Uses of Class
org.biojava.utils.ChangeType

Packages that use ChangeType

Package	Description
org.biojava.bio	The core classes that will be used throughout the bio packages.
org.biojava.bio.alignment	Classes to generate and describe sequence alignments.
org.biojava.bio.dist	Probability distributions over Alphabets.
org.biojava.bio.dp	HMM and Dynamic Programming Algorithms.
org.biojava.bio.gui.sequence	Graphical displays of biological sequences and associated annotations.
org.biojava.bio.program.homologene	Support classes for Homologene data.
org.biojava.bio.search	Interfaces and classes for representing sequence similarity search results.
org.biojava.bio.seq	Classes and interfaces for defining biological sequences and informatics objects.
org.biojava.bio.seq.db	Collections of biological sequence data.
org.biojava.bio.seq.distributed	Sequences and SequenceDBs which are composed from data taken from a number of data sources.
org.biojava.bio.seq.homol	The classes and interfaces for defining sequence similarity and honology.
org.biojava.bio.seq.impl	Standard in-memory implementations of Sequence and Feature.
org.biojava.bio.seq.projection	Code for projecting Feature objects and systematically altering their properties.
org.biojava.bio.symbol	Representation of the Symbols that make up a sequence, and locations within them.
org.biojava.bio.taxa	Taxonomy object for representing species information.
org.biojava.ontology	A general-purpose API for ontologies.
org.biojava.utils	Miscellaneous utility classes used by other BioJava components.
org.biojava.utils.cache	A simple cache system with pluggable caching behaviours.
org.biojavax	The Biojava extensions packages, classes that extend the core biojava functionality The biojavax packages contain a number of extensions to the core biojava interfaces.
org.biojavax.bio	Classes to represent biological entities and their relationships.
org.biojavax.bio.db	Interactions between biojavax objects and a DB.
org.biojavax.bio.seq	Rich implementations of Sequences, Locations and Features.
org.biojavax.bio.taxa	Objects that model the NCBI taxonomy schema as described in the BioSQL schema.
org.biojavax.ga	Classes to provide a genetic algorithm framework
org.biojavax.ga.functions	GA functions A genetic algorithm requires a number of functions.
org.biojavax.ontology	Extensions to the biojava ontology model that represent BioSQL ontology.

Uses of ChangeType in org.biojava.bio

Fields in org.biojava.bio declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Annotatable.ANNOTATION Signals that the associated Annotation has altered in some way.
static ChangeType	MergeAnnotation.ANNOTATION_ADD ChangeType of ChangeEvent fired before and after an annotation is added to MergeAnnotation.
static ChangeType	MergeAnnotation.ANNOTATION_CHANGED ChangeType of ChangeEvent fired before and after an annotation is added to MergeAnnotation.
static ChangeType	MergeAnnotation.ANNOTATION_REMOVE ChangeType of ChangeEvent fired before and after an annotation is added to MergeAnnotation.
static ChangeType	Annotation.PROPERTY This type symbolizes that one or more properties have changed.

Methods in org.biojava.bio with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	OverlayAnnotation.getChangeSupport(ChangeType changeType)
protected ChangeSupport	MergeAnnotation.getChangeSupport(ChangeType changeType)

Uses of ChangeType in org.biojava.bio.alignment

Fields in org.biojava.bio.alignment declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	ARAlignment.ADD_LABEL
static ChangeType	Alignment.CONTENT Signals that SymbolLists will be added to or removed from an alignment.
static ChangeType	EditableAlignment.GAPS
static ChangeType	EditableAlignment.LOCATION
static ChangeType	ARAlignment.REMOVE_LABEL

Uses of ChangeType in org.biojava.bio.dist

Fields in org.biojava.bio.dist declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Count.COUNTS Whenever a component count changes the values that would be returned by getCount, they should fire a ChangeEvent with this object as the type.
static ChangeType	Distribution.NULL_MODEL Whenever the null model distribution changes the values that would be returned by getWeight, either by being edited or by being replaced, a ChangeEvent with this object as the type should be thrown.
static ChangeType	Distribution.WEIGHTS Whenever a distribution changes the values that would be returned by getWeight, they should fire a ChangeEvent with this object as the type.

Methods in org.biojava.bio.dist with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	TranslatedDistribution.getChangeSupport(ChangeType ct)
protected ChangeSupport	AbstractOrderNDistribution.getChangeSupport(ChangeType ct)
protected ChangeSupport	AbstractDistribution.getChangeSupport(ChangeType ct)

Uses of ChangeType in org.biojava.bio.dp

Fields in org.biojava.bio.dp declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	EmissionState.ADVANCE This signals that the advance array has been altered.
static ChangeType	MarkovModel.ARCHITECTURE Signals that the architecture of the model is changing.
static ChangeType	EmissionState.DISTRIBUTION This signals that the distribution associate with an EmissionState has been altered.
static ChangeType	MarkovModel.PARAMETER Signals that one or more parameters have altered.

Methods in org.biojava.bio.dp with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	SimpleMarkovModel.getChangeSupport(ChangeType ct)
protected ChangeSupport	SimpleEmissionState.getChangeSupport(ChangeType ct)

Uses of ChangeType in org.biojava.bio.gui.sequence

Fields in org.biojava.bio.gui.sequence declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	TickFeatureRenderer.DEPTH
static ChangeType	AbstractBeadRenderer.DEPTH Constant DEPTH indicating a change to the depth of the renderer.
static ChangeType	AbiTraceRenderer.DEPTH
static ChangeType	PeptideDigestRenderer.DIGEST
static ChangeType	AbstractPeptideDigestRenderer.DIGEST
static ChangeType	AbstractBeadRenderer.DISPLACEMENT Constant DISPLACEMENT indicating a change to the Y-axis displacement of the features.
static ChangeType	FeatureBlockSequenceRenderer.FEATURE_COLLAPSING
static ChangeType	FeatureBlockSequenceRenderer.FEATURE_RENDERER
static ChangeType	TickFeatureRenderer.FILL
static ChangeType	BasicFeatureRenderer.FILL
static ChangeType	AbstractBeadRenderer.FILL Constant FILL indicating a change to the fill of the features.
static ChangeType	PairwiseFilteringRenderer.FILTER Constant FILTER indicating a change to the renderer's filter.
static ChangeType	FilteringRenderer.FILTER
static ChangeType	RectangularBeadRenderer.HEIGHTSCALING Constant HEIGHTSCALING indicating a change to the feature height scaling policy.
static ChangeType	SimpleLabelRenderer.LABEL
static ChangeType	AlignmentRenderer.LABEL
static ChangeType	FeatureLabelRenderer.LABEL_MAKER
static ChangeType	SequenceRenderContext.LAYOUT
static ChangeType	OffsetRulerRenderer.OFFSET
static ChangeType	TickFeatureRenderer.OUTLINE
static ChangeType	PairwiseDiagonalRenderer.OUTLINE Constant OUTLINE indicating a change to the fill of the features.
static ChangeType	CrosshairRenderer.OUTLINE Constant OUTLINE indicating a change to the crosshair paint.
static ChangeType	BasicFeatureRenderer.OUTLINE
static ChangeType	AbstractBeadRenderer.OUTLINE Constant OUTLINE indicating a change to the outline paint of the features.
static ChangeType	PaddingRenderer.PADDING Event type for when the size of the padding changes.
static ChangeType	EllipticalBeadRenderer.RATIO Constant RATIO indicating a change to the minimum allowed ratio of long axis to short axis of the features.
static ChangeType	PairwiseFilteringRenderer.RECURSE Constant RECURSE indicating a change to the renderer's filter recursion flag.
static ChangeType	FilteringRenderer.RECURSE
static ChangeType	TranslatedSequencePanel.RENDERER Constant RENDERER is a ChangeType which indicates a change to the renderer, requiring a layout update.
static ChangeType	SequenceRendererWrapper.RENDERER
static ChangeType	SequencePoster.RENDERER Deprecated.
static ChangeType	SequencePanel.RENDERER
static ChangeType	PairwiseSequencePanel.RENDERER Constant RENDERER is a ChangeType which indicates a change to the renderer, requiring a layout update.
static ChangeType	PairwiseFilteringRenderer.RENDERER Constant RENDERER indicating a change to the renderer.
static ChangeType	OverlayRendererWrapper.RENDERER
static ChangeType	LabelledSequenceRenderer.RENDERER
static ChangeType	StackedFeatureRenderer.RENDERERS
static ChangeType	PairwiseOverlayRenderer.RENDERERS Constant RENDERERS indicating a change to the renderers handled by the overlay.
static ChangeType	MultiLineRenderer.RENDERERS
static ChangeType	SequenceRenderContext.REPAINT
static ChangeType	BasicFeatureRenderer.SCOOP
static ChangeType	BasicFeatureRenderer.SIZE
static ChangeType	AbstractBeadRenderer.STROKE Constant STROKE indicating a change to the outline stroke of the features.
static ChangeType	OffsetRulerRenderer.TICKS
static ChangeType	AbiTraceRenderer.TRACE
static ChangeType	TranslatedSequencePanel.TRANSLATION Constant TRANSLATION is a ChangeType which indicates a change to the translation, requiring a paint update.
static ChangeType	PairwiseSequencePanel.TRANSLATION Constant TRANSLATION is a ChangeType which indicates a change to the translation, requiring a paint update.
static ChangeType	LabelledSequenceRenderer.VALUES

Methods in org.biojava.bio.gui.sequence with parameters of type ChangeType

Modifier and Type	Method and Description
void	TranslatedSequencePanel.addChangeListener(ChangeListener cl, ChangeType ct) addChangeListener adds a listener for specific types of change.
void	SequencePoster.addChangeListener(ChangeListener cl, ChangeType ct) Deprecated.
void	SequencePanel.addChangeListener(ChangeListener cl, ChangeType ct)
void	PairwiseSequencePanel.addChangeListener(ChangeListener cl, ChangeType ct) addChangeListener adds a listener for specific types of change.
protected ChangeSupport	TranslatedSequencePanel.getChangeSupport(ChangeType ct) getChangeSupport lazily instantiates a helper for change listeners.
protected ChangeSupport	SequenceRendererWrapper.getChangeSupport(ChangeType ct)
protected ChangeSupport	SequencePoster.getChangeSupport(ChangeType ct) Deprecated.
protected ChangeSupport	SequencePanel.getChangeSupport(ChangeType ct)
protected ChangeSupport	PairwiseSequencePanel.getChangeSupport(ChangeType ct) getChangeSupport lazily instantiates a helper for change listeners.
protected ChangeSupport	PairwiseOverlayRenderer.getChangeSupport(ChangeType ct)
protected ChangeSupport	PairwiseFilteringRenderer.getChangeSupport(ChangeType ct)
protected ChangeSupport	PaddingRenderer.getChangeSupport(ChangeType ct)
protected ChangeSupport	OverlayRendererWrapper.getChangeSupport(ChangeType ct)
protected ChangeSupport	MultiLineRenderer.getChangeSupport(ChangeType ct)
protected ChangeSupport	FilteringRenderer.getChangeSupport(ChangeType ct)
protected ChangeSupport	FeatureBlockSequenceRenderer.getChangeSupport(ChangeType ct)
protected ChangeSupport	BumpedRenderer.getChangeSupport(ChangeType ct)
boolean	TranslatedSequencePanel.isUnchanging(ChangeType ct)
boolean	SequencePoster.isUnchanging(ChangeType ct) Deprecated.
boolean	SequencePanel.isUnchanging(ChangeType ct)
boolean	PairwiseSequencePanel.isUnchanging(ChangeType ct)
void	TranslatedSequencePanel.removeChangeListener(ChangeListener cl, ChangeType ct) removeChangeListener removes a listener.
void	SequencePoster.removeChangeListener(ChangeListener cl, ChangeType ct) Deprecated.
void	SequencePanel.removeChangeListener(ChangeListener cl, ChangeType ct)
void	PairwiseSequencePanel.removeChangeListener(ChangeListener cl, ChangeType ct) removeChangeListener removes a listener.

Uses of ChangeType in org.biojava.bio.program.homologene

Fields in org.biojava.bio.program.homologene declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	OrthoPairSet.MODIFY
static ChangeType	OrthologueSet.MODIFY

Uses of ChangeType in org.biojava.bio.search

Methods in org.biojava.bio.search with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	SimpleSeqSimilaritySearchSubHit.getChangeSupport(ChangeType ct)
protected ChangeSupport	SimpleSeqSimilaritySearchResult.getChangeSupport(ChangeType ct)
protected ChangeSupport	SimpleSeqSimilaritySearchHit.getChangeSupport(ChangeType ct)
protected ChangeSupport	SequenceDBSearchSubHit.getChangeSupport(ChangeType ct) Deprecated.
protected ChangeSupport	SequenceDBSearchResult.getChangeSupport(ChangeType ct) Deprecated.
protected ChangeSupport	SequenceDBSearchHit.getChangeSupport(ChangeType ct) Deprecated.

Uses of ChangeType in org.biojava.bio.seq

Fields in org.biojava.bio.seq declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	FeatureHolder.FEATURES Signals that features have been added or removed directly within this FeatureHolder.
static ChangeType	Feature.LOCATION The location of this feature is being altered.
static ChangeType	FeatureHolder.SCHEMA Signals that the schema of this FeatureHolder has changed.
static ChangeType	Feature.SOURCE The source of this feature has altered
static ChangeType	Feature.SOURCETERM The ontological source of this feature has altered
static ChangeType	StrandedFeature.STRAND The strand of this feature is being altered.
static ChangeType	Feature.TYPE The type of this feature has altered.
static ChangeType	Feature.TYPETERM The ontological type of this feature has altered.

Methods in org.biojava.bio.seq with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	SimpleAssembly.getChangeSupport(ChangeType ct)
protected ChangeSupport	NewSimpleAssembly.getChangeSupport(ChangeType ct)
protected ChangeSupport	LazyFeatureHolder.getChangeSupport(ChangeType ct)
protected ChangeSupport	FeatureTypes.RepositoryImpl.getChangeSupport(ChangeType ct)

Uses of ChangeType in org.biojava.bio.seq.db

Fields in org.biojava.bio.seq.db declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	SequenceDBLite.SEQUENCES Signals that sequences are being added to or remove from the database.

Methods in org.biojava.bio.seq.db with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	SequenceDBWrapper.getChangeSupport(ChangeType ct)

Uses of ChangeType in org.biojava.bio.seq.distributed

Fields in org.biojava.bio.seq.distributed declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	DistributedSequenceDB.DATASOURCE
static ChangeType	DistributedSequenceDB.DATASOURCE_SELECTION

Uses of ChangeType in org.biojava.bio.seq.homol

Fields in org.biojava.bio.seq.homol declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Homology.ALIGNMENT Signals that the alignment describing the homologous sequences has changed.
static ChangeType	SimilarityPairFeature.SIBLING The sibling of this feature has altered.

Uses of ChangeType in org.biojava.bio.seq.impl

Methods in org.biojava.bio.seq.impl with parameters of type ChangeType

Modifier and Type	Method and Description
void	SubSequence.addChangeListener(ChangeListener cl, ChangeType ct)
void	LazyFilterFeatureHolder.addChangeListener(ChangeListener cl, ChangeType ct)
protected ChangeSupport	SimpleSequence.getChangeSupport(ChangeType ct)
protected ChangeSupport	SimpleFeature.getChangeSupport(ChangeType ct)
boolean	SubSequence.isUnchanging(ChangeType ct)
boolean	LazyFilterFeatureHolder.isUnchanging(ChangeType ct)
void	SubSequence.removeChangeListener(ChangeListener cl, ChangeType ct)
void	LazyFilterFeatureHolder.removeChangeListener(ChangeListener cl, ChangeType ct)

Uses of ChangeType in org.biojava.bio.seq.projection

Methods in org.biojava.bio.seq.projection with parameters of type ChangeType

Modifier and Type	Method and Description
void	ProjectedFeature.addChangeListener(ChangeListener cl, ChangeType ct)
void	ReparentContext.addChangeListener(Feature f, ChangeListener cl, ChangeType ct)
void	ProjectionContext.addChangeListener(Feature projFeat, ChangeListener cl, ChangeType ct) Add a ChangeListener to a projected feature.
boolean	ProjectedFeature.isUnchanging(ChangeType ct)
void	ProjectedFeature.removeChangeListener(ChangeListener cl, ChangeType ct)
void	ReparentContext.removeChangeListener(Feature f, ChangeListener cl, ChangeType ct)
void	ProjectionContext.removeChangeListener(Feature projFeat, ChangeListener cl, ChangeType ct) Remove a ChangeListener from a projected feature.

Uses of ChangeType in org.biojava.bio.symbol

Fields in org.biojava.bio.symbol declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	SymbolList.EDIT Signals that the SymbolList is being edited.
static ChangeType	AlphabetIndex.INDEX Indicates that the index is changing, probably due to the underlying alphabet changing.
static ChangeType	Alphabet.PARSERS This signals that the available parsers have changed.
static ChangeType	Alphabet.SYMBOLS This ChangeType indicates that some symbols have been added or removed from the alphabet.

Methods in org.biojava.bio.symbol with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	SimpleAlphabet.getChangeSupport(ChangeType ct)
protected ChangeSupport	AbstractSymbol.getChangeSupport(ChangeType changeType)

Uses of ChangeType in org.biojava.bio.taxa

Fields in org.biojava.bio.taxa declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Taxon.CHANGE_COMMON_NAME Deprecated. Change type to indicate that the common name of this Taxon is changing.
static ChangeType	Taxon.CHANGE_SCIENTIFIC_NAME Deprecated. Change type to indicate that the scientific name of this Taxon is changing.

Methods in org.biojava.bio.taxa with parameters of type ChangeType

Modifier and Type	Method and Description
protected ChangeSupport	AbstractTaxon.getChangeSupport(ChangeType ct) Deprecated.

Uses of ChangeType in org.biojava.ontology

Fields in org.biojava.ontology declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Term.ONTOLOGY ChangeType which indicates that this term's ontology has been altered
static ChangeType	Ontology.TERM
static ChangeType	Ontology.TRIPLE

Methods in org.biojava.ontology with parameters of type ChangeType

Modifier and Type	Method and Description
ChangeSupport	OntologyTerm.Impl.getChangeSupport(ChangeType ct)
ChangeSupport	AbstractTerm.getChangeSupport(ChangeType ct)

Uses of ChangeType in org.biojava.utils

Fields in org.biojava.utils declared as ChangeType

Modifier and Type	Field and Description
ChangeType	IndexedChangeHub.ListenerMemento.type
static ChangeType	ChangeType.UNKNOWN Constant ChangeType field which indicates that a change has occured which can't otherwise be represented.

Methods in org.biojava.utils that return ChangeType

Modifier and Type	Method and Description
ChangeType	ChangeForwarder.Retyper.getType()
ChangeType	ChangeEvent.getType() Find the type of this event.

Methods in org.biojava.utils with parameters of type ChangeType

Modifier and Type	Method and Description
void	Unchangeable.addChangeListener(ChangeListener cl, ChangeType ct)
void	ChangeSupport.addChangeListener(ChangeListener cl, ChangeType ct) Add a listener that will be informed of changes of a given type (and it's subtypes)
void	Changeable.addChangeListener(ChangeListener cl, ChangeType ct) Add a listener that will be informed of changes of a given type.
void	AbstractChangeable.addChangeListener(ChangeListener cl, ChangeType ct)
void	Unchangeable.addForwarder(ChangeForwarder cf, ChangeType ct)
void	IndexedChangeHub.addListener(Object key, ChangeListener listener, ChangeType ct)
void	ChangeHub.addListener(Object key, ChangeListener listener, ChangeType ct) add a ChangeListener associated with given key.
protected ChangeSupport	AbstractChangeable.getChangeSupport(ChangeType ct) Called to retrieve the ChangeSupport for this object.
Set	Unchangeable.getForwarders(ChangeType ct)
Set	Unchangeable.getListeners(ChangeType ct)
boolean	ChangeSupport.hasListeners(ChangeType ct) Return true if we have listeners registered for a particular change type.
protected boolean	AbstractChangeable.hasListeners(ChangeType ct) Discover if we have listeners registered for a particular change type.
boolean	ChangeType.isMatchingType(ChangeType ct) Return true iff ct is equal to this type or any of it's supertypes (including ChangeType.UNKNOWN).
boolean	Unchangeable.isUnchanging(ChangeType ct)
boolean	ChangeSupport.isUnchanging(ChangeType ct)
boolean	Changeable.isUnchanging(ChangeType ct) A particular ChangeType can never be raised by this Changeable.
boolean	AbstractChangeable.isUnchanging(ChangeType ct)
void	Unchangeable.removeChangeListener(ChangeListener cl, ChangeType ct)
void	ChangeSupport.removeChangeListener(ChangeListener cl, ChangeType ct) Remove a listener that was interested in a specific types of changes.
void	Changeable.removeChangeListener(ChangeListener cl, ChangeType ct) Remove a listener that was interested in a specific types of changes.
void	AbstractChangeable.removeChangeListener(ChangeListener cl, ChangeType ct)
void	Unchangeable.removeForwarder(ChangeForwarder cf, ChangeType ct)
void	IndexedChangeHub.removeListener(Object key, ChangeListener listener, ChangeType ct)
void	ChangeHub.removeListener(Object key, ChangeListener listener, ChangeType ct) remove a ChangeListener associated with given key.

Constructors in org.biojava.utils with parameters of type ChangeType

Constructor and Description
ChangeEvent(Object source, ChangeType type) Construct a ChangeEvent with no change details.
ChangeEvent(Object source, ChangeType type, Object change) Construct a ChangeEvent specifying a new value for a property, or an object to be added to a collection.
ChangeEvent(Object source, ChangeType type, Object change, Object previous) Construct a ChangeEvent specifying a new value for a property, and giving the previous value.
ChangeEvent(Object source, ChangeType type, Object change, Object previous, ChangeEvent chain) Construct a ChangeEvent to be fired because another ChangeEvent has been received from a property object.
ChangeForwarder.Retyper(Object source, ChangeSupport changeSupport, ChangeType type) Create a new Retyper for forwarding events.
ChangeType(String name, Class clazz, String fname, ChangeType superType) Construct a new ChangeType.
ChangeType(String name, Field ourField, ChangeType superType) Construct a new ChangeType.
ChangeType(String name, String className, String fieldName, ChangeType superType)
IndexedChangeHub.ListenerMemento(ChangeType type, Reference listener)

Uses of ChangeType in org.biojava.utils.cache

Constructors in org.biojava.utils.cache with parameters of type ChangeType

Constructor and Description
ChangeableCache(ChangeType ct)

Uses of ChangeType in org.biojavax

Fields in org.biojavax declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Namespace.ACRONYM
static ChangeType	Namespace.AUTHORITY
static ChangeType	DocRef.CROSSREF
static ChangeType	Namespace.DESCRIPTION
static ChangeType	RankedDocRef.LOCATION
static ChangeType	Namespace.NAME
static ChangeType	RankedDocRef.RANK
static ChangeType	RankedCrossRef.RANK
static ChangeType	Note.RANK
static ChangeType	Comment.RANK
static ChangeType	DocRef.REMARK
static ChangeType	Note.TERM
static ChangeType	Namespace.URI
static ChangeType	Note.VALUE

Uses of ChangeType in org.biojavax.bio

Fields in org.biojavax.bio declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	BioEntry.COMMENT
static ChangeType	BioEntry.DESCRIPTION
static ChangeType	BioEntry.DIVISION
static ChangeType	BioEntry.IDENTIFIER
static ChangeType	BioEntryRelationship.RANK
static ChangeType	BioEntry.RANKEDCROSSREF
static ChangeType	BioEntry.RANKEDDOCREF
static ChangeType	BioEntry.RELATIONS
static ChangeType	BioEntry.SEQVERSION
static ChangeType	BioEntry.TAXON

Uses of ChangeType in org.biojavax.bio.db

Fields in org.biojavax.bio.db declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	BioEntryDBLite.BIOENTRYS Signals that sequences are being added to or remove from the database.

Uses of ChangeType in org.biojavax.bio.seq

Fields in org.biojavax.bio.seq declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	RichSequence.CIRCULAR
static ChangeType	RichLocation.CIRCULAR
static ChangeType	RichFeature.CROSSREF
static ChangeType	RichLocation.FEATURE
static ChangeType	RichFeature.LOCATION
static ChangeType	RichFeature.NAME
static ChangeType	RichLocation.NOTE
static ChangeType	RichFeature.PARENT
static ChangeType	RichLocation.RANK
static ChangeType	RichFeatureRelationship.RANK
static ChangeType	RichFeature.RANK
static ChangeType	RichFeature.RELATION
static ChangeType	RichFeature.SOURCETERM
static ChangeType	RichSequence.SYMLISTVERSION
static ChangeType	RichLocation.TERM
static ChangeType	RichFeature.TYPETERM

Methods in org.biojavax.bio.seq with parameters of type ChangeType

Modifier and Type	Method and Description
void	InfinitelyAmbiguousSymbolList.addChangeListener(ChangeListener cl, ChangeType ct) Add a listener that will be informed of changes of a given type.
boolean	InfinitelyAmbiguousSymbolList.isUnchanging(ChangeType ct) A particular ChangeType can never be raised by this Changeable.
void	InfinitelyAmbiguousSymbolList.removeChangeListener(ChangeListener cl, ChangeType ct) Remove a listener that was interested in a specific types of changes.

Uses of ChangeType in org.biojavax.bio.taxa

Fields in org.biojavax.bio.taxa declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	NCBITaxon.GENETICCODE
static ChangeType	NCBITaxon.HIDDEN
static ChangeType	NCBITaxon.LEFTVALUE
static ChangeType	NCBITaxon.MITOGENETICCODE
static ChangeType	NCBITaxon.NAMES
static ChangeType	NCBITaxon.NODERANK
static ChangeType	NCBITaxon.PARENT
static ChangeType	NCBITaxon.RIGHTVALUE

Uses of ChangeType in org.biojavax.ga

Fields in org.biojavax.ga declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	Organism.CHROMOSOMES
static ChangeType	GeneticAlgorithm.CROSS_OVER_FUNCTION
static ChangeType	GeneticAlgorithm.FITNESS_FUNCTION
static ChangeType	GeneticAlgorithm.FUNCTION
static ChangeType	GeneticAlgorithm.MUTATION_FUNCTION
static ChangeType	Population.NAME
static ChangeType	Organism.NAME
static ChangeType	Population.ORGANISMS
static ChangeType	GeneticAlgorithm.POPULATION
static ChangeType	GeneticAlgorithm.SELECTION_FUNCTION

Uses of ChangeType in org.biojavax.ga.functions

Fields in org.biojavax.ga.functions declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	CrossOverFunction.CROSS_PROB
static ChangeType	CrossOverFunction.MAX_CROSSES
static ChangeType	MutationFunction.MUTATION_PROBS
static ChangeType	MutationFunction.MUTATION_SPECTRUM

Methods in org.biojavax.ga.functions with parameters of type ChangeType

Modifier and Type	Method and Description
void	MutationFunction.NoMutation.addChangeListener(ChangeListener cl, ChangeType ct)
void	CrossOverFunction.NoCross.addChangeListener(ChangeListener cl, ChangeType ct)
boolean	MutationFunction.NoMutation.isUnchanging(ChangeType ct)
boolean	CrossOverFunction.NoCross.isUnchanging(ChangeType t)
void	MutationFunction.NoMutation.removeChangeListener(ChangeListener cl, ChangeType ct)
void	CrossOverFunction.NoCross.removeChangeListener(ChangeListener cl, ChangeType ct)

Uses of ChangeType in org.biojavax.ontology

Fields in org.biojavax.ontology declared as ChangeType

Modifier and Type	Field and Description
static ChangeType	ComparableTerm.DESCRIPTION
static ChangeType	ComparableOntology.DESCRIPTION
static ChangeType	ComparableTriple.DESCRIPTOR
static ChangeType	ComparableTerm.IDENTIFIER
static ChangeType	ComparableTerm.OBSOLETE
static ChangeType	ComparableTerm.RANKEDCROSSREF
static ChangeType	ComparableOntology.TERM
static ChangeType	ComparableOntology.TRIPLE