Package net.preibisch.mvrecon.process.interestpointregistration.global

Class GlobalOptTwoRound

java.lang.Object

net.preibisch.mvrecon.process.interestpointregistration.global.GlobalOptTwoRound

public class GlobalOptTwoRound
extends Object

Constructor Summary

Constructors

Constructor	Description
GlobalOptTwoRound()

Method Summary

Modifier and Type	Method	Description
static Group<mpicbg.spim.data.sequence.ViewId>	assembleViews(Set<mpicbg.models.Tile<?>> set, HashMap<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.models.Tile<?>> models)
static <M extends mpicbg.models.Model<M> & mpicbg.models.Affine3D<M>> HashMap<mpicbg.spim.data.sequence.ViewId,M>	computeModels(M model, boolean preAlign, PointMatchCreator pmc, IterativeConvergenceStrategy csStrong, LinkRemovalStrategy lms, Collection<net.imglib2.util.Pair<Group<mpicbg.spim.data.sequence.ViewId>,Group<mpicbg.spim.data.sequence.ViewId>>> removedInconsistentPairs, WeakLinkFactory wlf, ConvergenceStrategy csWeak, Collection<mpicbg.spim.data.sequence.ViewId> fixedViews, Collection<Group<mpicbg.spim.data.sequence.ViewId>> groupsIn)
static <M extends mpicbg.models.Model<M> & mpicbg.models.Affine3D<M>> HashMap<mpicbg.spim.data.sequence.ViewId,M>	computeModels(M model, boolean preAlign, PointMatchCreator pmc, IterativeConvergenceStrategy csStrong, LinkRemovalStrategy lms, WeakLinkFactory wlf, ConvergenceStrategy csWeak, Collection<mpicbg.spim.data.sequence.ViewId> fixedViews, Collection<Group<mpicbg.spim.data.sequence.ViewId>> groupsIn)
static <M extends mpicbg.models.Model<M> & mpicbg.models.Affine3D<M>> HashMap<mpicbg.spim.data.sequence.ViewId,mpicbg.models.Tile<M>>	computeTiles(M model, boolean preAlign, PointMatchCreator pmc, IterativeConvergenceStrategy csStrong, LinkRemovalStrategy lms, Collection<net.imglib2.util.Pair<Group<mpicbg.spim.data.sequence.ViewId>,Group<mpicbg.spim.data.sequence.ViewId>>> removedInconsistentPairs, WeakLinkFactory wlf, ConvergenceStrategy csWeak, Collection<mpicbg.spim.data.sequence.ViewId> fixedViews, Collection<Group<mpicbg.spim.data.sequence.ViewId>> groupsIn)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

GlobalOptTwoRound

public GlobalOptTwoRound()

Method Details

computeModels

public static <M extends mpicbg.models.Model<M> & mpicbg.models.Affine3D<M>>
HashMap<mpicbg.spim.data.sequence.ViewId,M> computeModels(M model,
 boolean preAlign,
 PointMatchCreator pmc,
 IterativeConvergenceStrategy csStrong,
 LinkRemovalStrategy lms,
 WeakLinkFactory wlf,
 ConvergenceStrategy csWeak,
 Collection<mpicbg.spim.data.sequence.ViewId> fixedViews,
 Collection<Group<mpicbg.spim.data.sequence.ViewId>> groupsIn)

Type Parameters:

M - mpicbg model type

Parameters:

model - - the transformation model to run the global optimizations on

preAlign - - whether to call TileConfiguration.preAlign or use the current transformations

pmc - - the pointmatch creator (makes mpicbg PointMatches from anything, e.g. corresponding interest points or stitching results)

csStrong - - the Iterative Convergence strategy applied to the strong links, as created by the pmc

lms - - decides for the iterative global optimization that is run on the strong links, which link to drop in an iteration

wlf - - a factory for creating weak links for the not optimized views.

csWeak - - the convergence strategy for optimizing the weak links, typically this is a new ConvergenceStrategy( Double.MAX_VALUE );

fixedViews - - which views are fixed

groupsIn - - which views are grouped

Returns:

map from view id to resulting transform

computeModels

public static <M extends mpicbg.models.Model<M> & mpicbg.models.Affine3D<M>>
HashMap<mpicbg.spim.data.sequence.ViewId,M> computeModels(M model,
 boolean preAlign,
 PointMatchCreator pmc,
 IterativeConvergenceStrategy csStrong,
 LinkRemovalStrategy lms,
 Collection<net.imglib2.util.Pair<Group<mpicbg.spim.data.sequence.ViewId>,Group<mpicbg.spim.data.sequence.ViewId>>> removedInconsistentPairs,
 WeakLinkFactory wlf,
 ConvergenceStrategy csWeak,
 Collection<mpicbg.spim.data.sequence.ViewId> fixedViews,
 Collection<Group<mpicbg.spim.data.sequence.ViewId>> groupsIn)

Type Parameters:

M - mpicbg model type

Parameters:

model - - the transformation model to run the global optimizations on

preAlign - - whether to call TileConfiguration.preAlign or use the current transformations

pmc - - the pointmatch creator (makes mpicbg PointMatches from anything, e.g. corresponding interest points or stitching results)

csStrong - - the Iterative Convergence strategy applied to the strong links, as created by the pmc

lms - - decides for the iterative global optimization that is run on the strong links, which link to drop in an iteration

removedInconsistentPairs - - optional Collection in which pairs that were identified to be inconsistent and were removed are added (can be null)

wlf - - a factory for creating weak links for the not optimized views.

csWeak - - the convergence strategy for optimizing the weak links, typically this is a new ConvergenceStrategy( Double.MAX_VALUE );

fixedViews - - which views are fixed

groupsIn - - which views are grouped

Returns:

map from view id to resulting transform

computeTiles

public static <M extends mpicbg.models.Model<M> & mpicbg.models.Affine3D<M>>
HashMap<mpicbg.spim.data.sequence.ViewId,mpicbg.models.Tile<M>> computeTiles(M model,
 boolean preAlign,
 PointMatchCreator pmc,
 IterativeConvergenceStrategy csStrong,
 LinkRemovalStrategy lms,
 Collection<net.imglib2.util.Pair<Group<mpicbg.spim.data.sequence.ViewId>,Group<mpicbg.spim.data.sequence.ViewId>>> removedInconsistentPairs,
 WeakLinkFactory wlf,
 ConvergenceStrategy csWeak,
 Collection<mpicbg.spim.data.sequence.ViewId> fixedViews,
 Collection<Group<mpicbg.spim.data.sequence.ViewId>> groupsIn)

Type Parameters:

M - mpicbg model type

Parameters:

model - - the transformation model to run the global optimizations on

preAlign - - whether to call TileConfiguration.preAlign or use the current transformations

pmc - - the pointmatch creator (makes mpicbg PointMatches from anything, e.g. corresponding interest points or stitching results)

csStrong - - the Iterative Convergence strategy applied to the strong links, as created by the pmc

lms - - decides for the iterative global optimization that is run on the strong links, which link to drop in an iteration

removedInconsistentPairs - - optional Collection in which pairs that were identified to be inconsistent and were removed are added (can be null)

wlf - - a factory for creating weak links for the not optimized views.

csWeak - - the convergence strategy for optimizing the weak links, typically this is a new ConvergenceStrategy( Double.MAX_VALUE );

fixedViews - - which views are fixed

groupsIn - - which views are grouped

Returns:

map from view id to resulting transform

assembleViews

public static Group<mpicbg.spim.data.sequence.ViewId> assembleViews(Set<mpicbg.models.Tile<?>> set,
 HashMap<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.models.Tile<?>> models)