Package net.preibisch.mvrecon.fiji.datasetmanager

Class StackListImageJ

java.lang.Object

net.preibisch.mvrecon.fiji.datasetmanager.StackList

net.preibisch.mvrecon.fiji.datasetmanager.StackListImageJ

All Implemented Interfaces:

MultiViewDatasetDefinition

public class StackListImageJ
extends StackList

Nested Class Summary

Nested classes/interfaces inherited from class net.preibisch.mvrecon.fiji.datasetmanager.StackList

StackList.Calibration, StackList.ViewSetupPrecursor

Field Summary

Fields

Modifier and Type	Field	Description
static int	defaultAngleChoice
static int	defaultChannelleChoice
static int	defaultIlluminationChoice
static int	defaultTileChoice
static int	defaultTimePointChoice

Fields inherited from class net.preibisch.mvrecon.fiji.datasetmanager.StackList

ANGLE_PATTERN, angleNameList, angles, calibration1, calibration2, calibrationChoice1, calibrationChoice2, calibrations, CHANNEL_PATTERN, channelNameList, channels, defaultAngles, defaultCalibration1, defaultCalibration2, defaultChannels, defaultDirectory, defaultFileNamePattern, defaultIlluminations, defaultTiles, defaultTimepoints, dimensionChoiceAnglesFalse, dimensionChoiceAnglesTrue, dimensionChoiceChannelsFalse, dimensionChoiceChannelsTrue, dimensionChoiceIlluminationsFalse, dimensionChoiceIlluminationsTrue, dimensionChoiceTilesFalse, dimensionChoiceTilesTrue, dimensionChoiceTimePointsFalse, dimensionChoiceTimePointsTrue, directory, exceptionIds, fileNamePattern, hasMultipleAngles, hasMultipleChannels, hasMultipleIlluminations, hasMultipleTiles, hasMultipleTimePoints, ILLUMINATION_PATTERN, illuminations, illuminationsNameList, locations, numDigitsAngles, numDigitsChannels, numDigitsIlluminations, numDigitsTiles, numDigitsTimepoints, replaceAngles, replaceChannels, replaceIlluminations, replaceTiles, replaceTimepoints, showDebugFileNames, TILE_PATTERN, tileNameList, tiles, TIMEPOINT_PATTERN, timepointNameList, timepoints

Constructor Summary

Constructors

Constructor	Description
StackListImageJ()

Method Summary

Modifier and Type	Method	Description
protected boolean	canLoadTileLocationFromMeta()
protected StackImgLoader	createAndInitImgLoader(String path, File basePath, mpicbg.spim.data.sequence.SequenceDescription sequenceDescription)
protected int	getDefaultMultipleAngles()
protected int	getDefaultMultipleChannels()
protected int	getDefaultMultipleIlluminations()
protected int	getDefaultMultipleTiles()
protected int	getDefaultMultipleTimepoints()
String	getExtendedDescription()	An explanation for the user what exactly this MultiViewDatasetDefinition supports and how it needs to be stored.
String	getTitle()	Defines the title under which it will be displayed in the list of available multi-view dataset definitions
protected StackList.Calibration	loadCalibration(File file)
protected double[]	loadTileLocationFromMetaData(File file, int seriesOffset)
StackListImageJ	newInstance()
protected void	setDefaultMultipleAngles(int a)
protected void	setDefaultMultipleChannels(int c)
protected void	setDefaultMultipleIlluminations(int i)
protected void	setDefaultMultipleTiles(int ti)
protected void	setDefaultMultipleTimepoints(int t)
protected boolean	supportsMultipleAnglesPerFile()
protected boolean	supportsMultipleChannelsPerFile()
protected boolean	supportsMultipleIlluminationsPerFile()
protected boolean	supportsMultipleTilesPerFile()
protected boolean	supportsMultipleTimepointsPerFile()

Methods inherited from class net.preibisch.mvrecon.fiji.datasetmanager.StackList

assembleDefaultPattern, convertIntegerList, createDataset, createMissingViews, createTimePoints, createViewSetups, debugShowFiles, getFileNameFor, getFileNamesFor, leadingZeros, loadAllCalibrations, loadAllTileLocations, loadFirstCalibration, queryDetails, queryGeneralInformation, queryInformation, queryNames

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.preibisch.mvrecon.fiji.datasetmanager.MultiViewDatasetDefinition

supportsRemoteXMLLocation

Field Details

defaultAngleChoice

public static int defaultAngleChoice

defaultTimePointChoice

public static int defaultTimePointChoice

defaultChannelleChoice

public static int defaultChannelleChoice

defaultIlluminationChoice

public static int defaultIlluminationChoice

defaultTileChoice

public static int defaultTileChoice

Constructor Details

StackListImageJ

public StackListImageJ()

Method Details

getTitle

public String getTitle()

Description copied from interface: MultiViewDatasetDefinition

Defines the title under which it will be displayed in the list of available multi-view dataset definitions

Returns:

the title

getExtendedDescription

public String getExtendedDescription()

Description copied from interface: MultiViewDatasetDefinition

An explanation for the user what exactly this MultiViewDatasetDefinition supports and how it needs to be stored. Up to 15 lines will be displayed with 80 characters each. No newline characters are allowed.

Returns:

description

loadCalibration

protected StackList.Calibration loadCalibration(File file)

Specified by:

loadCalibration in class StackList

loadTileLocationFromMetaData

protected double[] loadTileLocationFromMetaData(File file,
 int seriesOffset)

Specified by:

loadTileLocationFromMetaData in class StackList

createAndInitImgLoader

protected StackImgLoader createAndInitImgLoader(String path,
 File basePath,
 mpicbg.spim.data.sequence.SequenceDescription sequenceDescription)

Specified by:

createAndInitImgLoader in class StackList

canLoadTileLocationFromMeta

protected boolean canLoadTileLocationFromMeta()

Specified by:

canLoadTileLocationFromMeta in class StackList

supportsMultipleTimepointsPerFile

protected boolean supportsMultipleTimepointsPerFile()

Specified by:

supportsMultipleTimepointsPerFile in class StackList

supportsMultipleChannelsPerFile

protected boolean supportsMultipleChannelsPerFile()

Specified by:

supportsMultipleChannelsPerFile in class StackList

supportsMultipleAnglesPerFile

protected boolean supportsMultipleAnglesPerFile()

Specified by:

supportsMultipleAnglesPerFile in class StackList

supportsMultipleIlluminationsPerFile

protected boolean supportsMultipleIlluminationsPerFile()

Specified by:

supportsMultipleIlluminationsPerFile in class StackList

supportsMultipleTilesPerFile

protected boolean supportsMultipleTilesPerFile()

Specified by:

supportsMultipleTilesPerFile in class StackList

getDefaultMultipleAngles

protected int getDefaultMultipleAngles()

Specified by:

getDefaultMultipleAngles in class StackList

getDefaultMultipleTimepoints

protected int getDefaultMultipleTimepoints()

Specified by:

getDefaultMultipleTimepoints in class StackList

getDefaultMultipleChannels

protected int getDefaultMultipleChannels()

Specified by:

getDefaultMultipleChannels in class StackList

getDefaultMultipleIlluminations

protected int getDefaultMultipleIlluminations()

Specified by:

getDefaultMultipleIlluminations in class StackList

getDefaultMultipleTiles

protected int getDefaultMultipleTiles()

Specified by:

getDefaultMultipleTiles in class StackList

setDefaultMultipleAngles

protected void setDefaultMultipleAngles(int a)

Specified by:

setDefaultMultipleAngles in class StackList

setDefaultMultipleTimepoints

protected void setDefaultMultipleTimepoints(int t)

Specified by:

setDefaultMultipleTimepoints in class StackList

setDefaultMultipleChannels

protected void setDefaultMultipleChannels(int c)

Specified by:

setDefaultMultipleChannels in class StackList

setDefaultMultipleIlluminations

protected void setDefaultMultipleIlluminations(int i)

Specified by:

setDefaultMultipleIlluminations in class StackList

setDefaultMultipleTiles

protected void setDefaultMultipleTiles(int ti)

Specified by:

setDefaultMultipleTiles in class StackList

newInstance

public StackListImageJ newInstance()

Returns:

- a new instance of this implementation