Package | Description |
---|---|
org.anchoranalysis.annotation.io |
Reading and writing annotations to the filesystem.
|
org.anchoranalysis.annotation.io.bean |
Beans related to reading / writing / specifying annotations.
|
org.anchoranalysis.image.io.channel.input |
Non-bean classes for reading a
Channel from the
filesystem. |
org.anchoranalysis.image.io.stack.input |
Non-bean classes for reading a
Stack from the
filesystem. |
org.anchoranalysis.mpp.io.bean.input |
Beans for reading data structures related to marked point processes from the file system.
|
org.anchoranalysis.mpp.io.input |
Non-beans for reading data structures related to marked point processes from the file system.
|
org.anchoranalysis.plugin.annotation.bean.comparison |
Task to compare a set of annotations to a segmentation or another set of annotations.
|
org.anchoranalysis.plugin.annotation.bean.strategy |
Strategies for how to annotate an image, such label per image etc.
|
org.anchoranalysis.plugin.image.task.bean.feature.source |
Source of rows in feature-tables with
FeatureSource and derived classes. |
org.anchoranalysis.plugin.image.task.bean.grouped |
Tasks that involved stacks (usually each channel from an image) that are somehow
grouped-together.
|
org.anchoranalysis.plugin.image.task.bean.labeller |
Associating labels with images.
|
org.anchoranalysis.plugin.image.task.feature.calculator |
Non-beans for calculating
Feature s. |
org.anchoranalysis.plugin.image.task.labeller |
Non-bean classes about labelling images.
|
org.anchoranalysis.plugin.image.task.stack |
Non-bean classes pertaining to stacks and channels as used in tasks.
|
org.anchoranalysis.plugin.io.bean.input.stack |
Implementations of
InputManager that process Stack s. |
Constructor and Description |
---|
AnnotationWithStrategy(ProvidesStackInput input,
T strategy)
Creates for a particular input and associated annotation strategy.
|
Modifier and Type | Class and Description |
---|---|
class |
AnnotationInputManager<T extends ProvidesStackInput,S extends AnnotatorStrategy>
An
InputManager that provides annotations corresponding to images. |
Modifier and Type | Method and Description |
---|---|
abstract Optional<String> |
AnnotatorStrategy.annotationLabelFor(ProvidesStackInput input,
OperationContext context)
A human-friendly textual description of the annotation, or
Optional.empty() if no
label is available. |
abstract Path |
AnnotatorStrategy.pathFor(ProvidesStackInput input)
The path to where an annotation file for a particular input would be located.
|
Modifier and Type | Class and Description |
---|---|
class |
NamedChannelsInput
Provides a set of channels as an input, with each channel having a name.
|
class |
NamedChannelsInputPart
One part of a
NamedChannelsInput that can be combined with others. |
Modifier and Type | Interface and Description |
---|---|
interface |
StackSequenceInput
Provides a single stack (or a time series of such stacks) as an input
|
Modifier and Type | Method and Description |
---|---|
InputManager<? extends ProvidesStackInput> |
MultiInputManager.getInput() |
Modifier and Type | Method and Description |
---|---|
void |
MultiInputManager.setInput(InputManager<? extends ProvidesStackInput> input) |
Constructor and Description |
---|
MultiInputManager(String inputName,
InputManager<? extends ProvidesStackInput> input) |
Modifier and Type | Class and Description |
---|---|
class |
MultiInput
An input to an experiment that combines a particular
Stack with other types of entities. |
Constructor and Description |
---|
MultiInput(ProvidesStackInput mainInputObject) |
MultiInput(String mainObjectName,
ProvidesStackInput mainInputObject) |
StackWithMap(String mainObjectName,
ProvidesStackInput mainInputObject) |
Modifier and Type | Method and Description |
---|---|
ComparisonSharedState<T> |
CompareAnnotations.beforeAnyJobIsExecuted(Outputter outputter,
ConcurrencyPlan concurrencyPlan,
List<AnnotationComparisonInput<ProvidesStackInput>> inputs,
ParametersExperiment parameters) |
void |
CompareAnnotations.doJobOnInput(InputBound<AnnotationComparisonInput<ProvidesStackInput>,ComparisonSharedState<T>> input) |
Modifier and Type | Method and Description |
---|---|
Optional<String> |
MarkProposerStrategy.annotationLabelFor(ProvidesStackInput item,
OperationContext operationContext) |
Optional<String> |
ImageLabelStrategy.annotationLabelFor(ProvidesStackInput item,
OperationContext context) |
Path |
SinglePathStrategy.pathFor(ProvidesStackInput input) |
Modifier and Type | Method and Description |
---|---|
protected Optional<String[]> |
FromImage.additionalLabelsFor(ProvidesStackInput input) |
protected ResultsVectorWithThumbnail |
FromImage.calculateResultsForInput(ProvidesStackInput input,
FeatureCalculationContext<FeatureList<FeatureInputStack>> context) |
Modifier and Type | Method and Description |
---|---|
GroupedSharedState<S,T> |
GroupedStackBase.beforeAnyJobIsExecuted(Outputter outputter,
ConcurrencyPlan concurrencyPlan,
List<ProvidesStackInput> inputs,
ParametersExperiment parameters) |
void |
GroupedStackBase.doJobOnInput(InputBound<ProvidesStackInput,GroupedSharedState<S,T>> input) |
Modifier and Type | Method and Description |
---|---|
String |
ImageCSVLabeller.labelFor(ImageCSVLabellerInitialization sharedState,
ProvidesStackInput input,
InputOutputContext context) |
String |
ImageLabellerStringMap.labelFor(ImageLabellerStringMapInitialization<T> sharedState,
ProvidesStackInput input,
InputOutputContext context) |
String |
DescriptiveNameContainsImageLabeller.labelFor(NoSharedState sharedState,
ProvidesStackInput input,
InputOutputContext context) |
String |
BinaryClassifierImageLabeller.labelFor(NoSharedState sharedState,
ProvidesStackInput input,
InputOutputContext context) |
abstract String |
ImageLabeller.labelFor(T sharedState,
ProvidesStackInput input,
InputOutputContext context)
Determines a particular group-identifier for an input
|
Modifier and Type | Method and Description |
---|---|
SharedStateFilteredImageOutput<T> |
ImageAssignLabel.beforeAnyJobIsExecuted(Outputter outputter,
ConcurrencyPlan concurrencyPlan,
List<ProvidesStackInput> inputs,
ParametersExperiment parameters) |
void |
ImageAssignLabel.doJobOnInput(InputBound<ProvidesStackInput,SharedStateFilteredImageOutput<T>> input) |
Modifier and Type | Method and Description |
---|---|
static EnergyStack |
FeatureCalculatorRepeated.extractStack(ProvidesStackInput input,
StackProvider stackEnergy,
InputOutputContext context) |
Constructor and Description |
---|
FeatureCalculatorFromProvider(ProvidesStackInput stackInput,
Optional<StackProvider> stackEnergy,
InputOutputContext context) |
Modifier and Type | Method and Description |
---|---|
String |
SharedStateFilteredImageOutput.labelFor(ProvidesStackInput input,
InputOutputContext context)
Determines a particular group-identifier for an input
|
Modifier and Type | Method and Description |
---|---|
static ImageInitialization |
InitializationFactory.createWithStacks(ProvidesStackInput input,
InitializationContext context) |
Modifier and Type | Class and Description |
---|---|
class |
ConvertNamedChannelsInputToStack
An input object that converts
NamedChannelsInput to StackSequenceInput . |
Copyright © 2010–2023 Owen Feehan, ETH Zurich, University of Zurich, Hoffmann-La Roche. All rights reserved.