Package net.preibisch.mvrecon.fiji.spimdata.explorer.analyzeerror

Class AnalyzeErrorsUtil

java.lang.Object

net.preibisch.mvrecon.fiji.spimdata.explorer.analyzeerror.AnalyzeErrorsUtil

public class AnalyzeErrorsUtil
extends Object

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	AnalyzeErrorsUtil.GroupPairResult	Aggregated error statistics for one (groupA, groupB) bucket.
static enum	AnalyzeErrorsUtil.Mode	Display mode for AnalyzeErrorsResultsWindow.
static final class	AnalyzeErrorsUtil.PairError	Per-(viewA, viewB) error result returned by getErrors(net.preibisch.mvrecon.fiji.spimdata.SpimData2, java.util.List<mpicbg.spim.data.sequence.ViewId>, java.util.Map<java.lang.String, java.lang.Double>).
static class	AnalyzeErrorsUtil.Parameters	Bundle of dialog choices returned by getParametersExtended(net.preibisch.mvrecon.fiji.spimdata.SpimData2, java.util.List<mpicbg.spim.data.sequence.ViewId>).
static final class	AnalyzeErrorsUtil.SingleGroupError	Per-group aggregate of errors and connected groups (Single-view mode, grouped).
static final class	AnalyzeErrorsUtil.SingleViewError	Per-view aggregate of errors and connections (Single-view mode, ungrouped).

Field Summary

Fields

Modifier and Type	Field	Description
static int	defaultBottomMBest
static boolean	defaultGroupAngles
static int	defaultMiddleK
static AnalyzeErrorsUtil.Mode	defaultMode
static boolean	defaultPrintAll
static int	defaultTopNWorst
static boolean	defaultUseAllViews

Method Summary

Modifier and Type	Method	Description
static ArrayList<AnalyzeErrorsUtil.GroupPairResult>	computeGroupPairs(SpimData2 data, ArrayList<AnalyzeErrorsUtil.PairError> errors, AnalyzeErrorsUtil.Parameters p)	Bucket per-pair errors into per-group-pair buckets using Group.combineBy(java.util.List<V>, java.util.Set<java.lang.Class<? extends mpicbg.spim.data.generic.base.Entity>>) (collapse semantics — same as ViewSetupExplorer / Interest_Point_Registration grouping).
static ArrayList<AnalyzeErrorsUtil.SingleGroupError>	computeSingleGroupErrors(SpimData2 data, ArrayList<AnalyzeErrorsUtil.PairError> errors, AnalyzeErrorsUtil.Parameters p)	Aggregate AnalyzeErrorsUtil.PairErrors into one AnalyzeErrorsUtil.SingleGroupError per group that participates in at least one group-pair under the supplied grouping AnalyzeErrorsUtil.Parameters.
static ArrayList<AnalyzeErrorsUtil.SingleViewError>	computeSingleViewErrors(ArrayList<AnalyzeErrorsUtil.PairError> errors)	Aggregate AnalyzeErrorsUtil.PairErrors into one AnalyzeErrorsUtil.SingleViewError per view that appears in at least one pair.
static ArrayList<AnalyzeErrorsUtil.PairError>	getErrors(SpimData2 data, List<mpicbg.spim.data.sequence.ViewId> viewIds, Map<String,Double> labelAndWeights)	Compute weighted error per (viewA, viewB) pair, returning the list sorted desc by error.
static HashMap<String,Double>	getParameters(SpimData2 data, List<mpicbg.spim.data.sequence.ViewId> viewIds)	Backwards-compatible wrapper that returns just the labels-and-weights map.
static AnalyzeErrorsUtil.Parameters	getParametersExtended(SpimData2 data, List<mpicbg.spim.data.sequence.ViewId> viewIds)	Extended dialog returning the full AnalyzeErrorsUtil.Parameters bundle (labels+weights, grouping, top/bottom caps).
static void	printResults(SpimData2 data, ArrayList<AnalyzeErrorsUtil.PairError> errors, AnalyzeErrorsUtil.Parameters p)	Print top-N worst, bottom-M best, and the per-old-tile-pair / per-old-tile rollup summary blocks that the AnalyzeErrorsUtil.Parameters dialog choices request.
static void	selectViewsAndRecenter(ViewSetupExplorerPanel<?> panel, AnalyzeErrorsUtil.Parameters params, Collection<? extends mpicbg.spim.data.sequence.ViewId> views)	Bring the explorer into the grouping state AnalyzeErrors was run with (only if it isn't already there), then select rows whose view-set intersects the given views, update BDV coloring, and recenter on the selection.
static void	selectViewsAndRecenter(ViewSetupExplorerPanel<?> panel, AnalyzeErrorsUtil.Parameters params, Collection<? extends mpicbg.spim.data.sequence.ViewId> views, boolean recenter)	Same as selectViewsAndRecenter(ViewSetupExplorerPanel, Parameters, Collection) but skips the TransformationTools.reCenterViews(...) call when recenter == false.

Methods inherited from class java.lang.Object

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

Field Details

defaultGroupAngles

public static boolean defaultGroupAngles

defaultTopNWorst

public static int defaultTopNWorst

defaultBottomMBest

public static int defaultBottomMBest

defaultMiddleK

public static int defaultMiddleK

defaultPrintAll

public static boolean defaultPrintAll

defaultUseAllViews

public static boolean defaultUseAllViews

defaultMode

public static AnalyzeErrorsUtil.Mode defaultMode

Method Details

computeSingleViewErrors

public static ArrayList<AnalyzeErrorsUtil.SingleViewError> computeSingleViewErrors(ArrayList<AnalyzeErrorsUtil.PairError> errors)

Aggregate AnalyzeErrorsUtil.PairErrors into one AnalyzeErrorsUtil.SingleViewError per view that appears in at least one pair. Each pair contributes to both endpoints. Sorted descending by avg.

computeSingleGroupErrors

public static ArrayList<AnalyzeErrorsUtil.SingleGroupError> computeSingleGroupErrors(SpimData2 data,
 ArrayList<AnalyzeErrorsUtil.PairError> errors,
 AnalyzeErrorsUtil.Parameters p)

Aggregate AnalyzeErrorsUtil.PairErrors into one AnalyzeErrorsUtil.SingleGroupError per group that participates in at least one group-pair under the supplied grouping AnalyzeErrorsUtil.Parameters. Each cross-group pair contributes once to each endpoint group. Sorted descending by avg.

computeGroupPairs

public static ArrayList<AnalyzeErrorsUtil.GroupPairResult> computeGroupPairs(SpimData2 data,
 ArrayList<AnalyzeErrorsUtil.PairError> errors,
 AnalyzeErrorsUtil.Parameters p)

Bucket per-pair errors into per-group-pair buckets using Group.combineBy(java.util.List<V>, java.util.Set<java.lang.Class<? extends mpicbg.spim.data.generic.base.Entity>>) (collapse semantics — same as ViewSetupExplorer / Interest_Point_Registration grouping). Returns the buckets sorted descending by average error. Empty if no grouping is selected. Shared by the printed-log section in printResults(net.preibisch.mvrecon.fiji.spimdata.SpimData2, java.util.ArrayList<net.preibisch.mvrecon.fiji.spimdata.explorer.analyzeerror.AnalyzeErrorsUtil.PairError>, net.preibisch.mvrecon.fiji.spimdata.explorer.analyzeerror.AnalyzeErrorsUtil.Parameters) and the AnalyzeErrorsResultsWindow GUI.

getErrors

public static ArrayList<AnalyzeErrorsUtil.PairError> getErrors(SpimData2 data,
 List<mpicbg.spim.data.sequence.ViewId> viewIds,
 Map<String,Double> labelAndWeights)

Compute weighted error per (viewA, viewB) pair, returning the list sorted desc by error. Inverted iteration: walks each view's correspondences exactly once and accumulates into a canonical-pair map. Avoids the all-pairs Cartesian product that OOMs on large datasets. Complexity: O(N · C_avg) instead of O(N² · C_avg). Same-label only (matching the previous code's filter): correspondences with a different label on the other side are skipped.

getParameters

public static HashMap<String,Double> getParameters(SpimData2 data,
 List<mpicbg.spim.data.sequence.ViewId> viewIds)

Backwards-compatible wrapper that returns just the labels-and-weights map.

getParametersExtended

public static AnalyzeErrorsUtil.Parameters getParametersExtended(SpimData2 data,
 List<mpicbg.spim.data.sequence.ViewId> viewIds)

Extended dialog returning the full AnalyzeErrorsUtil.Parameters bundle (labels+weights, grouping, top/bottom caps).

printResults

public static void printResults(SpimData2 data,
 ArrayList<AnalyzeErrorsUtil.PairError> errors,
 AnalyzeErrorsUtil.Parameters p)

Print top-N worst, bottom-M best, and the per-old-tile-pair / per-old-tile rollup summary blocks that the AnalyzeErrorsUtil.Parameters dialog choices request.

selectViewsAndRecenter

public static void selectViewsAndRecenter(ViewSetupExplorerPanel<?> panel,
 AnalyzeErrorsUtil.Parameters params,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> views)

Bring the explorer into the grouping state AnalyzeErrors was run with (only if it isn't already there), then select rows whose view-set intersects the given views, update BDV coloring, and recenter on the selection. The fast path (explorer grouping already matches params) skips the re-grouping and the table-update waits — no flicker. Channel/Angle grouping isn't expressible via the explorer's checkboxes, so when params asked for those, the explorer is ungrouped instead and selection happens on the individual views. Must NOT be called on the EDT — uses SimpleMultiThreading.threadWait(long) to let the explorer's table updates settle when re-grouping is needed.

selectViewsAndRecenter

public static void selectViewsAndRecenter(ViewSetupExplorerPanel<?> panel,
 AnalyzeErrorsUtil.Parameters params,
 Collection<? extends mpicbg.spim.data.sequence.ViewId> views,
 boolean recenter)

Same as selectViewsAndRecenter(ViewSetupExplorerPanel, Parameters, Collection) but skips the TransformationTools.reCenterViews(...) call when recenter == false. Selection in the explorer (and therefore BDV source visibility) still updates either way.