Package net.imglib2.view

Class TransformView<T>

java.lang.Object

net.imglib2.view.TransformView<T>

All Implemented Interfaces:

EuclideanSpace, RandomAccessible<T>, Typed<T>, View, TransformedRandomAccessible<T>

public class TransformView<T>
extends java.lang.Object
implements TransformedRandomAccessible<T>

Wrap a source RandomAccessible which is related to this by a generic Transform transformToSource.

Field Summary

Fields

Modifier and Type	Field	Description
protected RandomAccessible<T>	fullViewRandomAccessible
protected int	n
protected RandomAccessible<T>	source
protected Transform	transformToSource

Constructor Summary

Constructors

Constructor	Description
TransformView(RandomAccessible<T> source, Transform transformToSource)

Method Summary

Modifier and Type	Method	Description
RandomAccessible<T>	getSource()	Get the source of the TransformedRandomAccessible.
Transform	getTransformToSource()	Get the transformation from view coordinates into source coordinates.
int	numDimensions()	Gets the space's number of dimensions.
RandomAccess<T>	randomAccess()	Create a random access sampler for integer coordinates.
RandomAccess<T>	randomAccess(Interval interval)	Create a random access sampler for integer coordinates.

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.imglib2.RandomAccessible

getAt, getAt, getAt

Methods inherited from interface net.imglib2.view.TransformedRandomAccessible

getType

Field Detail

n

protected final int n

source

protected final RandomAccessible<T> source

transformToSource

protected final Transform transformToSource

fullViewRandomAccessible

protected RandomAccessible<T> fullViewRandomAccessible

Constructor Detail

TransformView

public TransformView(RandomAccessible<T> source,
                     Transform transformToSource)

Method Detail

numDimensions

public int numDimensions()

Description copied from interface: EuclideanSpace

Gets the space's number of dimensions.

Specified by:

numDimensions in interface EuclideanSpace

getSource

public RandomAccessible<T> getSource()

Description copied from interface: TransformedRandomAccessible

Get the source of the TransformedRandomAccessible. This is the next element in the view hierarchy, for example, the next ExtendedRandomAccessibleInterval or the underlying Img.

Specified by:

getSource in interface TransformedRandomAccessible<T>

Returns:

the source RandomAccessible.

getTransformToSource

public Transform getTransformToSource()

Description copied from interface: TransformedRandomAccessible

Get the transformation from view coordinates into source coordinates.

Note that this is the inverse of the ''view transform'' which maps source to view coordinates.

Specified by:

getTransformToSource in interface TransformedRandomAccessible<T>

Returns:

transformation from view coordinates into source coordinates.

randomAccess

public RandomAccess<T> randomAccess(Interval interval)

Description copied from interface: RandomAccessible

Create a random access sampler for integer coordinates.

The returned random access is intended to be used in the specified interval only. Thus, the RandomAccessible may provide optimized versions. If the interval is completely contained in the domain, the random access is guaranteed to provide the same values as that obtained by RandomAccessible.randomAccess() within the interval.

Specified by:

randomAccess in interface RandomAccessible<T>

Parameters:

interval - in which interval you intend to use the random access.

Returns:

random access sampler

randomAccess

public RandomAccess<T> randomAccess()

Description copied from interface: RandomAccessible

Create a random access sampler for integer coordinates.

The returned random access covers as much of the domain as possible.

Please note: RandomAccessibleIntervals have a finite domain (their Interval), so RandomAccessible.randomAccess() is only guaranteed to cover this finite domain. This may lead to unexpected results when using Views. In the following code

 RandomAccessible<T> extended = Views.extendBorder( img )
 RandomAccessibleInterval<T> cropped = Views.interval( extended, img );
 RandomAccess<T> a1 = extended.randomAccess();
 RandomAccess<T> a2 = cropped.randomAccess();
 

The access a1 on the extended image is valid everywhere. However, somewhat counter-intuitively, the access a2 on the extended and cropped image is only valid on the interval img to which the extended image was cropped. The access is only required to cover this interval, because it is the domain of the cropped image. Views attempts to provide the fastest possible access that meets this requirement, and will therefore strip the extension. To deal with this, if you know that you need to access pixels outside the domain of the RandomAccessibleInterval, and you know that the RandomAccessibleInterval is actually defined beyond its interval boundaries, then use the RandomAccessible.randomAccess(Interval) variant and specify which interval you actually want to access. In the above example,

 RandomAccess<T> a2 = cropped.randomAccess( Intervals.expand( img, 10 ) );
 

will provide the extended access as expected.

Specified by:

randomAccess in interface RandomAccessible<T>

Returns:

random access sampler