Java Code Examples for mpicbg.imglib.image.display.imagej.ImageJFunctions#copyToImagePlus()

/**
 * 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();			
	}
}
 

/**
 * 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();
}
 

public ImagePlus getFusedImageCopy() { return ImageJFunctions.copyToImagePlus( getFusedImage() ); }