Package net.preibisch.mvrecon.fiji.plugin.interestpointdetection

Class DifferenceOfGUI

java.lang.Object

net.preibisch.mvrecon.fiji.plugin.interestpointdetection.InterestPointDetectionGUI

net.preibisch.mvrecon.fiji.plugin.interestpointdetection.DifferenceOfGUI

Direct Known Subclasses:

DifferenceOfGaussianGUI

public abstract class DifferenceOfGUI
extends InterestPointDetectionGUI

Field Summary

Fields

Modifier and Type	Field	Description
static String[]	brightnessChoice
static double	defaultAdditionalSigmaX
static double	defaultAdditionalSigmaY
static double	defaultAdditionalSigmaZ
static int	defaultBrightness
static int	defaultDownsampleXYIndex
static int	defaultDownsampleZIndex
static int	defaultFuseFrom
static int	defaultFuseTo
static int	defaultGroupChoice
static double	defaultImageSigmaX
static double	defaultImageSigmaY
static double	defaultImageSigmaZ
static int	defaultLocalization
static int	defaultMaxDetections
static int	defaultMaxDetectionsTypeIndex
static double	defaultMaxIntensity
static double	defaultMinIntensity
static boolean	defaultSameMinMax
static boolean	defaultUseMinMaxForAll
static int	defaultViewChoice
static String[]	downsampleChoiceXY
static String[]	downsampleChoiceZ
protected int	downsampleXYIndex
protected int	downsampleZ
protected static final int[]	ds
protected int	fuseFrom
protected int	fuseTo
protected double	imageSigmaX
protected double	imageSigmaY
protected double	imageSigmaZ
protected boolean	limitDetections
protected int	localization
static String[]	localizationChoice
protected int	maxDetections
protected int	maxDetectionsTypeIndex
protected double	maxIntensity
protected double	minIntensity
static boolean	useAverageMapBack

Constructor Summary

Constructors

Constructor	Description
DifferenceOfGUI(SpimData2 spimData, List<mpicbg.spim.data.sequence.ViewId> viewIdsToProcess)

Method Summary

Modifier and Type	Method	Description
protected abstract void	addAddtionalParameters(ij.gui.GenericDialog gd)
protected ij.ImagePlus	getGroupedImagePlusForInteractive(String dialogHeader)
protected List<Group<mpicbg.spim.data.sequence.ViewDescription>>	getGroups()
protected Group<mpicbg.spim.data.sequence.ViewDescription>	getGroupSelection(String dialogHeader, String text, List<Group<mpicbg.spim.data.sequence.ViewDescription>> groups)
protected ij.ImagePlus	getImagePlusForInteractive(String dialogHeader)
protected mpicbg.spim.data.sequence.ViewId	getViewSelection(String dialogHeader, String text)
protected String	nameForGroup(Group<mpicbg.spim.data.sequence.ViewDescription> group)
void	preprocess()	if any preprocessing is necessary
protected abstract boolean	queryAdditionalParameters(ij.gui.GenericDialog gd)
boolean	queryParameters(boolean defineAnisotropy, boolean setMinMax, boolean limitDetections, boolean groupTiles, boolean groupIllums)	Query the necessary parameters for the interestpoint detection
protected abstract boolean	setAdvancedValues()
protected abstract boolean	setDefaultValues(int brightness)
protected abstract boolean	setInteractiveValues()

Methods inherited from class net.preibisch.mvrecon.fiji.plugin.interestpointdetection.InterestPointDetectionGUI

findInterestPoints, getDescription, getParameters, getViewIdsToProcess, newInstance

Methods inherited from class java.lang.Object

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

Field Details

ds

protected static final int[] ds

downsampleChoiceXY

public static String[] downsampleChoiceXY

downsampleChoiceZ

public static String[] downsampleChoiceZ

localizationChoice

public static String[] localizationChoice

brightnessChoice

public static String[] brightnessChoice

defaultDownsampleXYIndex

public static int defaultDownsampleXYIndex

defaultDownsampleZIndex

public static int defaultDownsampleZIndex

defaultLocalization

public static int defaultLocalization

defaultBrightness

public static int defaultBrightness

defaultImageSigmaX

public static double defaultImageSigmaX

defaultImageSigmaY

public static double defaultImageSigmaY

defaultImageSigmaZ

public static double defaultImageSigmaZ

defaultViewChoice

public static int defaultViewChoice

defaultGroupChoice

public static int defaultGroupChoice

defaultAdditionalSigmaX

public static double defaultAdditionalSigmaX

defaultAdditionalSigmaY

public static double defaultAdditionalSigmaY

defaultAdditionalSigmaZ

public static double defaultAdditionalSigmaZ

defaultMinIntensity

public static double defaultMinIntensity

defaultMaxIntensity

public static double defaultMaxIntensity

defaultSameMinMax

public static boolean defaultSameMinMax

defaultMaxDetections

public static int defaultMaxDetections

defaultMaxDetectionsTypeIndex

public static int defaultMaxDetectionsTypeIndex

limitDetections

protected boolean limitDetections

imageSigmaX

protected double imageSigmaX

imageSigmaY

protected double imageSigmaY

imageSigmaZ

protected double imageSigmaZ

minIntensity

protected double minIntensity

maxIntensity

protected double maxIntensity

maxDetections

protected int maxDetections

maxDetectionsTypeIndex

protected int maxDetectionsTypeIndex

localization

protected int localization

downsampleXYIndex

protected int downsampleXYIndex

downsampleZ

protected int downsampleZ

useAverageMapBack

public static boolean useAverageMapBack

defaultFuseFrom

public static int defaultFuseFrom

defaultFuseTo

public static int defaultFuseTo

fuseFrom

protected int fuseFrom

fuseTo

protected int fuseTo

defaultUseMinMaxForAll

public static boolean defaultUseMinMaxForAll

Constructor Details

DifferenceOfGUI

public DifferenceOfGUI(SpimData2 spimData,
 List<mpicbg.spim.data.sequence.ViewId> viewIdsToProcess)

Method Details

addAddtionalParameters

protected abstract void addAddtionalParameters(ij.gui.GenericDialog gd)

queryAdditionalParameters

protected abstract boolean queryAdditionalParameters(ij.gui.GenericDialog gd)

setDefaultValues

protected abstract boolean setDefaultValues(int brightness)

setAdvancedValues

protected abstract boolean setAdvancedValues()

setInteractiveValues

protected abstract boolean setInteractiveValues()

preprocess

public void preprocess()

Description copied from class: InterestPointDetectionGUI

if any preprocessing is necessary

Specified by:

preprocess in class InterestPointDetectionGUI

queryParameters

public boolean queryParameters(boolean defineAnisotropy,
 boolean setMinMax,
 boolean limitDetections,
 boolean groupTiles,
 boolean groupIllums)

Description copied from class: InterestPointDetectionGUI

Query the necessary parameters for the interestpoint detection

Specified by:

queryParameters in class InterestPointDetectionGUI

Parameters:

defineAnisotropy - - whether to use/query for anisotropy in resolution of the data

setMinMax - - whether to define minimal and maximal intensity relative to whom everything is normalized to [0...1]

limitDetections - - offers the chance to select certain detections only based on their intensity

groupTiles - - if grouping of tiles is wanted

groupIllums - - if grouping of illums is wanted

Returns:

- if it was successful

getViewSelection

protected mpicbg.spim.data.sequence.ViewId getViewSelection(String dialogHeader,
 String text)

getGroups

protected List<Group<mpicbg.spim.data.sequence.ViewDescription>> getGroups()

nameForGroup

protected String nameForGroup(Group<mpicbg.spim.data.sequence.ViewDescription> group)

getGroupSelection

protected Group<mpicbg.spim.data.sequence.ViewDescription> getGroupSelection(String dialogHeader,
 String text,
 List<Group<mpicbg.spim.data.sequence.ViewDescription>> groups)

getImagePlusForInteractive

protected ij.ImagePlus getImagePlusForInteractive(String dialogHeader)

getGroupedImagePlusForInteractive

protected ij.ImagePlus getGroupedImagePlusForInteractive(String dialogHeader)