import bdv.viewer.Source; //导入依赖的package包/类
/**
 * try to unwrap source to get the view setup id of wrapped and transformed SpimData view
 * @param source - BigDataViewer source
 * @return - view setup id if we can unwrap, null else
 */
public static Integer getViewSetupIdFromBDVSource(Source<?> source)
{
	if (TransformedSource.class.isInstance( source ))
	{
		Source< ? > wrappedSource = ((TransformedSource< ? >) source).getWrappedSource();
		if (SpimSource.class.isInstance( wrappedSource ))
		{
			return ( (SpimSource<?> ) wrappedSource).getSetupId();
		}
		else
			return null;
	}
	else
		return null;
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@Override
public AccumulateProjectorCompositeARGB createAccumulateProjector(
		ArrayList< VolatileProjector > sourceProjectors,
		ArrayList< Source< ? > > sources,
		ArrayList< ? extends RandomAccessible< ? extends ARGBType > > sourceScreenImages,
		RandomAccessibleInterval< ARGBType > targetScreenImage,
		int numThreads,
		ExecutorService executorService )
{
	return new AccumulateProjectorCompositeARGB(
			sourceProjectors,
			sourceScreenImages,
			targetScreenImage,
			numThreads,
			executorService );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@Override
public VolatileProjector createAccumulateProjector(
		final ArrayList< VolatileProjector > sourceProjectors,
		final ArrayList< Source< ? > > sources,
		final ArrayList< ? extends RandomAccessible< ? extends A > > sourceScreenImages,
		final RandomAccessibleInterval< A > targetScreenImage,
		final int numThreads,
		final ExecutorService executorService )
{
	final CompositeProjector< A > projector = new CompositeProjector< A >(
			sourceProjectors,
			sourceScreenImages,
			targetScreenImage,
			numThreads,
			executorService );

	final ArrayList< Composite< A, A > > activeComposites = new ArrayList< Composite< A, A > >();
	for ( final Source< ? > activeSource : sources )
		activeComposites.add( composites.get( activeSource ) );

	projector.setComposites( activeComposites );

	return projector;
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@Override
public VolatileProjector createAccumulateProjector(
		ArrayList< VolatileProjector > sourceProjectors,
		ArrayList< Source< ? > > sources,
		ArrayList< ? extends RandomAccessible< ? extends ARGBType > > sourceScreenImages,
		RandomAccessibleInterval< ARGBType > targetScreenImage,
		int numThreads,
		ExecutorService executorService)
{
	return new MaximumProjectorARGB( sourceProjectors, sourceScreenImages, targetScreenImage, numThreads, executorService );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@Override
public VolatileProjector createAccumulateProjector(ArrayList< VolatileProjector > sourceProjectors,
		ArrayList< Source< ? > > sources,
		ArrayList< ? extends RandomAccessible< ? extends ARGBType > > sourceScreenImages,
		RandomAccessibleInterval< ARGBType > targetScreenImage, int numThreads, ExecutorService executorService)
{
	return new AveragingProjectorARGB( sourceProjectors, sourceScreenImages, targetScreenImage, numThreads, executorService );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
public WarpedSource( final Source< T > source, final String name )
{
	this.source = source;
	this.name = name;
	this.isTransformed = false;
	
	this.xfm = null;

	sourceMipmapOrdering = MipmapOrdering.class.isInstance( source ) ?
			( MipmapOrdering ) source : new DefaultMipmapOrdering( source );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
private ArrayList< TransformedSource< ? > > getTransformedSources()
{
	final ArrayList< TransformedSource< ? > > list = new ArrayList< TransformedSource< ? > >();
	for ( final SourceState< ? > sourceState : state.getSources() )
	{
		final Source< ? > source = sourceState.getSpimSource();
		if ( TransformedSource.class.isInstance( source ) )
			list.add( ( TransformedSource< ? > ) source );
	}
	return list;
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@SuppressWarnings( "rawtypes" )
public static final Img< ? > getSliceAround( final Spot spot, final int width, final int height, final Source source )
{
	final int frame = spot.getFeature( Spot.FRAME ).intValue();
	// Get spot coords
	final AffineTransform3D sourceToGlobal = new AffineTransform3D();
	source.getSourceTransform( frame, 0, sourceToGlobal );
	final Point roundedSourcePos = new Point( 3 );
	sourceToGlobal.applyInverse( new Round< Point >( roundedSourcePos ), spot );
	final long x = roundedSourcePos.getLongPosition( 0 );
	final long y = roundedSourcePos.getLongPosition( 1 );
	final long z = roundedSourcePos.getLongPosition( 2 );
	// Grab patch
	return getImgPatch( new long[] { x, y, z }, frame, width, height, source );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@SuppressWarnings( "rawtypes" )
public static final Img< ? > getStackAround( final Spot spot, final int width, final int height, final int depth, final Source source )
{
	final int frame = spot.getFeature( Spot.FRAME ).intValue();
	// Get spot coords
	final AffineTransform3D sourceToGlobal = new AffineTransform3D();
	source.getSourceTransform( frame, 0, sourceToGlobal );
	final Point roundedSourcePos = new Point( 3 );
	sourceToGlobal.applyInverse( new Round< Point >( roundedSourcePos ), spot );
	final long x = roundedSourcePos.getLongPosition( 0 );
	final long y = roundedSourcePos.getLongPosition( 1 );
	final long z = roundedSourcePos.getLongPosition( 2 );
	return getImgPatch( new long[] { x, y, z }, frame, width, height, depth, source );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@Override
public TrackMateModelView create( final Model model, final Settings settings, final SelectionModel selectionModel )
{
	final SourceSettings ss = ( SourceSettings ) settings;
	final List< SourceAndConverter< ? >> sources = ss.getSources();
	final int numTimePoints = ss.nframes;
	final CacheControl cache = ss.getCacheControl();
	final Bookmarks bookmarks = new Bookmarks();
	// Test if we have 2D images.
	boolean is2D = true;
	for ( final SourceAndConverter< ? > sac : sources )
	{
		final Source< ? > source = sac.getSpimSource();
		for ( int t = 0; t < numTimePoints; t++ )
		{
			if ( source.isPresent( t ) )
			{
				final RandomAccessibleInterval< ? > level = source.getSource( t, 0 );
				if ( level.dimension( 2 ) > 1 )
					is2D = false;

				break;
			}
		}
	}

	final ViewerOptions options = ViewerOptions.options();
	if ( is2D )
		options.transformEventHandlerFactory( BehaviourTransformEventHandlerPlanar.factory() );

	return new MamutViewer( DEFAULT_WIDTH, DEFAULT_HEIGHT,
			sources, numTimePoints, cache,
			model, selectionModel,
			options,
			bookmarks );
}
 

import bdv.viewer.Source; //导入依赖的package包/类
public Source nonVolatile()
{
	return this;
}
 

import bdv.viewer.Source; //导入依赖的package包/类
public RenamableSource( Source<T> src )
{
	this.src = src;
	this.name = src.getName();
}
 

import bdv.viewer.Source; //导入依赖的package包/类
@SuppressWarnings( { "rawtypes", "unchecked" } )
public static final Img< ? > getImgPatch( final long[] pos, final int frame, final int width, final int height, final int depth, final Source source )
{
	/*
	 * Here be generics massacre...
	 */

	final Type type = ( Type ) source.getType();
	final RealType rtype = ( RealType ) type.createVariable();
	rtype.setZero();
	final NativeType ntype = ( NativeType ) rtype;
	final long[] size = new long[] { width, height, depth };

	final RandomAccessibleInterval img = source.getSource( frame, 0 );

	// Get coords
	final long x = pos[ 0 ];
	final long y = pos[ 1 ];
	final long z = pos[ 2 ];

	final int xp = width / 2;
	final int xm = width - xp;
	final int yp = height / 2;
	final int ym = height - yp;
	final int zp = depth / 2;
	final int zm = depth - zp;


	// Crop
	final Interval cropInterval = Intervals.createMinMax( x - xm, y - ym, z - zm, x + xp, y + yp, z + zp );

	if ( isEmpty( cropInterval ) )
	{
		final Img ret = new ArrayImgFactory().create( size, ntype );
		return ret;
	}
	else
	{
		final ExtendedRandomAccessibleInterval extendZero = Views.extendZero( img );
		final IntervalView crop = Views.zeroMin( Views.interval( extendZero, cropInterval ) );
		final Img target = Util.getArrayOrCellImgFactory( crop, ntype ).create( size, ntype );

		final RandomAccess randomAccess = crop.randomAccess();
		final Cursor cursor = target.localizingCursor();
		while ( cursor.hasNext() )
		{
			cursor.fwd();
			randomAccess.setPosition( cursor );
			( ( Type ) cursor.get() ).set( ( Type ) randomAccess.get() );
		}

		return target;
	}
}
 

import bdv.viewer.Source; //导入依赖的package包/类
/**
 * Constructor with a map that associates sources and {@link Composite Composites}.
 *
 * @param composites
 */
public CompositeProjectorFactory( final Map< Source< ? extends A >, Composite< A, A > > composites )
{
	this.composites = composites;
}