MapFit\Breast segmentation

Implemented a dual-smoothness concept:

a) Deformation field is smooth so there is a separate smoothing procedure for that

with the constant organ-independent parameters (no UI-parameters).

b) Organ boundary smoothness:  this is the constrained and is smoothed separately.  User sets the parameters defining the smoothness of the resulting organ contour.

Trying to figure out why resulting contour does not follow intuitive edges and shortcuts the sides.

ISMRM abstract submitted for "Whole breast segmentation using MapFit".

MapFit/MultiAgent:  Implemented the Auto Build subtest.

MapFit Multiagent architecture:  Implemented 2 additional algorithms of primitive candidates integration based on SoftMax scoring conversion.

Added a specialized menu item under   Applications>Breast FGT> Segment Chest Wall with MapFit

Implemented an improved released version of the 99% automatic Chest Wall segmentation from the Axial Plane.

Implemented a new modification of the MapFit AG (Multi-Agent) method.
It comes with much simplified parameter set:

Default parameters on FireVoxel UI would be set to correctly process the Chest Wall 12-case batch.

Segmentation by Contour Evolution (MapFit):  released the 1st version and processed the ISMRM test set of 12 cases.

EdgeWave crash defect: in provided example the Seed Z coordinate was outside the image bounds.  Provided a corresponding error message and the exit.

Fixed the defect presented as unexpected change of slice in MagTrace.  This was related to some coordinate calculation code on some specific resolution\dimension combinations.

Some test cases for Chest Wall problem have a major discontinuity of the Chest Wall shape.
Just changing the Slice # by 4,  the shape is changing by dozens of voxels, especially see on the left.

Case BERNY

SLICE 95

SLICE 100

Fixed defect in SimpleEdge procedure when the last slice was not producing result resulting in empty map for single slice volumes.

Quick prototype of Elastic contour morphing ( MapFit ) to the image.  Initial contour is done as a spline on a single slice and then gets morphed to the image voxels.

Red-original spline.  Torquoise - morphed contour.

Whole Breast segmentation:  one idea is to forgo the Chest Wall Segmentation (CWS) and go directly to Whole Breast Segmentation.

One very quick prototype is based in the old algorithm principally based on the pure morphology.  Of course there are many details to figure out.

Case is "DASS T1-nonFS"

Selected slices for the WBS

Whole Breast segmentation:  one idea is to forgo the Chest Wall Segmentation (CWS) and go directly to Whole Breast Segmentation.

One very quick prototype is based in the old algorithm principally based on the pure morphology.  Of course there are many details to figure out.

Case is "DASS T1-nonFS"

Selected slices for the WBS

FireVoxel Build 228 is released.

Fixed defect: When we press "SaveToDicom Extended" menu item the dialog pops up “Specify Bits” with some invalid large number.

There is a substantial difference between 2 runs of BiCal with the same parameters on the same image:

AbsDifference between RunA and RunB  in [0,54]

Fixed the "VolumesAreIdentical" function central to ABT.