All Classes
AboutForm
Action
ActionDescriptor
ActionLog
ActionRoot
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ActivityMapping
ActivityMappingImpl
AddCompartments
AddInitUsers
AddKinetic
AddOffsetToSpids
AddReactions
Address
AddXMLPublication
AddXMLUserComment
Admin
AdminTaskRouter
Affiliation
AlgebraicRule
Aliases
AliasesDescriptor
AliasesType
AliasesTypeDescriptor
AllExportableInstanceSource
Annotation
AssembleReaction
AssignmentRule
ASTChemicalVarNode
ASTCompartmentVarNode
ASTSBMLVarNode
ASTSigPathVarNode
Authenticate
BackwardReferences
Base64
Base64.InputStream
Base64.OutputStream
BasePathway
BaseTask
BecomesInfo
BenchmarkStatistics
BindingChemicalImpl
BindingDeclaration
BindingDeclaration
BindingDeclarationDescriptor
BindingDefinition
BindingParameterImpl
BindingSet
BindingTypeModel
BioPolymer
BioPolymerImpl
Border
Change_log
Change_logDescriptor
ChangeDBStatus
ChangeLog
CheckBoxCellEditor
Chemical
ChemicalComparator
ChemicalConverter
ChemicalImpl
ChooseSBMLExportOptionsPage
CLI
Collectable
CollectableImpl
CombiningIterator
ComesFromInfo
CommonUtil
CompactNodesMapping
Compartment
Compartment
Compartment
CompartmentComparator
CompartmentDescriptor
CompartmentModel
CompartmentNameModel
Complex
Complex
ComplexDescriptor
ComplexImpl
Components
ComponentsDescriptor
Concentration_measurement
Concentration_measurementDescriptor
Concentration_measurements
Concentration_measurementsDescriptor
ConcentrationMeasurement
ConcentrationMeasurementImpl
ConcentrationUnitModel
ConcentrationUnitModel
ConnectionForm
CreateAlias
CreateExternalReference
CreateModel
CreatePathway
CreateReaction
CreateReview
CustomKinetic
CustomKineticDescriptor
Databases
DataSource
DBInformation
DBStatusMessager
DBTask
DBWriteAccess
Delay
DeleteAlias
DeleteConcentration
DeleteExternalReference
DeleteModel
Description
DescriptionDescriptor
DescriptionType
DescriptionTypeDescriptor
DescriptionTypeItem
DescriptionTypeItemDescriptor
DisplayJSP
DisplaySchemaTag
DisplaySPSubmission
DNA
EditExternalReference
EditKineticInteractionPage
EditPathwayForm
EditPathwayModel
EditPublicationsPage
EditReaction
EditSigPathEntity
EntityCollectionDataSource
EntityManager
EntitySetPaged
Entries
EntriesDescriptor
Entry
EntryDescriptor
EntryType
EntryTypeDescriptor
EnzymaticAdapter
EnzymaticAdapterImpl
EnzymaticParameters
EnzymaticParametersDescriptor
EnzymaticReaction
EnzymaticReaction
EnzymaticReactionDescriptor
EnzymaticReactionImpl
Enzyme
EnzymeDescriptor
Er
ErDescriptor
ErType
ErTypeDescriptor
Event
EventAssignment
ExcludedReaction
ExcludedReaction
ExcludedReactionComparator
ExcludedReactionDescriptor
ExcludedReactions
ExcludedReactionsDescriptor
ExportJSimModel
ExportModelKK
ExportModifiedEntities
ExportSBMLBySpidWorker
ExportWriter
ExternalReference
ExternalReference
ExternalReferenceDescriptor
ExternalReferences
ExternalReferences
ExternalReferencesDescriptor
ExternalReferencesImpl
ExternalReferencesType
ExternalReferencesTypeDescriptor
Filter
FilteringIterator
FilterKinetics
FilterUnitType
FixEnzLitRefs
FOJdoExtension
Formula
Formula
FormulaDescriptor
FTSManagerMeasurements
FullTextIndexer
FullTextSearchIndexer
FullTextSearchManager
FunctionDefinition
GenericViewChangeLog
GenericViewExternalReference
GenericViewExternalReferences
GenericViewLiteratureReference
GenericViewLiteratureReferences
GenericViewParameter
GenericViewReaction
GenericViewSigPathEntity
GenericViewUserComment
GenewaysSBMLImport
GetAllPendingReviews
GetConcentration
GetModel
GetPendingReview
GetSpidRange
GlobalForwards
GraphicsModel
GraphicsView
GraphicsViewController
GraphTechnology
HashKey
Help
HttpLinksEnhancer
IdentifierGenerator
IdentifierGeneratorImpl
IdRefPostProcessingAction
ImportModifiedEntities
InContactWith
InContactWithDescriptor
Interaction
InteractionImpl
InteractionRef
InteractionRefDescriptor
InteractionSites
InteractionSitesImpl
InternalLinks
InternalLinksDescriptor
InvolvedInReaction
InvolvedInReactionDescriptor
ISpEntitySelectionListener
ITSearchTask
JdoExtension
JdoFullTextSearchManager
JDOResultCollection
JDOResultIterator
JDORICreateDataStore
JSimWriter
KBackward
KBackwardDescriptor
KBKP
KBKPDescriptor
Keyword
KeywordInvertedIndex
KForward
KForwardDescriptor
Kinetic
Kinetic
KineticBindings
KineticBindingsDescriptor
KineticCustom
KineticDescriptor
KineticInteraction
KineticInteractionImpl
KineticLaw
KineticMassAction
KineticMichaelisMenten
KineticNamesModel
KineticRef
KineticRefDescriptor
KineticReference
Kinetics
KineticsDescriptor
KineticTypeType
KineticTypeTypeDescriptor
KMichaelis
KMichaelisDescriptor
KODOJdoExtension
Kp
KpDescriptor
LargeSetOfKeyword
LargeSetOfObject
LargeSetOfSigPathEntity
Left
LeftDescriptor
ListOfCompartments
ListOfEventAssignments
ListOfEvents
ListOfFunctionDefinitions
ListOfModifiers
ListOfModifierSpeciesReferences
ListOfParameters
ListOfProducts
ListOfReactants
ListOfReactions
ListOfRules
ListOfRulesItem
ListOfSpecies
ListOfSpeciesReferences
ListOfUnitDefinitions
ListOfUnits
LiteratureReference
LiteratureReferenceImpl
LiteratureReferenceImplNonJdo
LiteratureReferences
LiteratureReferencesImpl
LocalConcentration
Location
LocationDescriptor
Login
Login
LoginForm
LoginInfo
LoginModel
LongTermTask
LuceneFullTextSearchManager
MacroMolecule
MainViewController
MappingStrategy
MathField
Model
Model
Model
Model
Model_Chemical
Model_Compartment
Model_LocalConcentration
ModelCompartments
ModelCompartmentsDescriptor
ModelConcentration
ModelConcentrationDescriptor
ModelDescriptor
ModelHomePage
ModelReaction
ModelReactionComparator
ModelReactionDescriptor
ModelReactionsModel
ModelValidated
ModificationInfo
ModifiedChemical
ModifiedChemicalDescriptor
ModifiedEntityList
Modifiers
ModifiersDescriptor
ModifierSpeciesReference
Molecule
Molecule
MoleculeComparator
MoleculeConcentration
MoleculeConcentrationDescriptor
MoleculeDescriptor
MoleculeDisplay
MoleculeDisplayImpl
MoleculeExcluded
MoleculeExcludedDescriptor
MoleculeRef
MoleculeRefComparator
MoleculesModel
MoleculeTypeModel
NamedChemical
NamedChemical
NamedChemicalDescriptor
NamedChemicalInteraction
NamedChemicalInteraction
NamedChemicalInteractionDescriptor
NamedChemicalInteractions
NamedChemicalInteractionsDescriptor
NamedChemicalRef
NamedChemicalRefDescriptor
NamedChemicals
NamedChemicalsDescriptor
NamedObject
NamingManager
NavigatorCellRenderer
NavigatorConstants
NavigatorDialogs
NavigatorEditMode
NavigatorEntityManager
NavigatorFactoryImpl
NavigatorFileFilter
NavigatorFrame
NavigatorMainFrame
NavigatorMemoryManager
NavigatorMisc
NavigatorPopupMode
NavigatorService
NavigatorServiceImpl
NavigatorTreeNode
NavigatorXMLExport
NavigatorXMLImport
NextPrevious
NilMapping
NodeManager
Notes
NumberFormat
OnLeft
OnLeftDescriptor
OnRight
OnRightDescriptor
OracleFullTextSearchManager
Organism
Organism
Organism
OrganismDescriptor
OrganismDescriptor
OrganismImpl
OrganismModel
OrganismType
OrganismTypeDescriptor
OutputField
PagedCollection
PagedList
PageHeader
PageManager
Parameter
Parameter
Parameter
ParameterBinding
ParameterBindingDescriptor
ParameterDescriptor
ParameterImpl
Parameters
ParametersBindingsDeclaration
ParametersBindingsDeclarationDescriptor
ParametersDescriptor
Pathway
Pathway
PathwayDescriptor
PathwayReaction
PathwayReactionDescriptor
Pending_item
Pending_itemDescriptor
Pending_list
Pending_listDescriptor
Pending_reviews
Pending_reviewsDescriptor
PendingItem
PendingItemImpl
PendingList
PendingListImpl
PLong
PopulateUserData
PopupLinkRenderer
PopupPageLink
Predicate
PreviousVersion
PreviousVersionDescriptor
ProgressBar
ProgressListener
PropertiesTableModel
PropertyManager
Protein
Protein
ProteinDescriptor
ProteinImpl
ProteinImport
Proteins
ProteinsDescriptor
PublicationCallback
Publications
PublicationsDescriptor
PubMed
PubMedInfo
PubMedInfoImpl
PubMedTag
PureJdoExtension
Query
QueryManager
RateRule
Reaction
Reaction
Reaction
ReactionAdapter
ReactionAdapterImpl
ReactionDescriptor
ReactionImpl
ReactionRender
ReactionTypeModel
ReactionTyper
ReactionUtil
ReadOnlyIterator
Ref
RefDescriptor
ReferencesTableModel
ResidueRange
ResidueRangeImpl
RetrieveChemical
Review
Review
ReviewDescriptor
Reviews
ReviewsDescriptor
Right
RightDescriptor
RNA
Rule
SampleReviewData
SaveConcentration
SaveEditAlias
SaveEditReaction
SaveUpdatedReaction
SaveXML
SBase
Sbml
SBMLCompartment
SBMLEntity
SBMLEntityComparator
SBMLL1V1Writer
SBMLL1V2Writer
SBMLL2Writer
SBMLReaction
SBMLReactionComparator
SBMLSpecies
SBMLSpeciesSubstituteVisitor
SBMLWriter
SchemaTag
Search
SearchChemicals
SearchModels
SearchMolecules
SearchPathways
SearchReactions
SearchResultsSetPaged
Secure
SecureAdmin
SecureAdminDisplayJSP
SecureDBWriteDisplayJSP
SecureDisplayJSP
SelectInteractionType
SelectMolecule
SetupConcentration
SigPathAnalyzer
SigPathBindingFactory
SigPathCastor
SigPathCastorImpl
SigPathConstants
SigPathDatabaseException
SigPathEntity
SigPathEntityBean
SigPathEntityBeanComparator
SigPathEntityComparator
SigPathEntityImpl
SigPathEntitySummary
SigPathEntityTableRow
SigPathFactory
SigPathFactoryImpl
SigPathHomeService
SigpathJep
SigPathKineticException
SigPathManager
SigPathMultipartDecoder
SigPathNavigator
SigpathNodeFactory
SigPathNodesGeneratorVisitor
SigPathServlet
SigpathSubmission
SigpathSubmissionDescriptor
SigPathSubmissionDifferenceListener
SigPathSubstitutionVisitor
SigPathTimer
SigPathTokenizer
SimpleSpeciesReference
SimpleSPIDManager
SmallMolecule
SmallMolecule
SmallMoleculeDescriptor
SmallMoleculeImpl
SmallMoleculeImport
SmallMoleculeImporter
SmallMolecules
SmallMoleculesDescriptor
SnoopHTTP
Source
SourceDescriptor
SPDBManager
Species
SpeciesBinding
SpeciesBindingDescriptor
SpeciesBindingsDeclaration
SpeciesBindingsDeclarationDescriptor
SpeciesReference
SpecifyAffiliation
SpecifyAlias
SpecifyConcentration
SpecifyDBStatus
SpecifyDescription
SpecifyExternalReference
SpecifyModel
SpecifyModelImage
SpecifyModelSearch
SpecifyModifiedEntity
SpecifyMoleculeSearch
SpecifyPagedResults
SpecifyPathway
SpecifyPendingReview
SpecifyPendingReview
SpecifyReactionParameters
SpecifyReactions
SpecifyReactionsByDate
SpecifyReactionsByKeyword
SpecifyReactionsByUser
SpecifyReactionSearch
SpecifyReactionsForm
SpecifySigPathEntity
SpecifyUserData
SpecifyXMLFile
SpEntityList
SpEntitySelection
SpidChooser
SpidCollectionDataSource
SPIDManager
SpidManagerDelegate
SpidManagerDelegateWebService
SPIDManagerImpl
SpidManagerWithSpidRanges
SpidRange
SpidSelectionForm
StandaloneDataSource
StartupConnectionForm
StoichiometryMath
StoreAffiliation
StoreConcentration
StoreNextPage
StoreReaction
StoreReactionParameters
StoreUserData
StringFormatting
SubmissionErrorsTableModel
SubmissionTableModel
SubmitNamedChemicalPage
Substance
SubstanceDescriptor
SubstanceType
SubstanceTypeDescriptor
SwingWorker
SwitchDB
SymbolBinding
TAddAlias
TAddChemicals
TAddConcentration
TAddModel
TAddPathway
TAddReactions
TargetUnit
TargetUnitDescriptor
Task
TaskBySpidWorker
TCheckDBAlive
TCheckDeletePermission
TConfirmComponent
TConfirmEnzymatic
TConfirmReactions
TConvertChemical
TConvertSPIDsToBIDs
TConvertVMaxToKp
TCoreTasks
TCoreTasks
TCoreValidate
TCreateExternalReference
TCreateNewPendingList
TDeleteAlias
TDeleteExternalReference
TEditAlias
TEditExternalReference
TEditSigPathEntity
TempReaction
TempReactionComparator
TExportBase
TExportBase
TExportChangeLog
TExportChangeLog
TExportChemical
TExportComplex
TExportComplex
TExportComponents
TExportConcentrationMeasurement
TExportConcentrationMeasurement
TExportEnzymaticReaction
TExportEnzymaticReaction
TExportKinetic
TExportKinetic
TExportKineticCustom
TExportKineticCustom
TExportLiteratureReference
TExportLiteratureReference
TExportLiteratureReferences
TExportLiteratureReferences
TExportModel
TExportModel
TExportModel
TExportModelKK
TExportModelReactionsFromSpids
TExportModels
TExportModifiedChemical
TExportModifiedChemical
TExportModifiedEntities
TExportNamedChemical
TExportNamedChemical
TExportNamedChemicalInteraction
TExportNamedChemicalInteraction
TExportOrganism
TExportOrganism
TExportPathway
TExportPathway
TExportPendingList
TExportPendingList
TExportPendingReviews
TExportProtein
TExportProtein
TExportReaction
TExportReaction
TExportReferences
TExportSmallMolecule
TExportSmallMolecule
TExportStandaloneModel
TExportUserComment
TExportUserComment
TGetAllPendingLists
TGetChemical
TGetConcentrations
TGetConcentrationsByReaction
TGetDBInfo
TGetFilteredUnitsNames
TGetKineticNames
TGetModel
TGetMoleculesFromReactions
TGetOrganismNames
TGetPathway
TGetPendingList
TGetRemoteSpidRange
TGetSigPathEntity
TGetSpidByDbAc
TGetSpidRange
TGetUsers
TGetWebServiceSpidRange
TGetXMLBindingsFromKinetic
TGetXMLKinetic
TImportBase
TImportModifiedEntities
TIndexModifiedChemicals
TissueAdapter
TLinkComponentsToReactions
TMarkSpidRange
TOrganismOptimizer
TPopulateBackwardReferences
TPopulateSigPathEntitySummary
TransactionManager
TransientParameter
TreeNodeModel
TreeViewController
TRemoveConcentration
TRemoveSigPathEntity
Trigger
TSaveBase
TSaveChange_log
TSaveComplex
TSaveComponent
TSaveConcentrationMeasurement
TSaveConcMeasurements
TSaveCustomKinetic
TSaveEnzymatic
TSaveEnzymaticReaction
TSaveKinetic
TSaveKineticInteractions
TSaveKinetics
TSaveModel
TSaveModels
TSaveModifiedChemical
TSaveNamedChemical
TSaveNamedChemicalInteraction
TSaveNamedChemicalInteractions
TSaveNamedChemicals
TSaveOrganism
TSavePathway
TSavePathways
TSavePending_list
TSavePendingReviews
TSaveProtein
TSaveProteins
TSaveReaction
TSaveReactions
TSaveRef
TSaveSmallMolecule
TSaveSmallMolecules
TSaveToDeleteLog
TSaveUserComment
TSBMLModelExport
TScanEnzReactionsAndReactions
TSearchMolecules
TSearchReactions
TSearchReactionsByKeyword
TSearchReactionsByPMID
TSearchReactionsByUser
TSearchTask
TUpdatePendingList
TUpdateReactions
TUpdateSpidRange
TurnXDebugOn_Off
TValidateComponent
TValidateConcMeasurements
TValidateEnzymatic
TValidateKineticInteractions
TValidateKinetics
TValidateModelCompartments
TValidateModelConcentrations
TValidateModelExcludedReactions
TValidateModelReactions
TValidateModels
TValidateNamedChemicalInteractions
TValidateNamedChemicals
TValidatePathways
TValidatePendingReviews
TValidateProteins
TValidateReactions
TValidateSmallMolecules
TValidateSPE
TViewImage
TViewImageNone
TViewImageYFiles
TypeType
TypeTypeDescriptor
UIConstants
UIHelper
Unit
Unit
UnitCoefficients
UnitDefinition
UnitKind
UnitManager
UnitModel
Units
UnitType
UnitTypeDescriptor
UpdateAffiliation
UpdateAffiliation
UpdateReactionParameters
UpdateUserData
UpdateUserData
UploadXML
URLEntry
User
UserComment
UserComment
UserCommentCallback
UserCommentDescriptor
UserCommentFormPage
UserComments
UserCommentsDescriptor
UserManager
UserNameModel
ValidatedPage
ValidationErrors
ValidationErrors.codes
VerboseReactionNodesMapping
ViewAllEntitiesPage
ViewCompartment
ViewDBInfo
ViewDetails
ViewEditTable
ViewEditUserComments
ViewExcludedReactions
ViewKineticInteractionPage
ViewMiscInformation
ViewModelCompartments
ViewModelImage
ViewModelImageAsset
ViewModelImageNone
ViewModelImagePage
ViewModelImageService
ViewModelImageYFiles
ViewModelReactions
ViewNamedChemicalImageYFiles
ViewNamedChemicalInteractionPage
ViewPathwayPage
ViewSPEBaseInfo
ViewUnknownTypePage
ViewUserPage
ViewUsersPage
ViewXML
ViewXML
Visit
VMax
VMax_EnzymeConcentration
VMax_EnzymeConcentrationDescriptor
VMaxDescriptor
VolumeUnitModel
WizcodeTypeConverter
WizcodeTypeConverter
WizcodeTypeConverter
WorkerRoot
XDebug
XDebugMessage
XDebugParameter
XMLExcludedReactionFacade
XMLExport
XMLExportBySpidWorker
XMLExportWorker
XMLImport
XMLImportWorker
XMLModelCompartmentFacade
XMLModelConcentrationFacade
XMLModelFacade
XMLMoleculeComparator
XMLSubmissionSorter
XMLValidator
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