Uses of Class fiji.plugin.trackmate.Settings (Fiji Javadocs 0-SNAPSHOT API)

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Packages that use Settings
Package	Description
fiji.plugin.trackmate
fiji.plugin.trackmate.action
fiji.plugin.trackmate.detection
fiji.plugin.trackmate.features
fiji.plugin.trackmate.gui.components
fiji.plugin.trackmate.gui.components.detector
fiji.plugin.trackmate.gui.wizard.descriptors
fiji.plugin.trackmate.io
fiji.plugin.trackmate.util
fiji.plugin.trackmate.visualization
fiji.plugin.trackmate.visualization.hyperstack
fiji.plugin.trackmate.visualization.trackscheme

Uses of Settings in fiji.plugin.trackmate

Fields in fiji.plugin.trackmate declared as Settings
Modifier and Type	Field and Description
`protected Settings`	TrackMate.`settings`

Methods in fiji.plugin.trackmate that return Settings
Modifier and Type	Method and Description
`protected Settings`	TrackMateRunner.`createSettings(ij.ImagePlus imp)`
`protected Settings`	TrackMatePlugIn.`createSettings(ij.ImagePlus imp)` Hook for subclassers: Creates the `Settings` instance that will be used to tune the `TrackMate` instance.
`protected Settings`	ManualTrackingPlugIn.`createSettings(ij.ImagePlus imp)`
`Settings`	TrackMate.`getSettings()`

Methods in fiji.plugin.trackmate with parameters of type Settings
Modifier and Type	Method and Description
`protected TrackMate`	TrackMatePlugIn.`createTrackMate(Model model, Settings settings)` Hook for subclassers: Creates the TrackMate instance that will be controlled in the GUI.

Constructors in fiji.plugin.trackmate with parameters of type Settings
Constructor and Description
`TrackMate(Model model, Settings settings)`
`TrackMate(Settings settings)`

Uses of Settings in fiji.plugin.trackmate.action

Methods in fiji.plugin.trackmate.action with parameters of type Settings
Modifier and Type	Method and Description
`static void`	ExportTracksToXML.`export(Model model, Settings settings, File file)` Static utility that silently exports tracks in a simplified xml format, describe in this class.
`static void`	ISBIChallengeExporter.`exportToFile(Model model, Settings settings, File file)`
`static void`	ISBIChallengeExporter.`exportToFile(Model model, Settings settings, File file, Logger logger)`
`static ij.ImagePlus`	ExtractTrackStackAction.`trackStack(Settings settings, List<Spot> path, double radius, boolean do3d, Logger logger)`

Constructors in fiji.plugin.trackmate.action with parameters of type Settings
Constructor and Description
`SpotGaussianFitter(Model model, Settings settings, Logger logger, boolean fixRadius)`

Uses of Settings in fiji.plugin.trackmate.detection

Methods in fiji.plugin.trackmate.detection with parameters of type Settings
Modifier and Type	Method and Description
`ConfigurationPanel`	ThresholdDetectorFactory.`getDetectorConfigurationPanel(Settings lSettings, Model model)`
`ConfigurationPanel`	SpotDetectorFactoryBase.`getDetectorConfigurationPanel(Settings settings, Model model)` Returns a new GUI panel able to configure the settings suitable for this specific detector factory.
`ConfigurationPanel`	MaskDetectorFactory.`getDetectorConfigurationPanel(Settings lSettings, Model model)`
`ConfigurationPanel`	ManualDetectorFactory.`getDetectorConfigurationPanel(Settings settings, Model model)`
`ConfigurationPanel`	LogDetectorFactory.`getDetectorConfigurationPanel(Settings lSettings, Model model)`
`ConfigurationPanel`	LabeImageDetectorFactory.`getDetectorConfigurationPanel(Settings lSettings, Model model)`
`ConfigurationPanel`	DogDetectorFactory.`getDetectorConfigurationPanel(Settings lSettings, Model model)`
`static void`	DetectionUtils.`preview(Model model, Settings settings, SpotDetectorFactoryBase<?> detectorFactory, Map<String,Object> detectorSettings, int frame, Logger logger, Consumer<Boolean> buttonEnabler)` Preview a detection results.

Uses of Settings in fiji.plugin.trackmate.features

Methods in fiji.plugin.trackmate.features with parameters of type Settings
Modifier and Type	Method and Description
`static Map<String,String>`	FeatureUtils.`collectFeatureKeys(DisplaySettings.TrackMateObject target, Model model, Settings settings)`

Constructors in fiji.plugin.trackmate.features with parameters of type Settings
Constructor and Description
`EdgeFeatureCalculator(Model model, Settings settings)`
`ModelFeatureUpdater(Model model, Settings settings)` Constructs and activate a `ModelFeatureUpdater`.
`SpotFeatureCalculator(Model model, Settings settings)`
`TrackFeatureCalculator(Model model, Settings settings)`

Uses of Settings in fiji.plugin.trackmate.gui.components

Methods in fiji.plugin.trackmate.gui.components with parameters of type Settings
Modifier and Type	Method and Description
`static CategoryJComboBox<DisplaySettings.TrackMateObject,String>`	FeatureDisplaySelector.`createComboBoxSelector(Model model, Settings settings)` Return a `CategoryJComboBox` that lets a user select among all available features in TrackMate.

Constructors in fiji.plugin.trackmate.gui.components with parameters of type Settings
Constructor and Description
`FeatureDisplaySelector(Model model, Settings settings, DisplaySettings displaySettings)`
`FilterGuiPanel(Model model, Settings settings, DisplaySettings.TrackMateObject target, List<FeatureFilter> filters, String defaultFeature, FeatureDisplaySelector featureSelector)`

Uses of Settings in fiji.plugin.trackmate.gui.components.detector

Fields in fiji.plugin.trackmate.gui.components.detector declared as Settings
Modifier and Type	Field and Description
`protected Settings`	ThresholdDetectorConfigurationPanel.`settings`

Constructors in fiji.plugin.trackmate.gui.components.detector with parameters of type Settings
Constructor and Description
`DogDetectorConfigurationPanel(Settings settings, Model model, String infoText, String detectorName)`
`LabelImageDetectorConfigurationPanel(Settings settings, Model model)`
`LogDetectorConfigurationPanel(Settings settings, Model model, String infoText, String detectorName)` Creates a new `LogDetectorConfigurationPanel`, a GUI able to configure settings suitable to `LogDetectorFactory` and derived implementations.
`MaskDetectorConfigurationPanel(Settings settings, Model model)`
`ThresholdDetectorConfigurationPanel(Settings settings, Model model)`
`ThresholdDetectorConfigurationPanel(Settings settings, Model model, String infoText, String detectorName)` Creates a new `ThresholdDetectorConfigurationPanel`, a GUI able to configure settings suitable to a LogDetectorFactory and derived implementations.

Uses of Settings in fiji.plugin.trackmate.gui.wizard.descriptors

Constructors in fiji.plugin.trackmate.gui.wizard.descriptors with parameters of type Settings
Constructor and Description
`SpotDetectorDescriptor(Settings settings, ConfigurationPanel configurationPanel, Logger logger)`
`SpotTrackerDescriptor(Settings settings, ConfigurationPanel configurationPanel, Logger logger)`
`StartDialogDescriptor(Settings settings, Logger logger)`

Uses of Settings in fiji.plugin.trackmate.io

Methods in fiji.plugin.trackmate.io that return Settings
Modifier and Type	Method and Description
`Settings`	TmXmlReader.`readSettings(ij.ImagePlus imp)`
`Settings`	TmXmlReader.`readSettings(ij.ImagePlus imp, DetectorProvider detectorProvider, TrackerProvider trackerProvider, SpotAnalyzerProvider spotAnalyzerProvider, EdgeAnalyzerProvider edgeAnalyzerProvider, TrackAnalyzerProvider trackAnalyzerProvider, SpotMorphologyAnalyzerProvider spotMorphologyAnalyzerProvider)` Reads the settings element of the file, and sets the fields of the specified `Settings` object according to the xml file content.

Methods in fiji.plugin.trackmate.io with parameters of type Settings
Modifier and Type	Method and Description
`void`	TmXmlWriter.`appendSettings(Settings settings)` Appends the content of a `Settings` object to the document.
`protected org.jdom2.Element`	TmXmlWriter.`echoAnalyzers(Settings settings)`
`protected org.jdom2.Element`	TmXmlWriter.`echoDetectorSettings(Settings settings)`
`protected org.jdom2.Element`	TmXmlWriter.`echoImageInfo(Settings settings)`
`protected org.jdom2.Element`	TmXmlWriter.`echoInitialSpotFilter(Settings settings)`
`protected org.jdom2.Element`	TmXmlWriter.`echoSpotFilters(Settings settings)`
`protected org.jdom2.Element`	TmXmlWriter.`echoTrackerSettings(Settings settings)`
`protected org.jdom2.Element`	TmXmlWriter.`echoTrackFilters(Settings settings)`
`protected void`	TmXmlReader.`getDetectorSettings(org.jdom2.Element settingsElement, Settings settings, DetectorProvider provider)` Update the given `Settings` object with the `SpotDetectorFactory` and settings map fields named `detectorFactory` and `detectorSettings` read within the XML file this reader is initialized with.
`protected void`	TmXmlReader.`getTrackerSettings(org.jdom2.Element settingsElement, Settings settings, TrackerProvider provider)` Update the given `Settings` object with `SpotTracker` proper settings map fields named `trackerSettings` and `trackerFactory` read within the XML file this reader is initialized with.
`Collection<TrackMateModelView>`	TmXmlReader.`getViews(ViewProvider provider, Model model, Settings settings, SelectionModel selectionModel, DisplaySettings displaySettings)` Returns the collection of views that were saved in this file.

Uses of Settings in fiji.plugin.trackmate.util

Methods in fiji.plugin.trackmate.util with parameters of type Settings
Modifier and Type	Method and Description
`static Interval`	TMUtils.`getInterval(ImgPlus<?> img, Settings settings)` Returns an interval object that in the specified `ImgPlus` slice in a single time frame.
`static Interval`	TMUtils.`getIntervalWithTime(ImgPlus<?> img, Settings settings)` Returns an interval object that slices in the specified `ImgPlus` in a single channel (the channel dimension is dropped).
`static File`	TMUtils.`proposeTrackMateSaveFile(Settings settings, Logger logger)` Creates a default file path to save the TrackMate session to, based on the image TrackMate works on.

Uses of Settings in fiji.plugin.trackmate.visualization

Methods in fiji.plugin.trackmate.visualization with parameters of type Settings
Modifier and Type	Method and Description
`TrackMateModelView`	ViewFactory.`create(Model model, Settings settings, SelectionModel selectionModel, DisplaySettings displaySettings)` Returns a new instance of the concrete view.

Uses of Settings in fiji.plugin.trackmate.visualization.hyperstack

Methods in fiji.plugin.trackmate.visualization.hyperstack with parameters of type Settings
Modifier and Type	Method and Description
`TrackMateModelView`	HyperStackDisplayerFactory.`create(Model model, Settings settings, SelectionModel selectionModel, DisplaySettings displaySettings)`

Uses of Settings in fiji.plugin.trackmate.visualization.trackscheme

Methods in fiji.plugin.trackmate.visualization.trackscheme with parameters of type Settings
Modifier and Type	Method and Description
`TrackMateModelView`	TrackSchemeFactory.`create(Model model, Settings settings, SelectionModel selectionModel, DisplaySettings displaySettings)`

Constructors in fiji.plugin.trackmate.visualization.trackscheme with parameters of type Settings
Constructor and Description
`SpotImageUpdater(Settings settings)` Instantiates a new spot image updater.

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