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java.lang.Objectome.logic.AbstractLevel2Service
ome.services.projection.ProjectionBean
@Transactional(readOnly=true) public class ProjectionBean
Implements projection functionality for Pixels sets as declared in IProjection
.
Field Summary | |
---|---|
protected IPixels |
iPixels
Reference to the service used to retrieve the pixels metadata. |
protected PixelsService |
pixelsService
Reference to the service used to retrieve the pixels data. |
Fields inherited from class ome.logic.AbstractLevel2Service |
---|
iQuery, iUpdate, metadata, queryFactory, sec |
Fields inherited from interface ome.api.IProjection |
---|
MAXIMUM_INTENSITY, MEAN_INTENSITY, METHODOLOGY_STRINGS, SUM_INTENSITY |
Constructor Summary | |
---|---|
ProjectionBean()
|
Method Summary | |
---|---|
Class<? extends ServiceInterface> |
getServiceInterface()
Returns the interface this implementation is for. |
long |
projectPixels(long pixelsId,
ome.model.enums.PixelsType pixelsType,
int algorithm,
int tStart,
int tEnd,
List<Integer> channels,
int stepping,
int zStart,
int zEnd,
String name)
Performs a projection through selected optical sections and optical sections for a given set of time points of a Pixels set. |
byte[] |
projectStack(long pixelsId,
ome.model.enums.PixelsType pixelsType,
int algorithm,
int timepoint,
int channelIndex,
int stepping,
int start,
int end)
Performs a projection through the optical sections of a particular wavelength at a given time point of a Pixels set. |
void |
setIPixels(IPixels iPixels)
IPixels bean injector. |
void |
setPixelsService(PixelsService pixelsService)
PixelsService bean injector. |
Methods inherited from class ome.logic.AbstractLevel2Service |
---|
getBeanHelper, getExtendedMetadata, getQueryFactory, getSecuritySystem, selfConfigure, setExtendedMetadata, setQueryFactory, setQueryService, setSecuritySystem, setUpdateService |
Methods inherited from class java.lang.Object |
---|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
---|
protected transient IPixels iPixels
protected transient PixelsService pixelsService
Constructor Detail |
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public ProjectionBean()
Method Detail |
---|
public Class<? extends ServiceInterface> getServiceInterface()
getServiceInterface
in interface SelfConfigurableService
SelfConfigurableService.getServiceInterface()
public void setIPixels(IPixels iPixels)
public void setPixelsService(PixelsService pixelsService)
public byte[] projectStack(long pixelsId, ome.model.enums.PixelsType pixelsType, int algorithm, int timepoint, int channelIndex, int stepping, int start, int end)
IProjection
projectStack
in interface IProjection
pixelsId
- The source Pixels set Id.pixelsType
- The destination Pixels type. If null
, the
source Pixels set pixels type will be used.algorithm
- MAXIMUM_INTENSITY
,
MEAN_INTENSITY
or SUM_INTENSITY
. NOTE:
When performing a SUM_INTENSITY
projection, pixel values
will be pinned to the maximum pixel value of the destination
Pixels type.timepoint
- Timepoint to perform the projection.channelIndex
- Index of the channel to perform the projection.stepping
- Stepping value to use while calculating the projection.
For example, stepping=1
will use every optical section from
start
to end
where stepping=2
will
use every other section from start
to end
to
perform the projection.start
- Optical section to start projecting from.end
- Optical section to finish projecting.
sizeX * sizeY * bytesPerPixel
in big-endian
format.#projectPixels()
@Transactional(readOnly=false) public long projectPixels(long pixelsId, ome.model.enums.PixelsType pixelsType, int algorithm, int tStart, int tEnd, List<Integer> channels, int stepping, int zStart, int zEnd, String name)
IProjection
IPixels.copyAndResizeImage()
.
projectPixels
in interface IProjection
pixelsId
- The source Pixels set Id.pixelsType
- The destination Pixels type. If null
, the
source Pixels set pixels type will be used.algorithm
- MAXIMUM_INTENSITY
,
MEAN_INTENSITY
or SUM_INTENSITY
. NOTE:
When performing a SUM_INTENSITY
projection, pixel values
will be pinned to the maximum pixel value of the destination
Pixels type.tStart
- Timepoint to start projecting from.tEnd
- Timepoint to finish projecting.channels
- List of the channel indexes to use while calculating the
projection.stepping
- Stepping value to use while calculating the projection.
For example, stepping=1
will use every optical section from
start
to end
where stepping=2
will
use every other section from start
to end
to
perform the projection.zStart
- Optical section to start projecting from.zEnd
- Optical section to finish projecting.name
- Name for the newly created image. If null
the
name of the Image linked to the Pixels qualified by
pixelsId
will be used with a "Projection" suffix. For
example, GFP-H2B Image of HeLa Cells will have an Image name of
GFP-H2B Image of HeLa Cells Projection used for the projection.
#projectStack()
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Version: Beta-4.1.1-r5927-b91
Copyright © 2009 The University of Dundee. All Rights Reserved.