cost
Regularization for the force to transformation update. For supported plug-ins see Plugin type: 3dvf/regularizer
Convergence test interations intervall: In order to measure convergence the cost function value is averaged over this amount of iterations, and the decline rate is evaluated based on the linare regression of the cost function values in this intervall. This parameter can be given as a coma-seperated list with values corresponding to the multi-resolution levels, see option --mg-levels for more information.
Stopping criterium for registration based on the cost decline rate. If the rate below this value, the iteration is stopped. This parameter can be given as a coma-seperated list with values corresponding to the multi-resolution levels, see option --mg-levels for more information.
Stopping criterium for registration based on the cost value. If the cost drops below this value, the iteration is stopped. This parameter can be given as a coma-seperated list with values corresponding to the multi-resolution levels, see option --mg-levels for more information.
Naximum number if iterations done on each multi-resolution level. This parameter can be given as a coma-seperated list with values corresponding to the multi-resolution levels, see option --mg-levels for more information.
Register image test.v to image ref.v saving the transformation to transform.v and the inverse transform to inverse-transform.v. Use three multiresolution levels, ssd as image cost function.
mia-3dfluid-syn-registration -i test.v -r ref.v -t transform.v -T inverse-transform.v -l 3 ssd
Gert Wollny