StackListImageJ (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- spim.fiji.datasetmanager.StackList
- - spim.fiji.datasetmanager.StackListImageJ

All Implemented Interfaces:

MultiViewDatasetDefinition
```
public class StackListImageJ
extends StackList
```

Nested Class Summary
- Nested classes/interfaces inherited from class spim.fiji.datasetmanager.StackList
  StackList.Calibration, StackList.ViewSetupPrecursor

Field Summary

Fields
Modifier and Type	Field and Description
`static int`	`defaultAngleChoice`
`static int`	`defaultChannelleChoice`
`static int`	`defaultIlluminationChoice`
`static int`	`defaultTimePointChoice`

Fields inherited from class spim.fiji.datasetmanager.StackList
ANGLE_PATTERN, angleNameList, angles, calibration1, calibration2, calibrationChoice1, calibrationChoice2, calibrations, CHANNEL_PATTERN, channelNameList, channels, defaultAngles, defaultCalibration1, defaultCalibration2, defaultChannels, defaultContainer, defaultDirectory, defaultFileNamePattern, defaultIlluminations, defaultTimepoints, dimensionChoiceAnglesFalse, dimensionChoiceAnglesTrue, dimensionChoiceChannelsFalse, dimensionChoiceChannelsTrue, dimensionChoiceIlluminationsFalse, dimensionChoiceIlluminationsTrue, dimensionChoiceTimePointsFalse, dimensionChoiceTimePointsTrue, directory, exceptionIds, fileNamePattern, hasMultipleAngles, hasMultipleChannels, hasMultipleIlluminations, hasMultipleTimePoints, ILLUMINATION_PATTERN, illuminations, illuminationsNameList, imgFactory, imglib2Container, numDigitsAngles, numDigitsChannels, numDigitsIlluminations, numDigitsTimepoints, replaceAngles, replaceChannels, replaceIlluminations, replaceTimepoints, showDebugFileNames, TIMEPOINT_PATTERN, timepointNameList, timepoints

Constructor Summary

Constructors
Constructor and Description

StackListImageJ()

Constructors
Constructor and Description
`StackListImageJ()`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`protected StackImgLoader`	`createAndInitImgLoader(String path, File basePath, ImgFactory<? extends NativeType<?>> imgFactory, SequenceDescription sequenceDescription)` Instantiate the `ImgLoader`
`protected int`	`getDefaultMultipleAngles()`
`protected int`	`getDefaultMultipleChannels()`
`protected int`	`getDefaultMultipleIlluminations()`
`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)` Loads the calibration stored in a specific file and closes it afterwards.
`StackListImageJ`	`newInstance()`
`protected void`	`setDefaultMultipleAngles(int a)`
`protected void`	`setDefaultMultipleChannels(int c)`
`protected void`	`setDefaultMultipleIlluminations(int i)`
`protected void`	`setDefaultMultipleTimepoints(int t)`
`protected boolean`	`supportsMultipleAnglesPerFile()`
`protected boolean`	`supportsMultipleChannelsPerFile()`
`protected boolean`	`supportsMultipleIlluminationsPerFile()`
`protected boolean`	`supportsMultipleTimepointsPerFile()`

Methods inherited from class spim.fiji.datasetmanager.StackList
assembleDefaultPattern, convertIntegerList, createDataset, createMissingViews, createTimePoints, createViewRegistrations, createViewSetups, debugShowFiles, getFileNameFor, getFileNamesFor, leadingZeros, loadAllCalibrations, loadFirstCalibration, queryDetails, queryGeneralInformation, queryInformation, queryNames

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - defaultAngleChoice
```
public static int defaultAngleChoice
```
  - defaultTimePointChoice
```
public static int defaultTimePointChoice
```
  - defaultChannelleChoice
```
public static int defaultChannelleChoice
```
  - defaultIlluminationChoice
```
public static int defaultIlluminationChoice
```
- Constructor Detail
  - StackListImageJ
```
public StackListImageJ()
```
- Method Detail
  - 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:
  - 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)
```
    Description copied from class: StackList
    
    Loads the calibration stored in a specific file and closes it afterwards. Depends on the type of opener that is used.
    
    Specified by:
    
    loadCalibration in class StackList
    
    Returns:
    
    - the Calibration or null if it could not be loaded for some reason
  - createAndInitImgLoader
```
protected StackImgLoader createAndInitImgLoader(String path,
                                                File basePath,
                                                ImgFactory<? extends NativeType<?>> imgFactory,
                                                SequenceDescription sequenceDescription)
```
    Description copied from class: StackList
    
    Instantiate the ImgLoader
    
    Specified by:
    
    createAndInitImgLoader in class StackList
    
    Parameters:
    
    path - - The path relative to the basepath
    
    basePath - - The base path, where XML will be and the image stack are
    
    Returns:
  - 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
  - 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
  - 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
  - newInstance
```
public StackListImageJ newInstance()
```
    Returns:
    
    - a new instance of this implementation

Class StackListImageJ

Nested Class Summary

Nested classes/interfaces inherited from class spim.fiji.datasetmanager.StackList

Field Summary

Fields inherited from class spim.fiji.datasetmanager.StackList

Constructor Summary

Method Summary

Methods inherited from class spim.fiji.datasetmanager.StackList

Methods inherited from class java.lang.Object

Field Detail

defaultAngleChoice

defaultTimePointChoice

defaultChannelleChoice

defaultIlluminationChoice

Constructor Detail

StackListImageJ

Method Detail

getTitle

getExtendedDescription

loadCalibration

createAndInitImgLoader

supportsMultipleTimepointsPerFile

supportsMultipleChannelsPerFile

supportsMultipleAnglesPerFile

supportsMultipleIlluminationsPerFile

getDefaultMultipleAngles

getDefaultMultipleTimepoints

getDefaultMultipleChannels

getDefaultMultipleIlluminations

setDefaultMultipleAngles

setDefaultMultipleTimepoints

setDefaultMultipleChannels

setDefaultMultipleIlluminations

newInstance