Java GenericDialogPlus.getNextString方法代码示例

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
protected File queryCZIFile()
{
	GenericDialogPlus gd = new GenericDialogPlus( "Define Lightsheet Z.1 Dataset" );

	gd.addFileField( "First_CZI file of the dataset", defaultFirstFile, 50 );

	gd.showDialog();

	if ( gd.wasCanceled() )
		return null;

	final File firstFile = new File( defaultFirstFile = gd.getNextString() );

	if ( !firstFile.exists() )
	{
		IOFunctions.println( "File '" + firstFile.getAbsolutePath() + "' does not exist. Stopping" );
		return null;
	}
	else
	{
		IOFunctions.println( "Investigating file '" + firstFile.getAbsolutePath() + "'." );
		return firstFile;
	}
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
protected File querySLDFile() {
    GenericDialogPlus gd = new GenericDialogPlus("Define SlideBook6 diSPIM Dataset");

    gd.addFileField("SlideBook6 SLD file", defaultFilePath, 50);
    gd.showDialog();

    if (gd.wasCanceled())
        return null;

    final File firstFile = new File(defaultFilePath = gd.getNextString());
    if (!firstFile.exists()) {
        IOFunctions.println("File '" + firstFile.getAbsolutePath() + "' does not exist. Stopping");
        return null;
    } else {
        IOFunctions.println("Investigating file '" + firstFile.getAbsolutePath() + "'.");
        return firstFile;
    }
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
protected File queryMMFile()
{
	GenericDialogPlus gd = new GenericDialogPlus( "Define MicroMananger diSPIM Dataset" );

	gd.addFileField( "MicroManager OME TIFF file", defaultFirstFile, 50 );

	gd.showDialog();

	if ( gd.wasCanceled() )
		return null;

	final File firstFile = new File( defaultFirstFile = gd.getNextString() );

	if ( !firstFile.exists() )
	{
		IOFunctions.println( "File '" + firstFile.getAbsolutePath() + "' does not exist. Stopping" );
		return null;
	}
	else
	{
		IOFunctions.println( "Investigating file '" + firstFile.getAbsolutePath() + "'." );
		return firstFile;
	}
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
public static Parameters getParameters()
{
	final GenericDialogPlus gd = new GenericDialogPlus( "Resave dataset as TIFF" );

	if ( defaultPath == null )
		defaultPath = LoadParseQueryXML.defaultXMLfilename;

	PluginHelper.addSaveAsFileField( gd, "Select new XML", defaultPath, 80 );
	
	gd.addChoice( "ImgLib2_data_container", StackList.imglib2Container, StackList.imglib2Container[ defaultContainer ] );
	gd.addCheckbox( "Lossless compression of TIFF files (ZIP)", defaultCompress );
	gd.addMessage( "Use ArrayImg if -ALL- input views are smaller than ~2048x2048x500 px (2^31 px), or if the\n" +
				   "program throws an OutOfMemory exception while processing.  CellImg is slower, but more\n" +
			       "memory efficient and supports much larger file sizes only limited by the RAM of the machine.", 
			       new Font( Font.SANS_SERIF, Font.ITALIC, 11 ) );

	gd.showDialog();
	
	if ( gd.wasCanceled() )
		return null;

	final Parameters params = new Parameters();
	
	params.xmlFile = gd.getNextString();
	
	if ( !params.xmlFile.endsWith( ".xml" ) )
		params.xmlFile += ".xml";

	params.compress = defaultCompress = gd.getNextBoolean();

	defaultPath = LoadParseQueryXML.defaultXMLfilename = params.xmlFile;

	if ( ( defaultContainer = gd.getNextChoiceIndex() ) == 0 )
		params.imgFactory = new ArrayImgFactory< FloatType >();
	else
		params.imgFactory = new CellImgFactory< FloatType >();

	return params;
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
protected DHMMetaData queryDirectoryAndRatio()
{
	GenericDialogPlus gd = new GenericDialogPlus( "Specify Holographic Acquistion Directory" );

	gd.addDirectoryField( "Holographic_Acquisition main directory", defaultDir, 50 );

	gd.addMessage( "" );
	gd.addMessage( "Camera pixel size (e.g. 3.45um) / Magnification (e.g. 20):" );
	gd.addNumericField( "Pixel_distance_x", defaulCalX, 5 );
	gd.addNumericField( "Pixel_distance_y", defaulCalY, 5 );
	gd.addMessage( "Depth between planes (e.g. 0.5mm) / Magnification^2 (e.g. 20^2) * 1000 (mm to um):" );
	gd.addNumericField( "Pixel_distance_z", defaulCalZ, 5 );
	gd.addStringField( "Pixel_unit", defaulCalUnit );
	gd.addMessage( "" );
	gd.addCheckbox( "Open_all planes to ensure they have the same dimensions (takes time!)", defaultOpenAll );
	gd.showDialog();

	if ( gd.wasCanceled() )
		return null;

	return new DHMMetaData(
			new File( defaultDir = gd.getNextString() ),
			defaulCalX = gd.getNextNumber(),
			defaulCalY = gd.getNextNumber(),
			defaulCalZ = gd.getNextNumber(),
			defaulCalUnit = gd.getNextString(),
			defaultOpenAll = gd.getNextBoolean() );
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
@Override
public void run(String arg0)
{
	GenericDialogPlus gd = new GenericDialogPlus("Stitch Image Collection");
	
	//gd.addStringField("Layout file", fileNameStatic, 50);
	gd.addFileField("Layout file", fileNameStatic, 50);		
	gd.addCheckbox("compute_overlap (otherwise use the coordinates given in the layout file)", computeOverlapStatic );
	gd.addChoice("Channels_for_Registration", colorList, handleRGBStatic);
	gd.addChoice("rgb_order", rgbTypes, rgbOrderStatic);
	gd.addChoice("Fusion_Method", methodListCollection, methodListCollection[LIN_BLEND]);
	gd.addNumericField("Fusion alpha", alphaStatic, 2);
	gd.addNumericField("Regression Threshold", thresholdRStatic, 2);
	gd.addNumericField("Max/Avg Displacement Threshold", thresholdDisplacementRelativeStatic, 2);		
	gd.addNumericField("Absolute Avg Displacement Threshold", thresholdDisplacementAbsoluteStatic, 2);		
	gd.addCheckbox("Create_only_Preview", previewOnlyStatic);
	gd.addMessage("");
	gd.addMessage("This Plugin is developed by Stephan Preibisch\n" + myURL);

	MultiLineLabel text = (MultiLineLabel) gd.getMessage();
	addHyperLinkListener(text, myURL);

	gd.showDialog();
	if (gd.wasCanceled()) return;

	String fileName = gd.getNextString();
	fileNameStatic = fileName;

	boolean computeOverlap = gd.getNextBoolean();
	computeOverlapStatic = computeOverlap;

	String handleRGB = gd.getNextChoice();
	handleRGBStatic = handleRGB;
	
	this.rgbOrder = gd.getNextChoice();
	rgbOrderStatic = rgbOrder;
	
	String fusionMethod = gd.getNextChoice();
	fusionMethodStatic = fusionMethod;
	
	this.alpha = gd.getNextNumber();
	alphaStatic = alpha;
	
	this.thresholdR = gd.getNextNumber();
	thresholdRStatic = thresholdR;
	
	this.thresholdDisplacementRelative = gd.getNextNumber();
	thresholdDisplacementRelativeStatic = thresholdDisplacementRelative;
	
	this.thresholdDisplacementAbsolute = gd.getNextNumber();
	thresholdDisplacementAbsoluteStatic = thresholdDisplacementAbsolute;
	
	boolean previewOnly = gd.getNextBoolean();
	previewOnlyStatic = previewOnly;
	
	work(fileName, previewOnly, computeOverlap, fusionMethod, handleRGB, true);		
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
/**
 * Manages the dialog for stitching a collection of images defined by a Tileconfiguration file
 */
public void stitchCollection()
{
	final GenericDialogPlus gd = new GenericDialogPlus("Stitch Image Collection");
	
	//gd.addStringField("Layout file", fileNameStatic, 50);
	gd.addFileField( "Layout file", fileNameStatic, 50 );		
	gd.addCheckbox( "compute_overlap (otherwise use the coordinates given in the layout file)", computeOverlapStatic );
	gd.addChoice( "Channels_for_Registration", colorList, handleRGBStatic );
	gd.addChoice( "rgb_order", rgbTypes, rgbOrderStatic );
	gd.addChoice( "Fusion_Method", methodListCollection, methodListCollection[LIN_BLEND] );
	gd.addNumericField( "Fusion alpha", alphaStatic, 2 );
	gd.addNumericField( "Regression Threshold", thresholdRStatic, 2 );
	gd.addNumericField( "Max/Avg Displacement Threshold", thresholdDisplacementRelativeStatic, 2 );		
	gd.addNumericField( "Absolute Avg Displacement Threshold", thresholdDisplacementAbsoluteStatic, 2 );		
	gd.addCheckbox( "Create_only_Preview", previewOnlyStatic );
	gd.addMessage( "");
	gd.addMessage( "This Plugin is developed by Stephan Preibisch\n" + myURL );

	MultiLineLabel text = (MultiLineLabel) gd.getMessage();
	addHyperLinkListener(text, myURL);

	gd.showDialog();
	if (gd.wasCanceled()) return;

	String fileName = gd.getNextString();
	fileNameStatic = fileName;

	boolean computeOverlap = gd.getNextBoolean();
	computeOverlapStatic = computeOverlap;

	String handleRGB = gd.getNextChoice();
	handleRGBStatic = handleRGB;
	
	String rgbOrder = gd.getNextChoice();
	rgbOrderStatic = rgbOrder;
	
	String fusionMethod = gd.getNextChoice();
	fusionMethodStatic = fusionMethod;
	
	double alpha = gd.getNextNumber();
	alphaStatic = alpha;
	
	double thresholdR = gd.getNextNumber();
	thresholdRStatic = thresholdR;
	
	double thresholdDisplacementRelative = gd.getNextNumber();
	thresholdDisplacementRelativeStatic = thresholdDisplacementRelative;
	
	double thresholdDisplacementAbsolute = gd.getNextNumber();
	thresholdDisplacementAbsoluteStatic = thresholdDisplacementAbsolute;
	
	boolean previewOnly = gd.getNextBoolean();
	previewOnlyStatic = previewOnly;	
	
	runStitching();
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
protected Parameters getParameters( final String sourcePathStr )
{
	while ( true )
	{
		final GenericDialogPlus gd = new GenericDialogPlus( "CellVoyager Import" );

		gd.addStringField( "Subsampling factors", lastSubsampling, 25 );
		gd.addStringField( "Hdf5 chunk sizes", lastChunkSizes, 25 );
		gd.addMessage( "" );

		if ( null == sourcePathStr )
		{
			if ( null == sourceFolderStr )
			{
				final File folder = new File( System.getProperty( "user.dir" ) ).getParentFile().getParentFile();
				sourceFolderStr = folder.getAbsolutePath();
			}
		}
		else
		{
			sourceFolderStr = sourcePathStr;
		}
		addBrowseToCellVoyagerFolder( gd, "Measurement folder", sourceFolderStr, 25 );

		if ( null == lastExportPath )
		{
			final File sourceFile = new File( sourceFolderStr );
			final String parentFolder = sourceFile.getParent();
			lastExportPath = new File( parentFolder, "export.xml" ).getAbsolutePath();
		}
		PluginHelper.addSaveAsFileField( gd, "Export to", lastExportPath, 25 );

		gd.showDialog();
		if ( gd.wasCanceled() )
			return null;

		lastSubsampling = gd.getNextString();
		lastChunkSizes = gd.getNextString();
		sourceFolderStr = gd.getNextString();
		lastExportPath = gd.getNextString();

		// parse mipmap resolutions and cell sizes
		final int[][] resolutions = PluginHelper.parseResolutionsString( lastSubsampling );
		final int[][] subdivisions = PluginHelper.parseResolutionsString( lastChunkSizes );
		if ( resolutions.length == 0 )
		{
			IJ.showMessage( "Cannot parse subsampling factors: " + lastSubsampling );
			continue;
		}
		if ( subdivisions.length == 0 )
		{
			IJ.showMessage( "Cannot parse hdf5 chunk sizes: " + lastChunkSizes );
			continue;
		}
		else if ( resolutions.length != subdivisions.length )
		{
			IJ.showMessage( "Subsampling factors and hdf5 chunk sizes must have the same number of elements." );
			continue;
		}

		final File sourceFolder = new File( sourceFolderStr );

		String seqFilename = lastExportPath;
		if ( !seqFilename.endsWith( ".xml" ) )
			seqFilename += ".xml";
		final File seqFile = new File( seqFilename );
		final File parent = seqFile.getParentFile();
		if ( parent == null || !parent.exists() || !parent.isDirectory() )
		{
			IJ.showMessage( "Invalid export filename " + seqFilename );
			continue;
		}
		final String hdf5Filename = seqFilename.substring( 0, seqFilename.length() - 4 ) + ".h5";
		final File hdf5File = new File( hdf5Filename );

		return new Parameters( resolutions, subdivisions, sourceFolder, seqFile, hdf5File );
	}
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
public Pair< SpimData2, String > defineDataset( final boolean save )
{
	final ArrayList< MultiViewDatasetDefinition > datasetDefinitions = new ArrayList< MultiViewDatasetDefinition >();
	
	for ( final MultiViewDatasetDefinition mvd : staticDatasetDefinitions )
		datasetDefinitions.add( mvd.newInstance() );
	
	// verify that there are definitions
	final int numDatasetDefinitions = datasetDefinitions.size();
	
	if ( numDatasetDefinitions == 0 )
	{
		IJ.log( "No Multi-View Dataset Definitions available." );
		return null;
	}
	
	// get their names
	final String[] titles = new String[ numDatasetDefinitions ];
	
	for ( int i = 0; i < datasetDefinitions.size(); ++i )
		titles[ i ] = datasetDefinitions.get( i ).getTitle();
	
	// query the dataset definition to use
	final GenericDialogPlus gd1 = new GenericDialogPlus( "Select type of multi-view dataset" );

	if ( defaultDatasetDef >= numDatasetDefinitions )
		defaultDatasetDef = 0;
	
	gd1.addChoice( "Type_of_dataset: ", titles, titles[ defaultDatasetDef ] );
	//Choice choice = (Choice)gd1.getChoices().lastElement();
	gd1.addStringField( "XML_filename", defaultXMLName, 30 );
	/*
	final MyMultiLineLabel label = MyMultiLineLabel.addMessage( gd1,
			formatEntry( datasetDefinitions.get( defaultDatasetDef ).getExtendedDescription(), numCharacters, numLinesDocumentation ),
			new Font( Font.MONOSPACED, Font.PLAIN, 11 ),
			Color.BLACK );
					
	addListeners( gd1, choice, label, datasetDefinitions );*/
	
	GUIHelper.addWebsite( gd1 );
	
	gd1.showDialog();
	if ( gd1.wasCanceled() )
		return null;
	
	defaultDatasetDef = gd1.getNextChoiceIndex();
	final String xmlFileName = defaultXMLName = gd1.getNextString();
	
	// run the definition
	final MultiViewDatasetDefinition def = datasetDefinitions.get( defaultDatasetDef );
	
	IOFunctions.println( defaultDatasetDef );
	
	final SpimData2 spimData = def.createDataset();
	
	if ( spimData == null )
	{
		IOFunctions.println( "Defining multi-view dataset failed." );
		return null;
	}
	else
	{
		final String xml = SpimData2.saveXML( spimData, xmlFileName, "" );

		if ( xml != null )
		{
			GenericLoadParseQueryXML.defaultXMLfilename = xml;
			return new ValuePair< SpimData2, String >( spimData, xml );
		}
		else
		{
			return null;
		}
	}
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
/**
 * Can be called with values[ 3 ], i.e. [initialsigma, sigma2, threshold] or
 * values[ 2 ], i.e. [initialsigma, threshold]
 * 
 * The results are stored in the same array.
 * If called with values[ 2 ], sigma2 changing will be disabled
 * 
 * @param text - the text which is shown when asking for the file
 * @param values - the intial values and also contains the result
 */
public static void getInteractiveDoGParameters( final String text, final double values[] )
{
	final GenericDialogPlus gd = new GenericDialogPlus( text );		
	gd.addFileField( "", spimDataDirectory, 50 );		
	gd.showDialog();
	
	if ( gd.wasCanceled() )
		return;
	
	final String file = gd.getNextString();
	
	IOFunctions.println( "Loading " + file );
	final Image<FloatType> img = LOCI.openLOCIFloatType( file, new ArrayContainerFactory() );
	
	if ( img == null )
	{
		IOFunctions.println( "File not found: " + file );
		return;
	}
	
	img.getDisplay().setMinMax();
	final ImagePlus imp = ImageJFunctions.copyToImagePlus( img );
	img.close();
	
	imp.show();		
	imp.setSlice( imp.getStackSize() / 2 );	
	imp.setRoi( 0, 0, imp.getWidth()/3, imp.getHeight()/3 );		
	
	final InteractiveDoG idog = new InteractiveDoG();
	
	if ( values.length == 2 )
	{
		idog.setSigma2isAdjustable( false );
		idog.setInitialSigma( (float)values[ 0 ] );
		idog.setThreshold( (float)values[ 1 ] );
	}
	else
	{
		idog.setInitialSigma( (float)values[ 0 ] );
		idog.setThreshold( (float)values[ 2 ] );			
	}
	
	idog.run( null );
	
	while ( !idog.isFinished() )
		SimpleMultiThreading.threadWait( 100 );
	
	imp.close();
	
	if ( values.length == 2)
	{
		values[ 0 ] = idog.getInitialSigma();
		values[ 1 ] = idog.getThreshold();
	}
	else
	{
		values[ 0 ] = idog.getInitialSigma();
		values[ 1 ] = idog.getSigma2();						
		values[ 2 ] = idog.getThreshold();			
	}
}
 

import fiji.util.gui.GenericDialogPlus; //导入方法依赖的package包/类
/**
 * Can be called with values[ 3 ], i.e. [r1, r2, threshold] (r2 is only written as result)
 * 
 * The results are stored in the same array.
 * 
 * @param text - the text which is shown when asking for the file
 * @param values - the intial values and also contains the result
 */
public static void getInteractiveIntegralParameters( final String text, final double values[] )
{
	final GenericDialogPlus gd = new GenericDialogPlus( text );		
	gd.addFileField( "", spimDataDirectory, 50 );		
	gd.showDialog();
	
	if ( gd.wasCanceled() )
		return;
	
	final String file = gd.getNextString();
	
	IOFunctions.println( "Loading " + file );
	final Image<FloatType> img = LOCI.openLOCIFloatType( file, new ArrayContainerFactory() );
	
	if ( img == null )
	{
		IOFunctions.println( "File not found: " + file );
		return;
	}
	
	img.getDisplay().setMinMax();
	final ImagePlus imp = ImageJFunctions.copyToImagePlus( img );
	img.close();
	
	imp.show();		
	imp.setSlice( imp.getStackSize() / 2 );	
	
	final InteractiveIntegral ii = new InteractiveIntegral();
	
	ii.setInitialRadius( Math.round( (float)values[ 0 ] ) );
	ii.setThreshold( (float)values[ 2 ] );
	
	ii.run( null );
	
	while ( !ii.isFinished() )
		SimpleMultiThreading.threadWait( 100 );
	
	imp.close();
	
	values[ 0 ] = ii.getRadius1();
	values[ 1 ] = ii.getRadius2();
	values[ 2 ] = ii.getThreshold();
}