Package | Description |
---|---|
org.anchoranalysis.bean |
Defining, loading, initializing Anchor Beans.
|
org.anchoranalysis.bean.initializable |
Initializing beans with particular parameters, including recursively.
|
org.anchoranalysis.bean.permute.property |
Applying permutations to the properties of a bean.
|
org.anchoranalysis.feature.bean |
Beans pertaining to feature-calculation.
|
org.anchoranalysis.image.bean.displayer | |
org.anchoranalysis.image.bean.nonbean.spatial.align |
Non-bean classes to help specify the position of one entity relative to the others.
|
org.anchoranalysis.image.bean.spatial.arrange.align |
Aligning a
BoundingBox to fit inside another BoundingBox . |
org.anchoranalysis.image.bean.spatial.arrange.fill |
Montages images together to completely fill the available space, while preserving aspect ratio.
|
org.anchoranalysis.image.feature.bean.evaluator |
Beans that define context (which feature, which energy-stack) for evaluating feature-inputs.
|
org.anchoranalysis.io.input.bean.path |
Beans pertaining to manipulating and matching against file-paths.
|
org.anchoranalysis.io.input.bean.path.matcher |
Beans to find a subset of files that match a particular conditions on their paths.
|
org.anchoranalysis.io.output.bean |
Beans for the framework around writing files to the file-system.
|
org.anchoranalysis.mpp.segment.optimization.feedback |
Non-bean classes used in
org.anchoranalysis.mpp.segment.bean.optimization.feedback |
org.anchoranalysis.plugin.image.bean.channel.provider |
Implementations of
ChannelProvider that are
generic base-classes or otherwise abstract or general. |
org.anchoranalysis.plugin.image.bean.channel.provider.slice |
Implementations of
ChannelProvider that process 3D
channels slice-by-slice. |
org.anchoranalysis.plugin.image.bean.object.provider.morphological |
Implementations of
ObjectCollectionProvider
involving morphological operations. |
org.anchoranalysis.plugin.image.bean.segment.binary |
Implementations of
BinarySegmentation . |
org.anchoranalysis.plugin.image.bean.stack.provider |
Implementations of
StackProvider . |
org.anchoranalysis.plugin.image.bean.stack.provider.color |
Implementations of
StackProvider that color
portions of an image. |
org.anchoranalysis.plugin.image.feature.bean.list.permute |
Implementations of
FeatureListProvider that derive
new features with permuted property-values. |
org.anchoranalysis.plugin.image.feature.bean.object.combine |
Features from combinations of
ObjectMask s. |
org.anchoranalysis.plugin.image.feature.bean.object.pair |
Features from pairs of
ObjectMask s. |
org.anchoranalysis.plugin.image.feature.bean.object.single.intensity |
Implementations of
FeatureSingleObject that measure an object's
intensity on a corresponding Channel . |
org.anchoranalysis.plugin.io.bean.file.namer |
Implementations of
FileNamer . |
org.anchoranalysis.plugin.opencv.bean.feature |
Extracting features using OpenCV.
|
org.anchoranalysis.plugin.opencv.bean.stack | |
org.anchoranalysis.plugin.operator.feature.bean |
Features that combine or convert other features in a generic way.
|
org.anchoranalysis.plugin.quick.bean.experiment |
Quickly defining experiments via several assumptions, including particular file-paths.
|
org.anchoranalysis.plugin.quick.bean.input |
Specifying inputs when quickly defining an experiment.
|
org.anchoranalysis.plugin.quick.bean.input.filepathappend |
Appending other entities to inputs when quickly defining experiments.
|
org.anchoranalysis.plugin.quick.bean.structure |
Specifying a structure of subdirectories and filenames when quickly defining an experiment.
|
Modifier and Type | Method and Description |
---|---|
void |
BeanInstanceMap.addFrom(List<NamedBean<?>> listNamedInstances)
Populates from a list of
NamedBean . |
void |
AnchorBean.checkMisconfigured(BeanInstanceMap defaultInstances)
Checks that a bean's properties conform to expectations.
|
static Optional<Object> |
FieldAccessor.fieldFromBean(AnchorBean<?> bean,
Field field)
Retrieves the value of a
Field from a AnchorBean . |
<T extends AnchorBean<?>> |
AnchorBean.findFieldsOfClass(Class<?> match)
Finds all bean-fields that are instances of a certain class.
|
void |
AnchorBean.localise(Path path)
Called once after the bean is created, localising the bean to a path on the filesystem.
|
Modifier and Type | Method and Description |
---|---|
static void |
CheckMisconfigured.atLeastOne(String property1Name,
String property2Name,
boolean property1Defined,
boolean property2Defined)
Checks that one of two properties is defined, or both.
|
static void |
CheckMisconfigured.oneOnly(String property1Name,
String property2Name,
boolean property1Defined,
boolean property2Defined)
Checks that one of two properties is defined, but not both simultaneously.
|
Modifier and Type | Method and Description |
---|---|
void |
SequenceInteger.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
FeatureList<FeatureInput> |
Feature.createListChildFeatures()
Returns a list of Features that exist as bean-properties of this feature, either directly or
in lists.
|
Modifier and Type | Method and Description |
---|---|
void |
IntensityQuantiles.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
AlignmentOnDimension |
PositionChoices.alignmentForDimension(String fieldName,
String fieldValue)
Calculates how to align a particular axis.
|
static AlignmentOnDimension |
PositionChoicesConstants.alignX(String fieldValue)
How to align on the X-axis.
|
static AlignmentOnDimension |
PositionChoicesConstants.alignY(String fieldValue)
How to align on the Y-axis.
|
static AlignmentOnDimension |
PositionChoicesConstants.alignZ(String fieldValue)
How to align on the Z-axis.
|
Modifier and Type | Method and Description |
---|---|
void |
Align.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
Fill.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
FeatureEvaluator.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
NameElementRange.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
MatchRegularExpression.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
OutputWriteSettings.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
OutputWriteSettings.initialize(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
FeedbackReceiver.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
FromStack.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
ExtractSliceRange.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
Erode.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
Sequence.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
FromChannelOrMask.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
ThreeChannels.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
ThreeColoredObjects.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
PermuteFeatureSequenceInteger.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
PermuteFeature.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
CombineObjectsForFeatures.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
Intersection.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
IntensityMeanShellBase.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
LastDirectories.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
HOGFeature.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
OpenCVReader.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
FromDictionary.checkMisconfigured(BeanInstanceMap defaultInstances) |
Modifier and Type | Method and Description |
---|---|
void |
QuickExperiment.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
QuickMultiDatasetExperiment.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
QuickMultiDatasetExperiment.localise(Path path) |
Modifier and Type | Method and Description |
---|---|
void |
MultiInputManagerQuick.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
NamedChannelsQuick.checkMisconfigured(BeanInstanceMap defaultInstances) |
protected InputManager<FileInput> |
QuickBase.fileInputManager() |
Modifier and Type | Method and Description |
---|---|
void |
FilePathBaseAppendToManager.addToManager(MultiInputManager inputManager,
String rootName,
String regex) |
protected String |
AppendFilePath.createOutPathString() |
protected String |
AppendDictionary.createOutPathString() |
protected String |
AppendObjects.createOutPathString() |
protected String |
AppendHistogram.createOutPathString() |
protected String |
AppendStackDirect.createOutPathString() |
protected abstract String |
FilePathAppendBase.createOutPathString() |
protected String |
AppendMarks.createOutPathString() |
protected String |
AppendCsv.createOutPathString() |
protected String |
AppendStack.createOutPathString() |
NamedBean<DerivePath> |
FilePathAppendBase.createPathDeriver(String rootName,
String regEx)
Creates a (rooted) file-path generator for a rootName and a regEx which matches three groups
The first group should correspond to top-level folder for the project The second group should
correspond to the unique name of the dataset.
|
protected List<NamedBean<DerivePath>> |
AppendFilePath.getListFromManager(MultiInputManager inputManager) |
protected List<NamedBean<DerivePath>> |
AppendDictionary.getListFromManager(MultiInputManager inputManager) |
protected List<NamedBean<DerivePath>> |
AppendObjects.getListFromManager(MultiInputManager inputManager) |
protected List<NamedBean<DerivePath>> |
AppendHistogram.getListFromManager(MultiInputManager inputManager) |
protected List<NamedBean<DerivePath>> |
AppendStackDirect.getListFromManager(MultiInputManager inputManager) |
protected List<NamedBean<DerivePath>> |
AppendMarks.getListFromManager(MultiInputManager inputManager) |
protected abstract List<NamedBean<DerivePath>> |
FilePathBaseAppendToManager.getListFromManager(MultiInputManager inputManager) |
protected List<NamedBean<DerivePath>> |
AppendStack.getListFromManager(MultiInputManager inputManager) |
Modifier and Type | Method and Description |
---|---|
void |
ExperimentStructure.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
QuickMultiDatasetStructuredExperiment.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
ExperimentResultsExperimentStructure.checkMisconfigured(BeanInstanceMap defaultInstances) |
void |
QuickMultiDatasetStructuredExperiment.localise(Path path) |
Copyright © 2010–2023 Owen Feehan, ETH Zurich, University of Zurich, Hoffmann-La Roche. All rights reserved.