Package sc.fiji.snt.analysis.curation

Class PlausibilityCheck.DeepCheck

java.lang.Object

sc.fiji.snt.analysis.curation.PlausibilityCheck.DeepCheck

Direct Known Subclasses:

PlausibilityCheck.BoundaryProximity, PlausibilityCheck.BundledPaths, PlausibilityCheck.Crossovers, PlausibilityCheck.IntensityValley, PlausibilityCheck.InvalidRadius, PlausibilityCheck.RadiusJumps, PlausibilityCheck.RadiusMonotonicity, PlausibilityCheck.SignalQuality, PlausibilityCheck.TerminalNearAncestor, PlausibilityCheck.UncertainTerminal, PlausibilityCheck.ZExtentRatio

Enclosing class:

PlausibilityCheck

public abstract static class PlausibilityCheck.DeepCheck
extends Object

A heavier check that scans an entire collection of paths for issues. Triggered explicitly by the user via a "Run Deep Scan" button.

Constructor Summary

Constructors

Constructor	Description
DeepCheck()

Method Summary

Modifier and Type	Method	Description
abstract String	getName()
PlausibilityCheck.ImpactKind	impactKind()	Declares how this check's errors propagate.
boolean	isEnabled()
PlausibilityCheck.Measurements	measure(Collection<Path> paths)	Computes the full distribution of this check's metric across paths, without applying the warning threshold.
abstract List<PlausibilityCheck.Warning>	scan(Collection<Path> paths)	Scans a collection of paths for plausibility issues.
void	setEnabled(boolean enabled)

Methods inherited from class java.lang.Object

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

Constructor Details

DeepCheck

public DeepCheck()

Method Details

getName

public abstract String getName()

Returns:

a short human-readable name for this check

scan

public abstract List<PlausibilityCheck.Warning> scan(Collection<Path> paths)

Scans a collection of paths for plausibility issues.

Parameters:

paths - the paths to scan

Returns:

list of warnings (empty if no issues found)

measure

public PlausibilityCheck.Measurements measure(Collection<Path> paths)

Computes the full distribution of this check's metric across paths, without applying the warning threshold. Default implementation returns PlausibilityCheck.Measurements.EMPTY; subclasses override to enable per-check histogram popups in the Curation Assistant.

Parameters:

paths - the paths to evaluate; null or empty yields PlausibilityCheck.Measurements.EMPTY.

Returns:

a PlausibilityCheck.Measurements record; never null.

impactKind

public PlausibilityCheck.ImpactKind impactKind()

Declares how this check's errors propagate. Default LOCAL for deep checks because most deep checks (radius jumps, monotonicity, signal quality) measure intrinsic per-path properties that don't propagate to descendants. Topology-class checks (e.g., Crossovers) override to PlausibilityCheck.ImpactKind.SUBTREE.

isEnabled

public boolean isEnabled()

setEnabled

public void setEnabled(boolean enabled)