Class ExtractSlice

Object

AnchorBean<Task<NamedChannelsInput, SharedStateSelectedSlice>>

Task<NamedChannelsInput, SharedStateSelectedSlice>

ExtractSlice

public class ExtractSlice
extends Task<NamedChannelsInput, SharedStateSelectedSlice>

Reduces a z-stack to a single-slice by taking the optima of a feature calculated for each slice.

Expects a second-level output "stack" to determine which slices are outputted or not.

Author:

Owen Feehan

Constructor Summary

Constructors

Constructor	Description
ExtractSlice()

Method Summary

Modifier and Type	Method	Description
void	afterAllJobsAreExecuted(SharedStateSelectedSlice sharedState, InputOutputContext context)
SharedStateSelectedSlice	beforeAnyJobIsExecuted(Outputter outputter, ConcurrencyPlan concurrencyPlan, List<NamedChannelsInput> inputs, ParametersExperiment parameters)
OutputEnabledMutable	defaultOutputs()
void	doJobOnInput(InputBound<NamedChannelsInput, SharedStateSelectedSlice> input)
FeatureListProvider<FeatureInputStack>	getScoreProvider()
StackProvider	getStackEnergy()
boolean	hasVeryQuickPerInputExecution()
InputTypesExpected	inputTypesExpected()
boolean	isFindMaxima()	If true, the maxima of the score is searched for.
void	setFindMaxima(boolean findMaxima)	If true, the maxima of the score is searched for.
void	setScoreProvider(FeatureListProvider<FeatureInputStack> scoreProvider)
void	setStackEnergy(StackProvider stackEnergy)

Methods inherited from class org.anchoranalysis.experiment.bean.task.Task

executeJob, isInputCompatibleWith

Methods inherited from class org.anchoranalysis.bean.AnchorBean

checkMisconfigured, describeBean, describeChildren, duplicateBean, fields, findFieldsOfClass, getBeanName, getLocalPath, localise, toString

Methods inherited from class java.lang.Object

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

Constructor Details

ExtractSlice

public ExtractSlice()

Method Details

beforeAnyJobIsExecuted

public SharedStateSelectedSlice beforeAnyJobIsExecuted(Outputter outputter,
 ConcurrencyPlan concurrencyPlan,
 List<NamedChannelsInput> inputs,
 ParametersExperiment parameters)
                                                throws ExperimentExecutionException

Specified by:

beforeAnyJobIsExecuted in class Task<NamedChannelsInput, SharedStateSelectedSlice>

Throws:

ExperimentExecutionException

inputTypesExpected

public InputTypesExpected inputTypesExpected()

Specified by:

inputTypesExpected in class Task<NamedChannelsInput, SharedStateSelectedSlice>

doJobOnInput

public void doJobOnInput(InputBound<NamedChannelsInput, SharedStateSelectedSlice> input)
                  throws JobExecutionException

Specified by:

doJobOnInput in class Task<NamedChannelsInput, SharedStateSelectedSlice>

Throws:

JobExecutionException

afterAllJobsAreExecuted

public void afterAllJobsAreExecuted(SharedStateSelectedSlice sharedState,
 InputOutputContext context)
                             throws ExperimentExecutionException

Specified by:

afterAllJobsAreExecuted in class Task<NamedChannelsInput, SharedStateSelectedSlice>

Throws:

ExperimentExecutionException

defaultOutputs

public OutputEnabledMutable defaultOutputs()

Overrides:

defaultOutputs in class Task<NamedChannelsInput, SharedStateSelectedSlice>

hasVeryQuickPerInputExecution

public boolean hasVeryQuickPerInputExecution()

Specified by:

hasVeryQuickPerInputExecution in class Task<NamedChannelsInput, SharedStateSelectedSlice>

getScoreProvider

public FeatureListProvider<FeatureInputStack> getScoreProvider()

setScoreProvider

public void setScoreProvider(FeatureListProvider<FeatureInputStack> scoreProvider)

getStackEnergy

public StackProvider getStackEnergy()

setStackEnergy

public void setStackEnergy(StackProvider stackEnergy)

isFindMaxima

public boolean isFindMaxima()

If true, the maxima of the score is searched for. If false, rather the minima.

setFindMaxima

public void setFindMaxima(boolean findMaxima)

If true, the maxima of the score is searched for. If false, rather the minima.