OmeroJava API
| Package | Description |
|---|---|
| ome.io.bioformats | |
| ome.io.nio |
New Input/Output handling for the OMERO server
This includes interfaces/classes for the input and output handling of data within
the OMERO server.
|
| Modifier and Type | Method and Description |
|---|---|
void |
BfPixelBuffer.checkBounds(Integer x,
Integer y,
Integer z,
Integer c,
Integer t) |
void |
BfPixelsWrapper.checkBounds(Integer x,
Integer y,
Integer z,
Integer c,
Integer t) |
void |
BfPyramidPixelBuffer.checkBounds(Integer x,
Integer y,
Integer z,
Integer c,
Integer t) |
PixelData |
BfPixelBuffer.getCol(Integer x,
Integer z,
Integer c,
Integer t) |
PixelData |
BfPyramidPixelBuffer.getCol(Integer x,
Integer z,
Integer c,
Integer t) |
byte[] |
BfPixelsWrapper.getCol(Integer x,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPixelBuffer.getColDirect(Integer x,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getColDirect(Integer x,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
PixelData |
BfPixelBuffer.getHypercube(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
PixelData |
BfPyramidPixelBuffer.getHypercube(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
byte[] |
BfPixelsWrapper.getHypercube(List<Integer> offset,
List<Integer> size,
List<Integer> step,
byte[] buffer) |
byte[] |
BfPixelBuffer.getHypercubeDirect(List<Integer> offset,
List<Integer> size,
List<Integer> step,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getHypercubeDirect(List<Integer> offset,
List<Integer> size,
List<Integer> step,
byte[] buffer) |
Long |
BfPixelBuffer.getHypercubeSize(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
Long |
BfPixelsWrapper.getHypercubeSize(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
Long |
BfPyramidPixelBuffer.getHypercubeSize(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
PixelData |
BfPixelBuffer.getPlane(Integer z,
Integer c,
Integer t) |
PixelData |
BfPyramidPixelBuffer.getPlane(Integer z,
Integer c,
Integer t) |
byte[] |
BfPixelsWrapper.getPlane(Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPixelBuffer.getPlaneDirect(Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getPlaneDirect(Integer z,
Integer c,
Integer t,
byte[] buffer) |
Long |
BfPixelBuffer.getPlaneOffset(Integer z,
Integer c,
Integer t) |
Long |
BfPixelsWrapper.getPlaneOffset(Integer z,
Integer c,
Integer t) |
Long |
BfPyramidPixelBuffer.getPlaneOffset(Integer z,
Integer c,
Integer t) |
byte[] |
BfPixelsWrapper.getPlaneRegion(Integer z,
Integer c,
Integer t,
Integer count,
Integer offset,
byte[] buffer) |
PixelData |
BfPixelBuffer.getPlaneRegion(Integer x,
Integer y,
Integer width,
Integer height,
Integer z,
Integer c,
Integer t,
Integer stride) |
PixelData |
BfPyramidPixelBuffer.getPlaneRegion(Integer x,
Integer y,
Integer width,
Integer height,
Integer z,
Integer c,
Integer t,
Integer stride) |
byte[] |
BfPixelBuffer.getPlaneRegionDirect(Integer z,
Integer c,
Integer t,
Integer count,
Integer offset,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getPlaneRegionDirect(Integer z,
Integer c,
Integer t,
Integer count,
Integer offset,
byte[] buffer) |
PixelData |
BfPixelBuffer.getRow(Integer y,
Integer z,
Integer c,
Integer t) |
PixelData |
BfPyramidPixelBuffer.getRow(Integer y,
Integer z,
Integer c,
Integer t) |
byte[] |
BfPixelsWrapper.getRow(Integer y,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPixelBuffer.getRowDirect(Integer y,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getRowDirect(Integer y,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
Long |
BfPixelBuffer.getRowOffset(Integer y,
Integer z,
Integer c,
Integer t) |
Long |
BfPixelsWrapper.getRowOffset(Integer y,
Integer z,
Integer c,
Integer t) |
Long |
BfPyramidPixelBuffer.getRowOffset(Integer y,
Integer z,
Integer c,
Integer t) |
PixelData |
BfPixelBuffer.getStack(Integer c,
Integer t) |
PixelData |
BfPyramidPixelBuffer.getStack(Integer c,
Integer t) |
byte[] |
BfPixelsWrapper.getStack(Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPixelBuffer.getStackDirect(Integer c,
Integer t,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getStackDirect(Integer c,
Integer t,
byte[] buffer) |
Long |
BfPixelBuffer.getStackOffset(Integer c,
Integer t) |
Long |
BfPixelsWrapper.getStackOffset(Integer c,
Integer t) |
Long |
BfPyramidPixelBuffer.getStackOffset(Integer c,
Integer t) |
PixelData |
BfPixelBuffer.getTimepoint(Integer t) |
PixelData |
BfPyramidPixelBuffer.getTimepoint(Integer t) |
byte[] |
BfPixelsWrapper.getTimepoint(Integer t,
byte[] buffer) |
byte[] |
BfPixelBuffer.getTimepointDirect(Integer t,
byte[] buffer) |
byte[] |
BfPyramidPixelBuffer.getTimepointDirect(Integer t,
byte[] buffer) |
Long |
BfPixelBuffer.getTimepointOffset(Integer t) |
Long |
BfPixelsWrapper.getTimepointOffset(Integer t) |
Long |
BfPyramidPixelBuffer.getTimepointOffset(Integer t) |
void |
BfPixelBuffer.setPlane(byte[] buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPyramidPixelBuffer.setPlane(byte[] buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPixelBuffer.setPlane(ByteBuffer buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPyramidPixelBuffer.setPlane(ByteBuffer buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPixelBuffer.setRow(ByteBuffer buffer,
Integer y,
Integer z,
Integer c,
Integer t) |
void |
BfPyramidPixelBuffer.setRow(ByteBuffer buffer,
Integer y,
Integer z,
Integer c,
Integer t) |
void |
BfPixelBuffer.setStack(byte[] buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPyramidPixelBuffer.setStack(byte[] buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPixelBuffer.setStack(ByteBuffer buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPyramidPixelBuffer.setStack(ByteBuffer buffer,
Integer z,
Integer c,
Integer t) |
void |
BfPixelBuffer.setTimepoint(byte[] buffer,
Integer t) |
void |
BfPyramidPixelBuffer.setTimepoint(byte[] buffer,
Integer t) |
void |
BfPixelBuffer.setTimepoint(ByteBuffer buffer,
Integer t) |
void |
BfPyramidPixelBuffer.setTimepoint(ByteBuffer buffer,
Integer t) |
| Modifier and Type | Method and Description |
|---|---|
void |
InMemoryPlanarPixelBuffer.checkBounds(Integer x,
Integer y,
Integer z,
Integer c,
Integer t) |
void |
PixelBuffer.checkBounds(Integer x,
Integer y,
Integer z,
Integer c,
Integer t)
Checks to ensure that no one particular axis has an offset out of bounds.
|
void |
RomioPixelBuffer.checkBounds(Integer x,
Integer y,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
PixelData |
InMemoryPlanarPixelBuffer.getCol(Integer x,
Integer z,
Integer c,
Integer t) |
PixelData |
PixelBuffer.getCol(Integer x,
Integer z,
Integer c,
Integer t)
Retrieves a particular column from this pixel buffer.
|
PixelData |
RomioPixelBuffer.getCol(Integer x,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getColDirect(Integer x,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
PixelBuffer.getColDirect(Integer x,
Integer z,
Integer c,
Integer t,
byte[] buffer)
Retrieves a particular column from this pixel buffer.
|
byte[] |
RomioPixelBuffer.getColDirect(Integer x,
Integer z,
Integer c,
Integer t,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
PixelData |
InMemoryPlanarPixelBuffer.getHypercube(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
PixelData |
PixelBuffer.getHypercube(List<Integer> offset,
List<Integer> size,
List<Integer> step)
Retrieves a hypercube from this pixel buffer.
|
PixelData |
RomioPixelBuffer.getHypercube(List<Integer> offset,
List<Integer> size,
List<Integer> step)
Implemented as specified by
PixelBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getHypercubeDirect(List<Integer> offset,
List<Integer> size,
List<Integer> step,
byte[] buffer) |
byte[] |
PixelBuffer.getHypercubeDirect(List<Integer> offset,
List<Integer> size,
List<Integer> step,
byte[] buffer)
Retrieves a hypercube from the given pixels directly.
|
byte[] |
RomioPixelBuffer.getHypercubeDirect(List<Integer> offset,
List<Integer> size,
List<Integer> step,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
Long |
InMemoryPlanarPixelBuffer.getHypercubeSize(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
Long |
PixelBuffer.getHypercubeSize(List<Integer> offset,
List<Integer> size,
List<Integer> step)
Retrieves a the size of a hypercube from this pixel buffer.
|
Long |
RomioPixelBuffer.getHypercubeSize(List<Integer> offset,
List<Integer> size,
List<Integer> step) |
PixelData |
InMemoryPlanarPixelBuffer.getPlane(Integer z,
Integer c,
Integer t) |
PixelData |
PixelBuffer.getPlane(Integer z,
Integer c,
Integer t)
Retrieves a particular 2D image plane from this pixel buffer.
|
PixelData |
RomioPixelBuffer.getPlane(Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getPlaneDirect(Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
PixelBuffer.getPlaneDirect(Integer z,
Integer c,
Integer t,
byte[] buffer)
Retrieves a particular 2D image plane from this pixel buffer.
|
byte[] |
RomioPixelBuffer.getPlaneDirect(Integer z,
Integer c,
Integer t,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
Long |
InMemoryPlanarPixelBuffer.getPlaneOffset(Integer z,
Integer c,
Integer t) |
Long |
PixelBuffer.getPlaneOffset(Integer z,
Integer c,
Integer t)
Retrieves the offset for a particular 2D image plane in this pixel
buffer.
|
Long |
RomioPixelBuffer.getPlaneOffset(Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
PixelData |
InMemoryPlanarPixelBuffer.getPlaneRegion(Integer x,
Integer y,
Integer width,
Integer height,
Integer z,
Integer c,
Integer t,
Integer stride) |
PixelData |
PixelBuffer.getPlaneRegion(Integer x,
Integer y,
Integer width,
Integer height,
Integer z,
Integer c,
Integer t,
Integer stride)
Retrieves a particular region of a 2D image plane from this pixel buffer.
|
PixelData |
RomioPixelBuffer.getPlaneRegion(Integer x,
Integer y,
Integer width,
Integer height,
Integer z,
Integer c,
Integer t,
Integer stride)
Implemented as specified by
ByteBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getPlaneRegionDirect(Integer z,
Integer c,
Integer t,
Integer count,
Integer offset,
byte[] buffer) |
byte[] |
PixelBuffer.getPlaneRegionDirect(Integer z,
Integer c,
Integer t,
Integer count,
Integer offset,
byte[] buffer)
Retrieves a region from a given plane directly.
|
byte[] |
RomioPixelBuffer.getPlaneRegionDirect(Integer z,
Integer c,
Integer t,
Integer count,
Integer offset,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
PixelData |
InMemoryPlanarPixelBuffer.getRow(Integer y,
Integer z,
Integer c,
Integer t) |
PixelData |
PixelBuffer.getRow(Integer y,
Integer z,
Integer c,
Integer t)
Retrieves a particular row or scanline from this pixel buffer.
|
PixelData |
RomioPixelBuffer.getRow(Integer y,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getRowDirect(Integer y,
Integer z,
Integer c,
Integer t,
byte[] buffer) |
byte[] |
PixelBuffer.getRowDirect(Integer y,
Integer z,
Integer c,
Integer t,
byte[] buffer)
Retrieves a particular row or scanline from this pixel buffer.
|
byte[] |
RomioPixelBuffer.getRowDirect(Integer y,
Integer z,
Integer c,
Integer t,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
Long |
InMemoryPlanarPixelBuffer.getRowOffset(Integer y,
Integer z,
Integer c,
Integer t) |
Long |
PixelBuffer.getRowOffset(Integer y,
Integer z,
Integer c,
Integer t)
Retrieves the offset for a particular row or scanline in this pixel
buffer.
|
Long |
RomioPixelBuffer.getRowOffset(Integer y,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
PixelData |
InMemoryPlanarPixelBuffer.getStack(Integer c,
Integer t) |
PixelData |
PixelBuffer.getStack(Integer c,
Integer t)
Retrieves the the entire number of optical sections for a single
wavelength or channel at a particular timepoint in this pixel buffer.
|
PixelData |
RomioPixelBuffer.getStack(Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getStackDirect(Integer c,
Integer t,
byte[] buffer) |
byte[] |
PixelBuffer.getStackDirect(Integer c,
Integer t,
byte[] buffer)
Retrieves the the entire number of optical sections for a single
wavelength or channel at a particular timepoint in this pixel buffer.
|
byte[] |
RomioPixelBuffer.getStackDirect(Integer c,
Integer t,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
Long |
InMemoryPlanarPixelBuffer.getStackOffset(Integer c,
Integer t) |
Long |
PixelBuffer.getStackOffset(Integer c,
Integer t)
Retrieves the offset for the entire number of optical sections
for a single wavelength or channel at a particular timepoint in
this pixel buffer.
|
Long |
RomioPixelBuffer.getStackOffset(Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
PixelData |
InMemoryPlanarPixelBuffer.getTimepoint(Integer t) |
PixelData |
PixelBuffer.getTimepoint(Integer t)
Retrieves the entire number of optical sections for all
wavelengths or channels at a particular timepoint in this pixel buffer.
|
PixelData |
RomioPixelBuffer.getTimepoint(Integer t)
Implemented as specified by
PixelBuffer I/F. |
byte[] |
InMemoryPlanarPixelBuffer.getTimepointDirect(Integer t,
byte[] buffer) |
byte[] |
PixelBuffer.getTimepointDirect(Integer t,
byte[] buffer)
Retrieves the entire number of optical sections for all
wavelengths or channels at a particular timepoint in this pixel buffer.
|
byte[] |
RomioPixelBuffer.getTimepointDirect(Integer t,
byte[] buffer)
Implemented as specified by
PixelBuffer I/F. |
Long |
InMemoryPlanarPixelBuffer.getTimepointOffset(Integer t) |
Long |
PixelBuffer.getTimepointOffset(Integer t)
Retrieves the in memory size of the entire number of optical sections for
all wavelengths or channels at a particular timepoint in this
pixel buffer.
|
Long |
RomioPixelBuffer.getTimepointOffset(Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setPlane(byte[] buffer,
Integer z,
Integer c,
Integer t) |
void |
PixelBuffer.setPlane(byte[] buffer,
Integer z,
Integer c,
Integer t)
Sets a particular 2D image plane in this pixel buffer.
|
void |
RomioPixelBuffer.setPlane(byte[] buffer,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setPlane(ByteBuffer buffer,
Integer z,
Integer c,
Integer t) |
void |
PixelBuffer.setPlane(ByteBuffer buffer,
Integer z,
Integer c,
Integer t)
Sets a particular 2D image plane in this pixel buffer.
|
void |
RomioPixelBuffer.setPlane(ByteBuffer buffer,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setRow(ByteBuffer buffer,
Integer y,
Integer z,
Integer c,
Integer t) |
void |
PixelBuffer.setRow(ByteBuffer buffer,
Integer y,
Integer z,
Integer c,
Integer t)
Sets a particular row or scanline in this pixel buffer.
|
void |
RomioPixelBuffer.setRow(ByteBuffer buffer,
Integer y,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setStack(byte[] buffer,
Integer z,
Integer c,
Integer t) |
void |
PixelBuffer.setStack(byte[] buffer,
Integer z,
Integer c,
Integer t)
Sets the entire number of optical sections for a single
wavelength or channel at a particular timepoint in this pixel buffer.
|
void |
RomioPixelBuffer.setStack(byte[] buffer,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setStack(ByteBuffer buffer,
Integer z,
Integer c,
Integer t) |
void |
PixelBuffer.setStack(ByteBuffer buffer,
Integer z,
Integer c,
Integer t)
Sets the entire number of optical sections for a single
wavelength or channel at a particular timepoint in this pixel buffer.
|
void |
RomioPixelBuffer.setStack(ByteBuffer buffer,
Integer z,
Integer c,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setTimepoint(byte[] buffer,
Integer t) |
void |
PixelBuffer.setTimepoint(byte[] buffer,
Integer t)
Sets the entire number of optical sections for all
wavelengths or channels at a particular timepoint in this pixel buffer.
|
void |
RomioPixelBuffer.setTimepoint(byte[] buffer,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
void |
InMemoryPlanarPixelBuffer.setTimepoint(ByteBuffer buffer,
Integer t) |
void |
PixelBuffer.setTimepoint(ByteBuffer buffer,
Integer t)
Sets the entire number of optical sections for all
wavelengths or channels at a particular timepoint in this pixel buffer.
|
void |
RomioPixelBuffer.setTimepoint(ByteBuffer buffer,
Integer t)
Implemented as specified by
PixelBuffer I/F. |
OmeroJava API
Version: 5.2.0-ice35-b12
Copyright © 2015 The University of Dundee & Open Microscopy Environment. All Rights Reserved.