Package sc.fiji.snt.analysis.curation

Class PlausibilityCheck.InterForkDistance

java.lang.Object

sc.fiji.snt.analysis.curation.PlausibilityCheck.LiveCheck

sc.fiji.snt.analysis.curation.PlausibilityCheck.InterForkDistance

Enclosing class:

PlausibilityCheck

public static class PlausibilityCheck.InterForkDistance
extends PlausibilityCheck.LiveCheck

Warns when two consecutive forks on the same parent path are implausibly close together. Catches the misclick pattern where the user accidentally created two forks at nearly the same location, or cases where a fitted radius collapsed a single fork into two.

Constructor Summary

Constructors

Constructor	Description
InterForkDistance()

Method Summary

Modifier and Type	Method	Description
List<PlausibilityCheck.Warning>	check(Path parent, Path child, int branchIndex)	Evaluates the plausibility of a child path forking from a parent.
double	getMinDistanceUm()
String	getName()
PlausibilityCheck.ImpactKind	impactKind()	Declares how this check's errors propagate.
PlausibilityCheck.Measurements	measure(Collection<Path> paths)	Computes the full distribution of this check's metric across paths, without applying the warning threshold.
void	setMinDistanceUm(double um)

Methods inherited from class sc.fiji.snt.analysis.curation.PlausibilityCheck.LiveCheck

isEnabled, setEnabled

Methods inherited from class java.lang.Object

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

Constructor Details

InterForkDistance

public InterForkDistance()

Method Details

getName

public String getName()

Specified by:

getName in class PlausibilityCheck.LiveCheck

Returns:

a short human-readable name for this check

impactKind

public PlausibilityCheck.ImpactKind impactKind()

Description copied from class: PlausibilityCheck.LiveCheck

Declares how this check's errors propagate. Default SUBTREE for live checks because most live checks (branch angle, direction, tortuosity, soma distance) catch topology problems whose consequences cascade downstream. Caliber-only checks (e.g., RadiusContinuity, ConstantRadii) override to PlausibilityCheck.ImpactKind.LOCAL.

Overrides:

impactKind in class PlausibilityCheck.LiveCheck

setMinDistanceUm

public void setMinDistanceUm(double um)

getMinDistanceUm

public double getMinDistanceUm()

check

public List<PlausibilityCheck.Warning> check(Path parent,
 Path child,
 int branchIndex)

Description copied from class: PlausibilityCheck.LiveCheck

Evaluates the plausibility of a child path forking from a parent.

Specified by:

check in class PlausibilityCheck.LiveCheck

Parameters:

parent - the parent path

child - the child (candidate) path

branchIndex - the node index in the parent where the fork occurs

Returns:

list of warnings (empty if the operation is plausible)

measure

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

Description copied from class: PlausibilityCheck.LiveCheck

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.

Overrides:

measure in class PlausibilityCheck.LiveCheck

Parameters:

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

Returns:

a PlausibilityCheck.Measurements record; never null.