LegacyLightSheetZ1ImgLoader (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- spim.fiji.spimdata.imgloaders.AbstractImgLoader
- - spim.fiji.spimdata.imgloaders.AbstractImgFactoryImgLoader
  - - spim.fiji.spimdata.imgloaders.LegacyLightSheetZ1ImgLoader

All Implemented Interfaces:

LegacyBasicImgLoader<UnsignedShortType>, LegacyImgLoader<UnsignedShortType>
```
public class LegacyLightSheetZ1ImgLoader
extends AbstractImgFactoryImgLoader
```

Field Summary
- Fields inherited from class spim.fiji.spimdata.imgloaders.AbstractImgFactoryImgLoader
  imgFactory

Constructor Summary

Constructors
Constructor and Description
`LegacyLightSheetZ1ImgLoader(File cziFile, ImgFactory<? extends NativeType<?>> imgFactory, AbstractSequenceDescription<?,?,?> sequenceDescription)`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`static boolean`	`createOMEXMLMetadata(IFormatReader r)`
`void`	`finalize()`
`protected static Angle`	`getAngle(AbstractSequenceDescription<?,?,?> seqDesc, ViewId view)`
`protected static Angle`	`getAngle(BasicViewDescription<?> vd)`
`protected static Channel`	`getChannel(BasicViewDescription<?> vd)`
`File`	`getCZIFile()`
`RandomAccessibleInterval<FloatType>`	`getFloatImage(ViewId view, boolean normalize)` Get `FloatType` image.
`protected static Illumination`	`getIllumination(BasicViewDescription<?> vd)`
`RandomAccessibleInterval<UnsignedShortType>`	`getImage(ViewId view)` Get the un-normalized image of the default `pixel type` of this `BasicImgLoader`.
`static IFormatReader`	`instantiateImageReader()`
`protected void`	`loadMetaData(ViewId view)` Loads only the metadata from the image, should call updateMetaDataCache( ...
`protected <T extends RealType<T> & NativeType<T>> Img<T>`	`openCZI(T type, ViewId view)`
`static <T extends RealType<T>> void`	`readBytes(byte[] b, Cursor<T> cursor, int width)`
`static <T extends RealType<T>> void`	`readBytesArray(byte[] b, Cursor<T> cursor, int numPx)`
`static <T extends RealType<T>> void`	`readFloats(byte[] b, Cursor<T> cursor, int width, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readFloatsArray(byte[] b, Cursor<T> cursor, int numPx, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readSignedShorts(byte[] b, Cursor<T> cursor, int width, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readSignedShortsArray(byte[] b, Cursor<T> cursor, int numPx, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readUnsignedInts(byte[] b, Cursor<T> cursor, int width, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readUnsignedIntsArray(byte[] b, Cursor<T> cursor, int numPx, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readUnsignedShorts(byte[] b, Cursor<T> cursor, int width, boolean isLittleEndian)`
`static <T extends RealType<T>> void`	`readUnsignedShortsArray(byte[] b, Cursor<T> cursor, int numPx, boolean isLittleEndian)`
`String`	`toString()`

Methods inherited from class spim.fiji.spimdata.imgloaders.AbstractImgFactoryImgLoader
getImgFactory, setImgFactory

Methods inherited from class spim.fiji.spimdata.imgloaders.AbstractImgLoader
getImageSize, getImageType, getVoxelSize, normalize, updateMetaDataCache, updateXMLMetaData, updateXMLMetaData, updateXMLMetaData

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

Constructor Detail

LegacyLightSheetZ1ImgLoader

public LegacyLightSheetZ1ImgLoader(File cziFile,
                                   ImgFactory<? extends NativeType<?>> imgFactory,
                                   AbstractSequenceDescription<?,?,?> sequenceDescription)

Method Detail

getCZIFile
```
public File getCZIFile()
```

getFloatImage
```
public RandomAccessibleInterval<FloatType> getFloatImage(ViewId view,
                                                         boolean normalize)
```
Description copied from interface: LegacyImgLoader

Get FloatType image. If requested, the image is normalized to the range [0,1].

Parameters:

view - timepoint and setup for which to retrieve the image.

normalize - whether the image should be normalized to [0,1].

Returns:

FloatType image

getImage
```
public RandomAccessibleInterval<UnsignedShortType> getImage(ViewId view)
```
Description copied from interface: LegacyBasicImgLoader

Get the un-normalized image of the default pixel type of this BasicImgLoader.

Parameters:

view - timepoint and setup for which to retrieve the image.

Returns:

image of type T.

loadMetaData
```
protected void loadMetaData(ViewId view)
```
Description copied from class: AbstractImgLoader

Loads only the metadata from the image, should call updateMetaDataCache( ... )

Specified by:

loadMetaData in class AbstractImgLoader

finalize
```
public void finalize()
```
Overrides:

finalize in class Object

openCZI

protected <T extends RealType<T> & NativeType<T>> Img<T> openCZI(T type,
                                                                 ViewId view)
                                                          throws Exception

Throws:: Exception

readBytes

public static final <T extends RealType<T>> void readBytes(byte[] b,
                                                           Cursor<T> cursor,
                                                           int width)

readBytesArray

public static final <T extends RealType<T>> void readBytesArray(byte[] b,
                                                                Cursor<T> cursor,
                                                                int numPx)

readUnsignedShorts

public static final <T extends RealType<T>> void readUnsignedShorts(byte[] b,
                                                                    Cursor<T> cursor,
                                                                    int width,
                                                                    boolean isLittleEndian)

readUnsignedShortsArray

public static final <T extends RealType<T>> void readUnsignedShortsArray(byte[] b,
                                                                         Cursor<T> cursor,
                                                                         int numPx,
                                                                         boolean isLittleEndian)

readSignedShorts

public static final <T extends RealType<T>> void readSignedShorts(byte[] b,
                                                                  Cursor<T> cursor,
                                                                  int width,
                                                                  boolean isLittleEndian)

readSignedShortsArray

public static final <T extends RealType<T>> void readSignedShortsArray(byte[] b,
                                                                       Cursor<T> cursor,
                                                                       int numPx,
                                                                       boolean isLittleEndian)

readUnsignedInts

public static final <T extends RealType<T>> void readUnsignedInts(byte[] b,
                                                                  Cursor<T> cursor,
                                                                  int width,
                                                                  boolean isLittleEndian)

readUnsignedIntsArray

public static final <T extends RealType<T>> void readUnsignedIntsArray(byte[] b,
                                                                       Cursor<T> cursor,
                                                                       int numPx,
                                                                       boolean isLittleEndian)

readFloats

public static final <T extends RealType<T>> void readFloats(byte[] b,
                                                            Cursor<T> cursor,
                                                            int width,
                                                            boolean isLittleEndian)

readFloatsArray

public static final <T extends RealType<T>> void readFloatsArray(byte[] b,
                                                                 Cursor<T> cursor,
                                                                 int numPx,
                                                                 boolean isLittleEndian)

instantiateImageReader

public static IFormatReader instantiateImageReader()

createOMEXMLMetadata

public static boolean createOMEXMLMetadata(IFormatReader r)

getAngle

protected static Angle getAngle(AbstractSequenceDescription<?,?,?> seqDesc,
                                ViewId view)

getAngle

protected static Angle getAngle(BasicViewDescription<?> vd)

getChannel

protected static Channel getChannel(BasicViewDescription<?> vd)

getIllumination

protected static Illumination getIllumination(BasicViewDescription<?> vd)

toString
```
public String toString()
```
Overrides:

toString in class Object

Class LegacyLightSheetZ1ImgLoader

Field Summary

Fields inherited from class spim.fiji.spimdata.imgloaders.AbstractImgFactoryImgLoader

Constructor Summary

Method Summary

Methods inherited from class spim.fiji.spimdata.imgloaders.AbstractImgFactoryImgLoader

Methods inherited from class spim.fiji.spimdata.imgloaders.AbstractImgLoader

Methods inherited from class java.lang.Object

Constructor Detail

LegacyLightSheetZ1ImgLoader

Method Detail

getCZIFile

getFloatImage

getImage

loadMetaData

finalize

openCZI

readBytes

readBytesArray

readUnsignedShorts

readUnsignedShortsArray

readSignedShorts

readSignedShortsArray

readUnsignedInts

readUnsignedIntsArray

readFloats

readFloatsArray

instantiateImageReader

createOMEXMLMetadata

getAngle

getAngle

getChannel

getIllumination

toString