bdv.util

Class RandomAccessibleIntervalSource<T extends net.imglib2.type.numeric.NumericType<T>>

java.lang.Object

bdv.util.AbstractSource<T>

bdv.util.RandomAccessibleIntervalSource<T>

All Implemented Interfaces:

Source<T>

public class RandomAccessibleIntervalSource<T extends net.imglib2.type.numeric.NumericType<T>>
extends AbstractSource<T>

Field Summary

Fields inherited from class bdv.util.AbstractSource

interpolators, name, type, voxelDimensions

Constructor Summary

Constructors

Constructor and Description
RandomAccessibleIntervalSource(net.imglib2.RandomAccessibleInterval<T> img, T type, net.imglib2.realtransform.AffineTransform3D sourceTransform, String name)
RandomAccessibleIntervalSource(net.imglib2.RandomAccessibleInterval<T> img, T type, net.imglib2.realtransform.AffineTransform3D sourceTransform, String name, boolean doBoundingBoxCulling)
RandomAccessibleIntervalSource(net.imglib2.RandomAccessibleInterval<T> img, T type, String name)

Method Summary

Modifier and Type	Method and Description
net.imglib2.RealRandomAccessible<T>	getInterpolatedSource(int t, int level, Interpolation method) Get the 3D stack at timepoint index t, extended to infinity and interpolated.
net.imglib2.RandomAccessibleInterval<T>	getSource(int t, int level) Get the 3D stack at timepoint index t.
void	getSourceTransform(int t, int level, net.imglib2.realtransform.AffineTransform3D transform) Get the transform from the source at the given timepoint index and mipmap level into the global coordinate system.

Methods inherited from class bdv.util.AbstractSource

doBoundingBoxCulling, getInterpolatedMaskedSource, getMaskedSource, getName, getNumMipmapLevels, getType, getVoxelDimensions, isPresent

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

RandomAccessibleIntervalSource

public RandomAccessibleIntervalSource(net.imglib2.RandomAccessibleInterval<T> img,
                                      T type,
                                      String name)

RandomAccessibleIntervalSource

public RandomAccessibleIntervalSource(net.imglib2.RandomAccessibleInterval<T> img,
                                      T type,
                                      net.imglib2.realtransform.AffineTransform3D sourceTransform,
                                      String name)

RandomAccessibleIntervalSource

public RandomAccessibleIntervalSource(net.imglib2.RandomAccessibleInterval<T> img,
                                      T type,
                                      net.imglib2.realtransform.AffineTransform3D sourceTransform,
                                      String name,
                                      boolean doBoundingBoxCulling)

Method Detail

getSource

public net.imglib2.RandomAccessibleInterval<T> getSource(int t,
                                                         int level)

Description copied from interface: Source

Get the 3D stack at timepoint index t.

Parameters:

t - timepoint index

level - mipmap level

Returns:

the stack.

getInterpolatedSource

public net.imglib2.RealRandomAccessible<T> getInterpolatedSource(int t,
                                                                 int level,
                                                                 Interpolation method)

Description copied from interface: Source

Get the 3D stack at timepoint index t, extended to infinity and interpolated.

Specified by:

getInterpolatedSource in interface Source<T extends net.imglib2.type.numeric.NumericType<T>>

Overrides:

getInterpolatedSource in class AbstractSource<T extends net.imglib2.type.numeric.NumericType<T>>

Parameters:

t - timepoint index

level - mipmap level

method - interpolation method to use

Returns:

the extended and interpolated stack.

getSourceTransform

public void getSourceTransform(int t,
                               int level,
                               net.imglib2.realtransform.AffineTransform3D transform)

Description copied from interface: Source

Get the transform from the source at the given timepoint index and mipmap level into the global coordinate system.

Parameters:

t - timepoint index

level - mipmap level

transform - is set to the source-to-global transform, that transforms source coordinates into the global coordinates