Package net.preibisch.mvrecon.process.fusion.blk

Class SplitImgLoaderThinPlateSplineFusion

java.lang.Object

net.preibisch.mvrecon.process.fusion.blk.SplitImgLoaderThinPlateSplineFusion

public class SplitImgLoaderThinPlateSplineFusion
extends Object

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static final class	SplitImgLoaderThinPlateSplineFusion.DonatedNail	A single nail landmark donated from one split sub-view's surface onto the recipient underlying view's TPS.
static final class	SplitImgLoaderThinPlateSplineFusion.LandmarkRecord	One TPS landmark, classified by category.

Constructor Summary

Constructors

Constructor	Description
SplitImgLoaderThinPlateSplineFusion()

Method Summary

Modifier and Type	Method	Description
static Map<mpicbg.spim.data.sequence.ViewId,List<SplitImgLoaderThinPlateSplineFusion.DonatedNail>>	computeCrossViewNailDonations(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, Collection<? extends mpicbg.spim.data.sequence.ViewId> underlyingViewIds, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, double cornerCoverageRadius, int seamSamplesPerAxis, int[] seamSamplesScheduleThresholds, int[] seamSamplesScheduleValues, Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)	Compute cross-view nail donations across all underlying views in one pass.
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling)	Backward-compatible overload — center landmarks only (no correspondence-based midpoint landmarks).
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences)	Backward-compatible overload — correspondence midpoints but no corner anchors.
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius)	Backward-compatible overload — corner anchors with N=2 (corners only).
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis)	Backward-compatible overload — no landmark visitor.
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis, int[] seamSamplesScheduleThresholds, int[] seamSamplesScheduleValues, Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)	Backward-compatible overload — no donated nails.
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis, int[] seamSamplesScheduleThresholds, int[] seamSamplesScheduleValues, Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor, List<SplitImgLoaderThinPlateSplineFusion.DonatedNail> donatedNails)	Build TPS Landmarks for one underlying view U.
static Landmarks	getCoefficients(SplitViewerImgLoader splitImgLoader, Map<Integer,List<Integer>> old2newSetupId, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap, mpicbg.spim.data.sequence.ViewId underlyingViewId, double anisotropyFactor, double downsampling, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis, Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)	Backward-compatible overload — visitor only, no per-split schedule, no donated nails.
static bdv.ViewerImgLoader	getUnderlyingImageLoader(SpimData2 data)
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>> net.imglib2.algorithm.blocks.BlockSupplier<T>	init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, FusionGUI.FusionType fusionType, int intervalExpansion, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize)	Backward-compatible overload — center landmarks only (no correspondence-based midpoint landmarks).
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>> net.imglib2.algorithm.blocks.BlockSupplier<T>	init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, FusionGUI.FusionType fusionType, int intervalExpansion, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences)	Backward-compatible overload — correspondence midpoints, no corner anchors.
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>> net.imglib2.algorithm.blocks.BlockSupplier<T>	init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, FusionGUI.FusionType fusionType, int intervalExpansion, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius)	Backward-compatible overload — corner anchors with N=2 (corners only).
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>> net.imglib2.algorithm.blocks.BlockSupplier<T>	init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, FusionGUI.FusionType fusionType, int intervalExpansion, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis)	Backward-compatible overload — no landmark visitor.
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>> net.imglib2.algorithm.blocks.BlockSupplier<T>	init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, FusionGUI.FusionType fusionType, int intervalExpansion, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis, int[] seamSamplesScheduleThresholds, int[] seamSamplesScheduleValues, Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>> net.imglib2.algorithm.blocks.BlockSupplier<T>	init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, FusionGUI.FusionType fusionType, int intervalExpansion, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize, ViewInterestPoints viewInterestPoints, String correspondenceLabel, int minNumCorrespondences, boolean anchorOverlapCorners, double cornerCoverageRadius, int seamSamplesPerAxis, Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)	Backward-compatible overload — visitor only, no per-split schedule.
static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>, D extends net.imglib2.type.NativeType<D> & net.imglib2.type.numeric.RealType<D>> net.imglib2.algorithm.blocks.BlockSupplier<T>	initWithLoadedDfields(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter, SplitViewerImgLoader splitImgLoader, Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions, Map<mpicbg.spim.data.sequence.ViewId,net.imglib2.Interval> viewBounds, Map<mpicbg.spim.data.sequence.ViewId,net.imglib2.algorithm.blocks.dfield.DisplacementFields.TransformedDisplacementField<D>> rawDfields, FusionGUI.FusionType fusionType, double anisotropyFactor, int interpolationMethod, Map<Integer,Integer> fusionMap, Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients, net.imglib2.Interval fusionInterval, T type, int[] blockSize, Map<mpicbg.spim.data.sequence.ViewId,net.imglib2.realtransform.AffineTransform3D> approximateAffines)	Same as init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType, T>, net.preibisch.mvrecon.fiji.spimdata.imgloaders.splitting.SplitViewerImgLoader, java.util.Collection<? extends mpicbg.spim.data.sequence.ViewId>, java.util.Map<mpicbg.spim.data.sequence.ViewId, mpicbg.spim.data.registration.ViewRegistration>, java.util.Map<mpicbg.spim.data.sequence.ViewId, ? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>>, net.preibisch.mvrecon.fiji.plugin.fusion.FusionGUI.FusionType, int, double, int, java.util.Map<java.lang.Integer, java.lang.Integer>, java.util.Map<mpicbg.spim.data.sequence.ViewId, net.preibisch.mvrecon.process.fusion.intensity.Coefficients>, net.imglib2.Interval, T, int[]) but accepts pre-built per-underlying-view dfields and approximate affines (e.g. loaded from disk after a distributed Phase-1.5 materialization).
static Map<Integer,List<Integer>>	old2newSetupId(Map<Integer,Integer> new2oldSetupId)
static List<mpicbg.spim.data.sequence.ViewId>	splitViewIds(Collection<? extends mpicbg.spim.data.sequence.ViewId> underlyingViewIds, Map<Integer,List<Integer>> old2newSetupId)
static List<mpicbg.spim.data.sequence.ViewId>	underlyingViewIds(Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIds, Map<Integer,Integer> new2oldSetupId)

Methods inherited from class java.lang.Object

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

Constructor Details

SplitImgLoaderThinPlateSplineFusion

public SplitImgLoaderThinPlateSplineFusion()

Method Details

init

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
net.imglib2.algorithm.blocks.BlockSupplier<T> init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 FusionGUI.FusionType fusionType,
 int intervalExpansion,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize)

Backward-compatible overload — center landmarks only (no correspondence-based midpoint landmarks).

init

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
net.imglib2.algorithm.blocks.BlockSupplier<T> init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 FusionGUI.FusionType fusionType,
 int intervalExpansion,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences)

Backward-compatible overload — correspondence midpoints, no corner anchors.

init

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
net.imglib2.algorithm.blocks.BlockSupplier<T> init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 FusionGUI.FusionType fusionType,
 int intervalExpansion,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius)

Backward-compatible overload — corner anchors with N=2 (corners only).

init

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
net.imglib2.algorithm.blocks.BlockSupplier<T> init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 FusionGUI.FusionType fusionType,
 int intervalExpansion,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis)

Backward-compatible overload — no landmark visitor.

init

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
net.imglib2.algorithm.blocks.BlockSupplier<T> init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 FusionGUI.FusionType fusionType,
 int intervalExpansion,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis,
 Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)

Backward-compatible overload — visitor only, no per-split schedule.

init

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>>
net.imglib2.algorithm.blocks.BlockSupplier<T> init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitViewRegistrations,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 FusionGUI.FusionType fusionType,
 int intervalExpansion,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis,
 int[] seamSamplesScheduleThresholds,
 int[] seamSamplesScheduleValues,
 Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)

initWithLoadedDfields

public static <T extends net.imglib2.type.numeric.RealType<T> & net.imglib2.type.NativeType<T>,
D extends net.imglib2.type.NativeType<D> & net.imglib2.type.numeric.RealType<D>>
net.imglib2.algorithm.blocks.BlockSupplier<T> initWithLoadedDfields(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType,T> converter,
 SplitViewerImgLoader splitImgLoader,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIdsInput,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>> splitViewDescriptions,
 Map<mpicbg.spim.data.sequence.ViewId,net.imglib2.Interval> viewBounds,
 Map<mpicbg.spim.data.sequence.ViewId,net.imglib2.algorithm.blocks.dfield.DisplacementFields.TransformedDisplacementField<D>> rawDfields,
 FusionGUI.FusionType fusionType,
 double anisotropyFactor,
 int interpolationMethod,
 Map<Integer,Integer> fusionMap,
 Map<mpicbg.spim.data.sequence.ViewId,Coefficients> intensityAdjustmentCoefficients,
 net.imglib2.Interval fusionInterval,
 T type,
 int[] blockSize,
 Map<mpicbg.spim.data.sequence.ViewId,net.imglib2.realtransform.AffineTransform3D> approximateAffines)

Same as init(net.imglib2.converter.Converter<net.imglib2.type.numeric.real.FloatType, T>, net.preibisch.mvrecon.fiji.spimdata.imgloaders.splitting.SplitViewerImgLoader, java.util.Collection<? extends mpicbg.spim.data.sequence.ViewId>, java.util.Map<mpicbg.spim.data.sequence.ViewId, mpicbg.spim.data.registration.ViewRegistration>, java.util.Map<mpicbg.spim.data.sequence.ViewId, ? extends mpicbg.spim.data.generic.sequence.BasicViewDescription<?>>, net.preibisch.mvrecon.fiji.plugin.fusion.FusionGUI.FusionType, int, double, int, java.util.Map<java.lang.Integer, java.lang.Integer>, java.util.Map<mpicbg.spim.data.sequence.ViewId, net.preibisch.mvrecon.process.fusion.intensity.Coefficients>, net.imglib2.Interval, T, int[]) but accepts pre-built per-underlying-view dfields and approximate affines (e.g. loaded from disk after a distributed Phase-1.5 materialization). Skips per-task TPS rasterization and landmark computation.

Parameters:

viewBounds - back-projected bounding box (render coordinates) per underlying view.

rawDfields - un-offset displacement fields per underlying view, as produced by DisplacementFields.sample(tps, viewBounds.get(viewId), spacing). Must contain entries at least for all underlying views overlapping fusionInterval; extra entries are ignored. Must be backed by ArrayImg (perf requirement of BlkThinPlateSplineFusion).

approximateAffines - per-underlying-view affine that approximates the TPS, used downstream for blending-weight adjustment. Typically read from the dfield dataset's approx_affine_row_major attribute (populated by Phase 1.5).

underlyingViewIds

public static List<mpicbg.spim.data.sequence.ViewId> underlyingViewIds(Collection<? extends mpicbg.spim.data.sequence.ViewId> splitViewIds,
 Map<Integer,Integer> new2oldSetupId)

old2newSetupId

public static Map<Integer,List<Integer>> old2newSetupId(Map<Integer,Integer> new2oldSetupId)

splitViewIds

public static List<mpicbg.spim.data.sequence.ViewId> splitViewIds(Collection<? extends mpicbg.spim.data.sequence.ViewId> underlyingViewIds,
 Map<Integer,List<Integer>> old2newSetupId)

getUnderlyingImageLoader

public static bdv.ViewerImgLoader getUnderlyingImageLoader(SpimData2 data)

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling)

Backward-compatible overload — center landmarks only (no correspondence-based midpoint landmarks).

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences)

Backward-compatible overload — correspondence midpoints but no corner anchors.

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius)

Backward-compatible overload — corner anchors with N=2 (corners only).

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis)

Backward-compatible overload — no landmark visitor.

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis,
 Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)

Backward-compatible overload — visitor only, no per-split schedule, no donated nails. The anchorOverlapCorners/cornerCoverageRadius/ seamSamplesPerAxis params are accepted for signature stability but no longer cause per-view nail emission here — call computeCrossViewNailDonations(net.preibisch.mvrecon.fiji.spimdata.imgloaders.splitting.SplitViewerImgLoader, java.util.Map<java.lang.Integer, java.util.List<java.lang.Integer>>, java.util.Map<mpicbg.spim.data.sequence.ViewId, mpicbg.spim.data.registration.ViewRegistration>, java.util.Collection<? extends mpicbg.spim.data.sequence.ViewId>, double, double, net.preibisch.mvrecon.fiji.spimdata.interestpoints.ViewInterestPoints, java.lang.String, int, double, int, int[], int[], java.util.function.Consumer<net.preibisch.mvrecon.process.fusion.blk.SplitImgLoaderThinPlateSplineFusion.LandmarkRecord>) at the driver and pass the result via the new overload's donatedNails parameter.

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis,
 int[] seamSamplesScheduleThresholds,
 int[] seamSamplesScheduleValues,
 Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)

Backward-compatible overload — no donated nails. Centers + correspondence midpoints only. Cross-view nails must be supplied via the new overload's donatedNails parameter (see computeCrossViewNailDonations(net.preibisch.mvrecon.fiji.spimdata.imgloaders.splitting.SplitViewerImgLoader, java.util.Map<java.lang.Integer, java.util.List<java.lang.Integer>>, java.util.Map<mpicbg.spim.data.sequence.ViewId, mpicbg.spim.data.registration.ViewRegistration>, java.util.Collection<? extends mpicbg.spim.data.sequence.ViewId>, double, double, net.preibisch.mvrecon.fiji.spimdata.interestpoints.ViewInterestPoints, java.lang.String, int, double, int, int[], int[], java.util.function.Consumer<net.preibisch.mvrecon.process.fusion.blk.SplitImgLoaderThinPlateSplineFusion.LandmarkRecord>)).

getCoefficients

public static Landmarks getCoefficients(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 mpicbg.spim.data.sequence.ViewId underlyingViewId,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 boolean anchorOverlapCorners,
 double cornerCoverageRadius,
 int seamSamplesPerAxis,
 int[] seamSamplesScheduleThresholds,
 int[] seamSamplesScheduleValues,
 Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor,
 List<SplitImgLoaderThinPlateSplineFusion.DonatedNail> donatedNails)

Build TPS Landmarks for one underlying view U. Always emits one center landmark per split sub-view of U (positions in underlying-view pixel coords; targets in render coords). If viewInterestPoints != null and correspondenceLabel != null additional cross-view "tie" landmarks are appended: for each split sub-view S of U and each partner split sub-view S' (from a different underlying view) with at least minNumCorrespondences corresponding interest points under correspondenceLabel, one midpoint landmark is added at source = mean(p_S) + splitTranslation_S, target = 0.5*(model_S.apply(mean(p_S)) + model_S'.apply(mean(p_S'))). The symmetric counterpart is added to S''s underlying view in its own pass.

If donatedNails is non-null, each entry is appended as an additional landmark on U's TPS. Nail donations are computed globally by computeCrossViewNailDonations(net.preibisch.mvrecon.fiji.spimdata.imgloaders.splitting.SplitViewerImgLoader, java.util.Map<java.lang.Integer, java.util.List<java.lang.Integer>>, java.util.Map<mpicbg.spim.data.sequence.ViewId, mpicbg.spim.data.registration.ViewRegistration>, java.util.Collection<? extends mpicbg.spim.data.sequence.ViewId>, double, double, net.preibisch.mvrecon.fiji.spimdata.interestpoints.ViewInterestPoints, java.lang.String, int, double, int, int[], int[], java.util.function.Consumer<net.preibisch.mvrecon.process.fusion.blk.SplitImgLoaderThinPlateSplineFusion.LandmarkRecord>) so that the partner view's TPS sees a paired landmark pointing at the same render-space target — something the legacy per-view nail logic could not guarantee. The anchorOverlapCorners/cornerCoverageRadius/ seamSamplesPerAxis/seamSamplesScheduleXxx parameters are kept in the signature for API stability but are no longer consulted here; the driver controls them via the donation pass.

computeCrossViewNailDonations

public static Map<mpicbg.spim.data.sequence.ViewId,List<SplitImgLoaderThinPlateSplineFusion.DonatedNail>> computeCrossViewNailDonations(SplitViewerImgLoader splitImgLoader,
 Map<Integer,List<Integer>> old2newSetupId,
 Map<mpicbg.spim.data.sequence.ViewId,mpicbg.spim.data.registration.ViewRegistration> splitRegMap,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> underlyingViewIds,
 double anisotropyFactor,
 double downsampling,
 ViewInterestPoints viewInterestPoints,
 String correspondenceLabel,
 int minNumCorrespondences,
 double cornerCoverageRadius,
 int seamSamplesPerAxis,
 int[] seamSamplesScheduleThresholds,
 int[] seamSamplesScheduleValues,
 Consumer<SplitImgLoaderThinPlateSplineFusion.LandmarkRecord> landmarkVisitor)

Compute cross-view nail donations across all underlying views in one pass.

For each underlying view U and each split sub-view S of U, sample S's surface (corners at N=2, edge midpoints + face centers at N=3, denser at higher N) and, for each accepted sample that overlaps a partner split S' of U' (where S has at least minNumCorrespondences validated correspondences with S'), emit two donations pointing at the same render-space target r_C = model_S(sampleZeroMin):

• One into U's TPS: src = sampleZeroMin + splitTr_S.
• One into U''s TPS: src = sampleInSp + splitTr_S', where sampleInSp = model_S'.applyInverse(r_C) — the same physical render-space position expressed in S''s zero-min coords.

This is the fix for the legacy per-view nail logic, which placed single-view anchors at each split's own affine corner and therefore did not pull overlapping underlying views to the same render-space point.

Returns:

per-recipient-underlying-view donations. Pass the entry for U into getCoefficients's donatedNails parameter.