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    • fedorov's avatar
      ENH: Added ROIBSpline registration mode. ROIBSpline can be specified instead · defb81d3
      fedorov authored 
      of BSpline transform. If requested, the bspline grid will be initialized just 
for the bounding box of the joined fixed binary mask and initially aligned moving 
binary mask. The resampled image will use the bspline transform restricted to
the bounding box region, with no deformation outside.

ENH: Added m_GenericTransformList to BRAINSFitHelper to maintain the list of
all the intermediate transforms. This feature will be used by a customized
BRAINSFit version to support registration (specifically, debugging of
registration) during image-guided procedures.


git-svn-id: http://svn.slicer.org/Slicer4/trunk@14070 3bd1e089-480b-0410-8dfb-8563597acbee
      defb81d3
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    • hjohnson's avatar
      ENH: · b3fd8495
      hjohnson authored 
      In response to numerous constructive critisms of the newly added suite of BRAINSTools, a code review was performed in order to make the applications work consistenently and with similar user interfaces.

Summary of ChangeLog:
-Instrumented xml files so that moving images are properly associated with their transforms in the Slicer3 MRML Interface.
-Made command line arguments consistent across tools for specifying images, transforms, similar parameters.
-Hid many advanced command line arguments from standard user interface when used from Slicer3
-Improved documentation of command line arguments to describe better what the intended purpose, and restrictions on use are.
-Added common set of image resample/warping options across all tools so that all tools provide common interface for choosing outputPixelType and interpolation mode
-Fixed reading and writing of transforms to use a common read/write paradigm, to be consistent across all tools, and to be compatible with Slicer3 (i.e. Write out Bspline transforms with the bulk transform given second).
-Increased code coverage by merging common functionality that existed in each tool separately into the BRAINSCommonLIb, thus removing code, and ensuring that exactly the same behavior was done across all tools.
-Worked around bug where ITK LSBFGSB optimizer does not properly return the number of iterations performed,  This improperly reported that Bspline registrations were never done when doing a Bspline registration alone.
-Improved source code documentation for commonly used functions.



git-svn-id: http://svn.slicer.org/Slicer4/trunk@13566 3bd1e089-480b-0410-8dfb-8563597acbee
      b3fd8495
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