Package sc.fiji.snt.gui.cmds

Class MultiSpectralRefinerCmd

java.lang.Object

org.scijava.AbstractContextual

org.scijava.command.ContextCommand

sc.fiji.snt.gui.cmds.MultiSpectralRefinerCmd

All Implemented Interfaces:

Runnable, org.scijava.Cancelable, org.scijava.command.Command, org.scijava.Contextual, org.scijava.plugin.SciJavaPlugin

public class MultiSpectralRefinerCmd
extends org.scijava.command.ContextCommand

GUI command for MultiSpectralRefiner. Configures cost function weights, thresholds, and parallelization settings for post-hoc refinement of traced paths in multispectral (Brainbow) images.

Author:

Tiago Ferreira

See Also:

• MultiSpectralRefiner
• PathFitterCmd

Field Summary

Fields

Modifier and Type	Field	Description
static final String	AUTO_INTENSITY_KEY
static final String	AUTO_TUNE_KEY
static final String	BACKGROUND_THRESHOLD_KEY
static final String	COLOR_WEIGHT_KEY
static final String	COS_SIMILARITY_KEY
static final String	INTENSITY_WEIGHT_KEY
static final String	MAX_INTENSITY_KEY
static final String	MAX_PERCENT_C_KEY
static final String	MAX_RADIUS_KEY
static final String	MIN_INTENSITY_KEY
static final String	MIN_PERCENT_C_KEY
static final String	RADIUS_WEIGHT_KEY
static final String	REF_WINDOW_KEY

Constructor Summary

Constructors

Constructor	Description
MultiSpectralRefinerCmd()

Method Summary

Modifier and Type	Method	Description
static MultiSpectralRefiner.Parameters	readParameters()	Reads stored preferences and returns a MultiSpectralRefiner.Parameters record, or defaults if no preferences have been stored.
void	run()

Methods inherited from class org.scijava.command.ContextCommand

cancel, getCancelReason, isCanceled

Methods inherited from class org.scijava.AbstractContextual

context, getContext

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.scijava.Contextual

setContext

Field Details

INTENSITY_WEIGHT_KEY

public static final String INTENSITY_WEIGHT_KEY

See Also:

• Constant Field Values

COLOR_WEIGHT_KEY

public static final String COLOR_WEIGHT_KEY

See Also:

• Constant Field Values

RADIUS_WEIGHT_KEY

public static final String RADIUS_WEIGHT_KEY

See Also:

• Constant Field Values

COS_SIMILARITY_KEY

public static final String COS_SIMILARITY_KEY

See Also:

• Constant Field Values

BACKGROUND_THRESHOLD_KEY

public static final String BACKGROUND_THRESHOLD_KEY

See Also:

• Constant Field Values

MIN_INTENSITY_KEY

public static final String MIN_INTENSITY_KEY

See Also:

• Constant Field Values

MAX_INTENSITY_KEY

public static final String MAX_INTENSITY_KEY

See Also:

• Constant Field Values

MIN_PERCENT_C_KEY

public static final String MIN_PERCENT_C_KEY

See Also:

• Constant Field Values

MAX_PERCENT_C_KEY

public static final String MAX_PERCENT_C_KEY

See Also:

• Constant Field Values

MAX_RADIUS_KEY

public static final String MAX_RADIUS_KEY

See Also:

• Constant Field Values

AUTO_INTENSITY_KEY

public static final String AUTO_INTENSITY_KEY

See Also:

• Constant Field Values

REF_WINDOW_KEY

public static final String REF_WINDOW_KEY

See Also:

• Constant Field Values

AUTO_TUNE_KEY

public static final String AUTO_TUNE_KEY

See Also:

• Constant Field Values

Constructor Details

MultiSpectralRefinerCmd

public MultiSpectralRefinerCmd()

Method Details

run

public void run()

readParameters

public static MultiSpectralRefiner.Parameters readParameters()

Reads stored preferences and returns a MultiSpectralRefiner.Parameters record, or defaults if no preferences have been stored.

Returns:

the parameter set from stored preferences