GridSource (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- bigwarp.source.GridSource<T>

All Implemented Interfaces:: Source<T>

public class GridSource<T extends RealType<T>>
extends Object
implements Source<T>

Nested Class Summary

Nested Classes
Modifier and Type Class and Description

static class GridSource.GRID_TYPE

Nested Classes
Modifier and Type	Class and Description
`static class`	`GridSource.GRID_TYPE`

Field Summary

Fields
Modifier and Type	Field and Description
`protected GridRealRandomAccessibleRealInterval<T>`	`gridImg`
`protected Interval`	`interval`
`protected String`	`name`
`protected BigWarp.BigWarpData<?>`	`sourceData`
`protected T`	`type`

Constructor Summary

Constructors
Constructor and Description

GridSource(String name, BigWarp.BigWarpData<?> data, T t, RealTransform warp)

Constructors
Constructor and Description
`GridSource(String name, BigWarp.BigWarpData<?> data, T t, RealTransform warp)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`RealRandomAccessible<T>`	`getInterpolatedSource(int t, int level, Interpolation method)` Get the 3D stack at timepoint index t, extended to infinity and interpolated.
`String`	`getName()` Get the name of the source.
`int`	`getNumMipmapLevels()`
`RandomAccessibleInterval<T>`	`getSource(int t, int level)` Get the 3D stack at timepoint index t.
`void`	`getSourceTransform(int t, int level, AffineTransform3D transform)` Get the transform from the `source` at the given timepoint index and mipmap level into the global coordinate system.
`T`	`getType()` Get an instance of the pixel type.
`VoxelDimensions`	`getVoxelDimensions()` Get voxel size and unit for this source.
`boolean`	`isPresent(int t)` Is there a stack at timepoint index t?
`void`	`setGridSpacing(double spacing)`
`void`	`setGridWidth(double width)`
`void`	`setMethod(GridSource.GRID_TYPE method)`
`void`	`setWarp(RealTransform warp)`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface bdv.viewer.Source
doBoundingBoxCulling

- Field Detail
  - name
```
protected final String name
```
  - sourceData
```
protected final BigWarp.BigWarpData<?> sourceData
```
  - interval
```
protected final Interval interval
```
  - gridImg
```
protected final GridRealRandomAccessibleRealInterval<T extends RealType<T>> gridImg
```
  - type
```
protected T extends RealType<T> type
```
- Constructor Detail
  - GridSource
```
public GridSource(String name,
                  BigWarp.BigWarpData<?> data,
                  T t,
                  RealTransform warp)
```
- Method Detail
  - setGridSpacing
```
public void setGridSpacing(double spacing)
```
  - setGridWidth
```
public void setGridWidth(double width)
```
  - setWarp
```
public void setWarp(RealTransform warp)
```
  - isPresent
```
public boolean isPresent(int t)
```
    Description copied from interface: Source
    
    Is there a stack at timepoint index t?
    
    Specified by:
    
    isPresent in interface Source<T extends RealType<T>>
    
    Parameters:
    
    t - timepoint index
    
    Returns:
    
    true, if there is data for timepoint index t.
  - setMethod
```
public void setMethod(GridSource.GRID_TYPE method)
```
  - getSource
```
public RandomAccessibleInterval<T> getSource(int t,
                                             int level)
```
    Description copied from interface: Source
    
    Get the 3D stack at timepoint index t.
    
    Specified by:
    
    getSource in interface Source<T extends RealType<T>>
    
    Parameters:
    
    t - timepoint index
    
    level - mipmap level
    
    Returns:
    
    the stack.
  - getInterpolatedSource
```
public 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 RealType<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,
                               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.
    
    Specified by:
    
    getSourceTransform in interface Source<T extends RealType<T>>
    
    Parameters:
    
    t - timepoint index
    
    level - mipmap level
    
    transform - is set to the source-to-global transform, that transforms source coordinates into the global coordinates
  - getType
```
public T getType()
```
    Description copied from interface: Source
    
    Get an instance of the pixel type.
    
    Specified by:
    
    getType in interface Source<T extends RealType<T>>
    
    Returns:
    
    instance of pixel type.
  - getName
```
public String getName()
```
    Description copied from interface: Source
    
    Get the name of the source.
    
    Specified by:
    
    getName in interface Source<T extends RealType<T>>
    
    Returns:
    
    the name of the source.
  - getVoxelDimensions
```
public VoxelDimensions getVoxelDimensions()
```
    Description copied from interface: Source
    
    Get voxel size and unit for this source. May return null.
    
    Specified by:
    
    getVoxelDimensions in interface Source<T extends RealType<T>>
    
    Returns:
    
    voxel size and unit or null.
  - getNumMipmapLevels
```
public int getNumMipmapLevels()
```
    Specified by:
    
    getNumMipmapLevels in interface Source<T extends RealType<T>>

Class GridSource<T extends RealType<T>>

Nested Class Summary

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Methods inherited from interface bdv.viewer.Source

Field Detail

name

sourceData

interval

gridImg

type

Constructor Detail

GridSource

Method Detail

setGridSpacing

setGridWidth

setWarp

isPresent

setMethod

getSource

getInterpolatedSource

getSourceTransform

getType

getName

getVoxelDimensions

getNumMipmapLevels