Uses of Class
org.biojava.utils.ChangeType
Packages that use ChangeType
Package
Description
The core classes that will be used throughout the bio packages.
Classes to generate and describe sequence alignments.
Probability distributions over Alphabets.
HMM and Dynamic Programming Algorithms.
Graphical displays of biological sequences and associated annotations.
Support classes for Homologene data.
Interfaces and classes for representing sequence similarity search results.
Classes and interfaces for defining biological sequences and informatics
objects.
Collections of biological sequence data.
Sequences and SequenceDBs which are composed from data taken
from a number of data sources.
The classes and interfaces for defining sequence similarity and
honology.
Standard in-memory implementations of
Sequence
and
Feature
.Code for projecting Feature objects and systematically altering their
properties.
Representation of the Symbols that make up a sequence, and locations within
them.
Taxonomy object for representing species information.
A general-purpose API for ontologies.
Miscellaneous utility classes used by other BioJava components.
A simple cache system with pluggable caching behaviours.
The Biojava extensions packages, classes that extend the core biojava
functionality
Classes to represent biological entities and their relationships.
Interactions between biojavax objects and a DB.
Rich implementations of Sequences, Locations and Features.
Objects that model the NCBI taxonomy schema as described in the BioSQL
schema.
Classes to provide a genetic algorithm framework
GA functions
Extensions to the biojava ontology model that represent BioSQL ontology.
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Uses of ChangeType in org.biojava.bio
Fields in org.biojava.bio declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
Annotatable.ANNOTATION
Signals that the associated Annotation has altered in some way.static final ChangeType
MergeAnnotation.ANNOTATION_ADD
ChangeType of ChangeEvent fired before and after an annotation is added to MergeAnnotation.static final ChangeType
MergeAnnotation.ANNOTATION_CHANGED
ChangeType of ChangeEvent fired before and after an annotation is added to MergeAnnotation.static final ChangeType
MergeAnnotation.ANNOTATION_REMOVE
ChangeType of ChangeEvent fired before and after an annotation is added to MergeAnnotation.static final ChangeType
Annotation.PROPERTY
This type symbolizes that one or more properties have changed.Methods in org.biojava.bio with parameters of type ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
MergeAnnotation.getChangeSupport
(ChangeType changeType) protected ChangeSupport
OverlayAnnotation.getChangeSupport
(ChangeType changeType) -
Uses of ChangeType in org.biojava.bio.alignment
Fields in org.biojava.bio.alignment declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
ARAlignment.ADD_LABEL
static final ChangeType
Alignment.CONTENT
Signals that SymbolLists will be added to or removed from an alignment.static final ChangeType
EditableAlignment.GAPS
static final ChangeType
EditableAlignment.LOCATION
static final ChangeType
ARAlignment.REMOVE_LABEL
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Uses of ChangeType in org.biojava.bio.dist
Fields in org.biojava.bio.dist declared as ChangeTypeModifier and TypeFieldDescriptionstatic final 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 final 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 final 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 ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
AbstractDistribution.getChangeSupport
(ChangeType ct) protected ChangeSupport
AbstractOrderNDistribution.getChangeSupport
(ChangeType ct) protected ChangeSupport
TranslatedDistribution.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.bio.dp
Fields in org.biojava.bio.dp declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
EmissionState.ADVANCE
This signals that the advance array has been altered.static final ChangeType
MarkovModel.ARCHITECTURE
Signals that the architecture of the model is changing.static final ChangeType
EmissionState.DISTRIBUTION
This signals that the distribution associate with an EmissionState has been altered.static final ChangeType
MarkovModel.PARAMETER
Signals that one or more parameters have altered.Methods in org.biojava.bio.dp with parameters of type ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
SimpleEmissionState.getChangeSupport
(ChangeType ct) protected ChangeSupport
SimpleMarkovModel.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.bio.gui.sequence
Fields in org.biojava.bio.gui.sequence declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
AbiTraceRenderer.DEPTH
static final ChangeType
AbstractBeadRenderer.DEPTH
ConstantDEPTH
indicating a change to the depth of the renderer.static final ChangeType
TickFeatureRenderer.DEPTH
static final ChangeType
AbstractPeptideDigestRenderer.DIGEST
static final ChangeType
PeptideDigestRenderer.DIGEST
static final ChangeType
AbstractBeadRenderer.DISPLACEMENT
ConstantDISPLACEMENT
indicating a change to the Y-axis displacement of the features.static ChangeType
FeatureBlockSequenceRenderer.FEATURE_COLLAPSING
static ChangeType
FeatureBlockSequenceRenderer.FEATURE_RENDERER
static final ChangeType
AbstractBeadRenderer.FILL
ConstantFILL
indicating a change to the fill of the features.static final ChangeType
BasicFeatureRenderer.FILL
static final ChangeType
TickFeatureRenderer.FILL
static ChangeType
FilteringRenderer.FILTER
static final ChangeType
PairwiseFilteringRenderer.FILTER
ConstantFILTER
indicating a change to the renderer's filter.static final ChangeType
RectangularBeadRenderer.HEIGHTSCALING
ConstantHEIGHTSCALING
indicating a change to the feature height scaling policy.static ChangeType
AlignmentRenderer.LABEL
static final ChangeType
SimpleLabelRenderer.LABEL
static final ChangeType
FeatureLabelRenderer.LABEL_MAKER
static final ChangeType
SequenceRenderContext.LAYOUT
static final ChangeType
OffsetRulerRenderer.OFFSET
static final ChangeType
AbstractBeadRenderer.OUTLINE
ConstantOUTLINE
indicating a change to the outline paint of the features.static final ChangeType
BasicFeatureRenderer.OUTLINE
static final ChangeType
CrosshairRenderer.OUTLINE
ConstantOUTLINE
indicating a change to the crosshair paint.static final ChangeType
PairwiseDiagonalRenderer.OUTLINE
ConstantOUTLINE
indicating a change to the fill of the features.static final ChangeType
TickFeatureRenderer.OUTLINE
static ChangeType
PaddingRenderer.PADDING
Event type for when the size of the padding changes.static final ChangeType
EllipticalBeadRenderer.RATIO
ConstantRATIO
indicating a change to the minimum allowed ratio of long axis to short axis of the features.static ChangeType
FilteringRenderer.RECURSE
static final ChangeType
PairwiseFilteringRenderer.RECURSE
ConstantRECURSE
indicating a change to the renderer's filter recursion flag.static final ChangeType
LabelledSequenceRenderer.RENDERER
static ChangeType
OverlayRendererWrapper.RENDERER
static final ChangeType
PairwiseFilteringRenderer.RENDERER
ConstantRENDERER
indicating a change to the renderer.static final ChangeType
PairwiseSequencePanel.RENDERER
ConstantRENDERER
is aChangeType
which indicates a change to the renderer, requiring a layout update.static final ChangeType
SequencePanel.RENDERER
static final ChangeType
SequencePoster.RENDERER
Deprecated.static ChangeType
SequenceRendererWrapper.RENDERER
static final ChangeType
TranslatedSequencePanel.RENDERER
ConstantRENDERER
is aChangeType
which indicates a change to the renderer, requiring a layout update.static final ChangeType
MultiLineRenderer.RENDERERS
static final ChangeType
PairwiseOverlayRenderer.RENDERERS
ConstantRENDERERS
indicating a change to the renderers handled by the overlay.static final ChangeType
StackedFeatureRenderer.RENDERERS
static final ChangeType
SequenceRenderContext.REPAINT
static final ChangeType
BasicFeatureRenderer.SCOOP
static final ChangeType
BasicFeatureRenderer.SIZE
static final ChangeType
AbstractBeadRenderer.STROKE
ConstantSTROKE
indicating a change to the outline stroke of the features.static final ChangeType
OffsetRulerRenderer.TICKS
static final ChangeType
AbiTraceRenderer.TRACE
static final ChangeType
PairwiseSequencePanel.TRANSLATION
ConstantTRANSLATION
is aChangeType
which indicates a change to the translation, requiring a paint update.static final ChangeType
TranslatedSequencePanel.TRANSLATION
ConstantTRANSLATION
is aChangeType
which indicates a change to the translation, requiring a paint update.static final ChangeType
LabelledSequenceRenderer.VALUES
Methods in org.biojava.bio.gui.sequence with parameters of type ChangeTypeModifier and TypeMethodDescriptionvoid
PairwiseSequencePanel.addChangeListener
(ChangeListener cl, ChangeType ct) addChangeListener
adds a listener for specific types of change.void
SequencePanel.addChangeListener
(ChangeListener cl, ChangeType ct) void
SequencePoster.addChangeListener
(ChangeListener cl, ChangeType ct) Deprecated.void
TranslatedSequencePanel.addChangeListener
(ChangeListener cl, ChangeType ct) addChangeListener
adds a listener for specific types of change.protected ChangeSupport
BumpedRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
FeatureBlockSequenceRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
FilteringRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
MultiLineRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
OverlayRendererWrapper.getChangeSupport
(ChangeType ct) protected ChangeSupport
PaddingRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
PairwiseFilteringRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
PairwiseOverlayRenderer.getChangeSupport
(ChangeType ct) protected ChangeSupport
PairwiseSequencePanel.getChangeSupport
(ChangeType ct) getChangeSupport
lazily instantiates a helper for change listeners.protected ChangeSupport
SequencePanel.getChangeSupport
(ChangeType ct) protected ChangeSupport
SequencePoster.getChangeSupport
(ChangeType ct) Deprecated.protected ChangeSupport
SequenceRendererWrapper.getChangeSupport
(ChangeType ct) protected ChangeSupport
TranslatedSequencePanel.getChangeSupport
(ChangeType ct) getChangeSupport
lazily instantiates a helper for change listeners.boolean
PairwiseSequencePanel.isUnchanging
(ChangeType ct) boolean
SequencePanel.isUnchanging
(ChangeType ct) boolean
SequencePoster.isUnchanging
(ChangeType ct) Deprecated.boolean
TranslatedSequencePanel.isUnchanging
(ChangeType ct) void
PairwiseSequencePanel.removeChangeListener
(ChangeListener cl, ChangeType ct) removeChangeListener
removes a listener.void
SequencePanel.removeChangeListener
(ChangeListener cl, ChangeType ct) void
SequencePoster.removeChangeListener
(ChangeListener cl, ChangeType ct) Deprecated.void
TranslatedSequencePanel.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 ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
OrthologueSet.MODIFY
static final ChangeType
OrthoPairSet.MODIFY
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Uses of ChangeType in org.biojava.bio.search
Methods in org.biojava.bio.search with parameters of type ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
SequenceDBSearchHit.getChangeSupport
(ChangeType ct) Deprecated.protected ChangeSupport
SequenceDBSearchResult.getChangeSupport
(ChangeType ct) Deprecated.protected ChangeSupport
SequenceDBSearchSubHit.getChangeSupport
(ChangeType ct) Deprecated.protected ChangeSupport
SimpleSeqSimilaritySearchHit.getChangeSupport
(ChangeType ct) protected ChangeSupport
SimpleSeqSimilaritySearchResult.getChangeSupport
(ChangeType ct) protected ChangeSupport
SimpleSeqSimilaritySearchSubHit.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.bio.seq
Fields in org.biojava.bio.seq declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
FeatureHolder.FEATURES
Signals that features have been added or removed directly within this FeatureHolder.static final ChangeType
Feature.LOCATION
The location of this feature is being altered.static final ChangeType
FeatureHolder.SCHEMA
Signals that the schema of this FeatureHolder has changed.static final ChangeType
Feature.SOURCE
The source of this feature has alteredstatic final ChangeType
Feature.SOURCETERM
The ontological source of this feature has alteredstatic final ChangeType
StrandedFeature.STRAND
The strand of this feature is being altered.static final ChangeType
Feature.TYPE
The type of this feature has altered.static final ChangeType
Feature.TYPETERM
The ontological type of this feature has altered.Methods in org.biojava.bio.seq with parameters of type ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
FeatureTypes.RepositoryImpl.getChangeSupport
(ChangeType ct) protected ChangeSupport
LazyFeatureHolder.getChangeSupport
(ChangeType ct) protected ChangeSupport
NewSimpleAssembly.getChangeSupport
(ChangeType ct) protected ChangeSupport
SimpleAssembly.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.bio.seq.db
Fields in org.biojava.bio.seq.db declared as ChangeTypeModifier and TypeFieldDescriptionstatic final 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 ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
SequenceDBWrapper.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.bio.seq.distributed
Fields in org.biojava.bio.seq.distributed declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
DistributedSequenceDB.DATASOURCE
static final ChangeType
DistributedSequenceDB.DATASOURCE_SELECTION
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Uses of ChangeType in org.biojava.bio.seq.homol
Fields in org.biojava.bio.seq.homol declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
Homology.ALIGNMENT
Signals that the alignment describing the homologous sequences has changed.static final 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 ChangeTypeModifier and TypeMethodDescriptionfinal void
LazyFilterFeatureHolder.addChangeListener
(ChangeListener cl, ChangeType ct) void
SubSequence.addChangeListener
(ChangeListener cl, ChangeType ct) protected ChangeSupport
SimpleFeature.getChangeSupport
(ChangeType ct) protected ChangeSupport
SimpleSequence.getChangeSupport
(ChangeType ct) boolean
LazyFilterFeatureHolder.isUnchanging
(ChangeType ct) boolean
SubSequence.isUnchanging
(ChangeType ct) final void
LazyFilterFeatureHolder.removeChangeListener
(ChangeListener cl, ChangeType ct) void
SubSequence.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 ChangeTypeModifier and TypeMethodDescriptionvoid
ProjectedFeature.addChangeListener
(ChangeListener cl, ChangeType ct) void
ProjectionContext.addChangeListener
(Feature projFeat, ChangeListener cl, ChangeType ct) Add a ChangeListener to a projected feature.final void
ReparentContext.addChangeListener
(Feature f, ChangeListener cl, ChangeType ct) boolean
ProjectedFeature.isUnchanging
(ChangeType ct) void
ProjectedFeature.removeChangeListener
(ChangeListener cl, ChangeType ct) void
ProjectionContext.removeChangeListener
(Feature projFeat, ChangeListener cl, ChangeType ct) Remove a ChangeListener from a projected feature.final void
ReparentContext.removeChangeListener
(Feature f, ChangeListener cl, ChangeType ct) -
Uses of ChangeType in org.biojava.bio.symbol
Fields in org.biojava.bio.symbol declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
SymbolList.EDIT
Signals that the SymbolList is being edited.static final ChangeType
AlphabetIndex.INDEX
Indicates that the index is changing, probably due to the underlying alphabet changing.static final ChangeType
Alphabet.PARSERS
This signals that the available parsers have changed.static final 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 ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
AbstractSymbol.getChangeSupport
(ChangeType changeType) protected ChangeSupport
SimpleAlphabet.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.bio.taxa
Fields in org.biojava.bio.taxa declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
Taxon.CHANGE_COMMON_NAME
Deprecated.Change type to indicate that the common name of this Taxon is changing.static final 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 ChangeTypeModifier and TypeMethodDescriptionprotected ChangeSupport
AbstractTaxon.getChangeSupport
(ChangeType ct) Deprecated. -
Uses of ChangeType in org.biojava.ontology
Fields in org.biojava.ontology declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
Term.ONTOLOGY
ChangeType which indicates that this term's ontology has been alteredstatic final ChangeType
Ontology.TERM
static final ChangeType
Ontology.TRIPLE
Methods in org.biojava.ontology with parameters of type ChangeTypeModifier and TypeMethodDescriptionAbstractTerm.getChangeSupport
(ChangeType ct) OntologyTerm.Impl.getChangeSupport
(ChangeType ct) -
Uses of ChangeType in org.biojava.utils
Fields in org.biojava.utils declared as ChangeTypeModifier and TypeFieldDescriptionfinal ChangeType
IndexedChangeHub.ListenerMemento.type
static final 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 ChangeTypeModifier and TypeMethodDescriptionChangeEvent.getType()
Find the type of this event.ChangeForwarder.Retyper.getType()
Methods in org.biojava.utils with parameters of type ChangeTypeModifier and TypeMethodDescriptionfinal void
AbstractChangeable.addChangeListener
(ChangeListener cl, ChangeType ct) void
Changeable.addChangeListener
(ChangeListener cl, ChangeType ct) Add a listener that will be informed of changes of a given type.void
ChangeSupport.addChangeListener
(ChangeListener cl, ChangeType ct) Add a listener that will be informed of changes of a given type (and it's subtypes)final void
Unchangeable.addChangeListener
(ChangeListener cl, ChangeType ct) final void
Unchangeable.addForwarder
(ChangeForwarder cf, ChangeType ct) void
ChangeHub.addListener
(Object key, ChangeListener listener, ChangeType ct) add a ChangeListener associated with given key.void
IndexedChangeHub.addListener
(Object key, ChangeListener listener, ChangeType ct) protected ChangeSupport
AbstractChangeable.getChangeSupport
(ChangeType ct) Called to retrieve the ChangeSupport for this object.final Set
Unchangeable.getForwarders
(ChangeType ct) final Set
Unchangeable.getListeners
(ChangeType ct) protected boolean
AbstractChangeable.hasListeners
(ChangeType ct) Discover if we have listeners registered for a particular change type.boolean
ChangeSupport.hasListeners
(ChangeType ct) Return true if we have listeners registered for a particular change type.boolean
ChangeType.isMatchingType
(ChangeType ct) Returntrue
iffct
is equal to this type or any of it's supertypes (including ChangeType.UNKNOWN).final boolean
AbstractChangeable.isUnchanging
(ChangeType ct) boolean
Changeable.isUnchanging
(ChangeType ct) A particular ChangeType can never be raised by this Changeable.boolean
ChangeSupport.isUnchanging
(ChangeType ct) final boolean
Unchangeable.isUnchanging
(ChangeType ct) final void
AbstractChangeable.removeChangeListener
(ChangeListener cl, ChangeType ct) void
Changeable.removeChangeListener
(ChangeListener cl, ChangeType ct) Remove a listener that was interested in a specific types of changes.void
ChangeSupport.removeChangeListener
(ChangeListener cl, ChangeType ct) Remove a listener that was interested in a specific types of changes.final void
Unchangeable.removeChangeListener
(ChangeListener cl, ChangeType ct) final void
Unchangeable.removeForwarder
(ChangeForwarder cf, ChangeType ct) void
ChangeHub.removeListener
(Object key, ChangeListener listener, ChangeType ct) remove a ChangeListener associated with given key.void
IndexedChangeHub.removeListener
(Object key, ChangeListener listener, ChangeType ct) Constructors in org.biojava.utils with parameters of type ChangeTypeModifierConstructorDescriptionChangeEvent
(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.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) ListenerMemento
(ChangeType type, Reference listener) Retyper
(Object source, ChangeSupport changeSupport, ChangeType type) Create a new Retyper for forwarding events. -
Uses of ChangeType in org.biojava.utils.cache
Constructors in org.biojava.utils.cache with parameters of type ChangeType -
Uses of ChangeType in org.biojavax
Fields in org.biojavax declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
Namespace.ACRONYM
static final ChangeType
Namespace.AUTHORITY
static final ChangeType
DocRef.CROSSREF
static final ChangeType
Namespace.DESCRIPTION
static final ChangeType
RankedDocRef.LOCATION
static final ChangeType
Namespace.NAME
static final ChangeType
Comment.RANK
static final ChangeType
Note.RANK
static final ChangeType
RankedCrossRef.RANK
static final ChangeType
RankedDocRef.RANK
static final ChangeType
DocRef.REMARK
static final ChangeType
Note.TERM
static final ChangeType
Namespace.URI
static final ChangeType
Note.VALUE
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Uses of ChangeType in org.biojavax.bio
Fields in org.biojavax.bio declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
BioEntry.COMMENT
static final ChangeType
BioEntry.DESCRIPTION
static final ChangeType
BioEntry.DIVISION
static final ChangeType
BioEntry.IDENTIFIER
static final ChangeType
BioEntryRelationship.RANK
static final ChangeType
BioEntry.RANKEDCROSSREF
static final ChangeType
BioEntry.RANKEDDOCREF
static final ChangeType
BioEntry.RELATIONS
static final ChangeType
BioEntry.SEQVERSION
static final ChangeType
BioEntry.TAXON
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Uses of ChangeType in org.biojavax.bio.db
Fields in org.biojavax.bio.db declared as ChangeTypeModifier and TypeFieldDescriptionstatic final 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 ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
RichLocation.CIRCULAR
static final ChangeType
RichSequence.CIRCULAR
static final ChangeType
RichFeature.CROSSREF
static final ChangeType
RichLocation.FEATURE
static final ChangeType
RichFeature.LOCATION
static final ChangeType
RichFeature.NAME
static final ChangeType
RichLocation.NOTE
static final ChangeType
RichFeature.PARENT
static final ChangeType
RichFeature.RANK
static final ChangeType
RichFeatureRelationship.RANK
static final ChangeType
RichLocation.RANK
static final ChangeType
RichFeature.RELATION
static final ChangeType
RichFeature.SOURCETERM
static final ChangeType
RichSequence.SYMLISTVERSION
static final ChangeType
RichLocation.TERM
static final ChangeType
RichFeature.TYPETERM
Methods in org.biojavax.bio.seq with parameters of type ChangeTypeModifier and TypeMethodDescriptionvoid
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 ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
NCBITaxon.GENETICCODE
static final ChangeType
NCBITaxon.HIDDEN
static final ChangeType
NCBITaxon.LEFTVALUE
static final ChangeType
NCBITaxon.MITOGENETICCODE
static final ChangeType
NCBITaxon.NAMES
static final ChangeType
NCBITaxon.NODERANK
static final ChangeType
NCBITaxon.PARENT
static final ChangeType
NCBITaxon.RIGHTVALUE
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Uses of ChangeType in org.biojavax.ga
Fields in org.biojavax.ga declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
Organism.CHROMOSOMES
static final ChangeType
GeneticAlgorithm.CROSS_OVER_FUNCTION
static final ChangeType
GeneticAlgorithm.FITNESS_FUNCTION
static final ChangeType
GeneticAlgorithm.FUNCTION
static final ChangeType
GeneticAlgorithm.MUTATION_FUNCTION
static final ChangeType
Organism.NAME
static final ChangeType
Population.NAME
static final ChangeType
Population.ORGANISMS
static final ChangeType
GeneticAlgorithm.POPULATION
static final ChangeType
GeneticAlgorithm.SELECTION_FUNCTION
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Uses of ChangeType in org.biojavax.ga.functions
Fields in org.biojavax.ga.functions declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
CrossOverFunction.CROSS_PROB
static final ChangeType
CrossOverFunction.MAX_CROSSES
static final ChangeType
MutationFunction.MUTATION_PROBS
static final ChangeType
MutationFunction.MUTATION_SPECTRUM
Methods in org.biojavax.ga.functions with parameters of type ChangeTypeModifier and TypeMethodDescriptionvoid
CrossOverFunction.NoCross.addChangeListener
(ChangeListener cl, ChangeType ct) void
MutationFunction.NoMutation.addChangeListener
(ChangeListener cl, ChangeType ct) boolean
CrossOverFunction.NoCross.isUnchanging
(ChangeType t) boolean
MutationFunction.NoMutation.isUnchanging
(ChangeType ct) void
CrossOverFunction.NoCross.removeChangeListener
(ChangeListener cl, ChangeType ct) void
MutationFunction.NoMutation.removeChangeListener
(ChangeListener cl, ChangeType ct) -
Uses of ChangeType in org.biojavax.ontology
Fields in org.biojavax.ontology declared as ChangeTypeModifier and TypeFieldDescriptionstatic final ChangeType
ComparableOntology.DESCRIPTION
static final ChangeType
ComparableTerm.DESCRIPTION
static final ChangeType
ComparableTriple.DESCRIPTOR
static final ChangeType
ComparableTerm.IDENTIFIER
static final ChangeType
ComparableTerm.OBSOLETE
static final ChangeType
ComparableTerm.RANKEDCROSSREF
static final ChangeType
ComparableOntology.TERM
static final ChangeType
ComparableOntology.TRIPLE