Package org.anchoranalysis.io.bioformats.copyconvert

Class CopyConvert

Object

CopyConvert

public class CopyConvert
extends Object

Copies the bytes from a IFormatReader to a list of channels, converting if necessary.

Author:

Owen Feehan

Method Summary

Modifier and Type	Method	Description
static void	copyAllFrames(loci.formats.IFormatReader reader, List<Channel> destination, ImageFileShape targetShape, ConvertTo<?> convertTo, ReadOptions readOptions, OrientationChange orientationCorrection)	Copies all frames, channels, z-slices (in a byte-array) into a destination set of Channels converting them if necessary along the way.

Methods inherited from class java.lang.Object

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

Method Details

copyAllFrames

public static void copyAllFrames(loci.formats.IFormatReader reader,
 List<Channel> destination,
 ImageFileShape targetShape,
 ConvertTo<?> convertTo,
 ReadOptions readOptions,
 OrientationChange orientationCorrection)
                          throws loci.formats.FormatException,
IOException

Copies all frames, channels, z-slices (in a byte-array) into a destination set of Channels converting them if necessary along the way.

Parameters:

reader - the source of the copy.

destination - the destination of the copy.

targetShape - the shape of the image-file to convert to (before any orientation correction).

convertTo - how to convert the source bytes to the desired target form.

readOptions - Options that influence how stack is read.

orientationCorrection - any correction of orientation to be applied as bytes are converted.

Throws:

loci.formats.FormatException - when the operation fails due to file-format problems.

IOException - when the operation fails due to read or write IO problems.