Package net.preibisch.mvrecon.fiji.datasetmanager

Class SmartSPIM

java.lang.Object

net.preibisch.mvrecon.fiji.datasetmanager.SmartSPIM

All Implemented Interfaces:

MultiViewDatasetDefinition

public class SmartSPIM
extends Object
implements MultiViewDatasetDefinition

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	SmartSPIM.SmartSPIMMetaData

Field Summary

Fields

Modifier and Type	Field	Description
static boolean	defaultConfirmFiles
static String	defaultMetadataFile

Constructor Summary

Constructors

Constructor	Description
SmartSPIM()

Method Summary

Modifier and Type	Method	Description
static boolean	areListsEqual(List<String> array1, List<String> array2)
SpimData2	createDataset(String xmlFileName)	This method is supposed to (interactively, ideally ImageJ-macroscriptable) query all necessary data from the user to build up a SpimData object and save it as an XML file.
protected mpicbg.spim.data.sequence.TimePoints	createTimePoints(SmartSPIM.SmartSPIMMetaData meta)
protected ArrayList<mpicbg.spim.data.sequence.ViewSetup>	createViewSetups(SmartSPIM.SmartSPIMMetaData meta, double scaleFactor)
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
static void	main(String[] args)
MultiViewDatasetDefinition	newInstance()
static SmartSPIM.SmartSPIMMetaData	parseMetaDataFile(URI md)
static boolean	populateImageSize(SmartSPIM.SmartSPIMMetaData metadata, boolean confirmAllImages)
protected net.imglib2.util.Pair<URI,Boolean>	queryMetaDataFile()

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

defaultMetadataFile

public static String defaultMetadataFile

defaultConfirmFiles

public static boolean defaultConfirmFiles

Constructor Details

SmartSPIM

public SmartSPIM()

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

Specified by:

getTitle in interface MultiViewDatasetDefinition

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.

Specified by:

getExtendedDescription in interface MultiViewDatasetDefinition

Returns:

description

createDataset

public SpimData2 createDataset(String xmlFileName)

Description copied from interface: MultiViewDatasetDefinition

This method is supposed to (interactively, ideally ImageJ-macroscriptable) query all necessary data from the user to build up a SpimData object and save it as an XML file.

Specified by:

createDataset in interface MultiViewDatasetDefinition

Parameters:

xmlFileName - - the filename of the XML that was selected (no path!)

Returns:

- the saved SpimData2 object

createTimePoints

protected mpicbg.spim.data.sequence.TimePoints createTimePoints(SmartSPIM.SmartSPIMMetaData meta)

createViewSetups

protected ArrayList<mpicbg.spim.data.sequence.ViewSetup> createViewSetups(SmartSPIM.SmartSPIMMetaData meta,
 double scaleFactor)

populateImageSize

public static boolean populateImageSize(SmartSPIM.SmartSPIMMetaData metadata,
 boolean confirmAllImages)

parseMetaDataFile

public static SmartSPIM.SmartSPIMMetaData parseMetaDataFile(URI md)

queryMetaDataFile

protected net.imglib2.util.Pair<URI,Boolean> queryMetaDataFile()

newInstance

public MultiViewDatasetDefinition newInstance()

Specified by:

newInstance in interface MultiViewDatasetDefinition

Returns:

- a new instance of this implementation

areListsEqual

public static boolean areListsEqual(List<String> array1,
 List<String> array2)

main

public static void main(String[] args)