Hierarchy For All Packages

Package Hierarchies:

• org.intermine,
• org.intermine.api,
• org.intermine.api.bag,
• org.intermine.api.bag.operations,
• org.intermine.api.beans,
• org.intermine.api.config,
• org.intermine.api.data,
• org.intermine.api.idresolution,
• org.intermine.api.mines,
• org.intermine.api.profile,
• org.intermine.api.query,
• org.intermine.api.query.codegen,
• org.intermine.api.query.range,
• org.intermine.api.results,
• org.intermine.api.results.flatouterjoins,
• org.intermine.api.search,
• org.intermine.api.searchengine,
• org.intermine.api.searchengine.solr,
• org.intermine.api.tag,
• org.intermine.api.template,
• org.intermine.api.tracker,
• org.intermine.api.tracker.factory,
• org.intermine.api.tracker.track,
• org.intermine.api.tracker.util,
• org.intermine.api.tracker.xml,
• org.intermine.api.types,
• org.intermine.api.userprofile,
• org.intermine.api.util,
• org.intermine.api.xml,
• org.intermine.codegen,
• org.intermine.dataconversion,
• org.intermine.dataloader,
• org.intermine.dwr,
• org.intermine.metadata,
• org.intermine.model,
• org.intermine.model.fulldata,
• org.intermine.modelproduction,
• org.intermine.objectstore,
• org.intermine.objectstore.fastcollections,
• org.intermine.objectstore.intermine,
• org.intermine.objectstore.proxy,
• org.intermine.objectstore.query,
• org.intermine.objectstore.query.iql,
• org.intermine.objectstore.querygen,
• org.intermine.objectstore.safe,
• org.intermine.objectstore.translating,
• org.intermine.pathquery,
• org.intermine.postprocess,
• org.intermine.sql,
• org.intermine.sql.logging,
• org.intermine.sql.precompute,
• org.intermine.sql.query,
• org.intermine.sql.writebatch,
• org.intermine.task,
• org.intermine.template,
• org.intermine.template.xml,
• org.intermine.util,
• org.intermine.web.autocompletion,
• org.intermine.web.commandline,
• org.intermine.web.context,
• org.intermine.web.displayer,
• org.intermine.web.fair,
• org.intermine.web.filters,
• org.intermine.web.logic,
• org.intermine.web.logic.aspects,
• org.intermine.web.logic.bag,
• org.intermine.web.logic.config,
• org.intermine.web.logic.export,
• org.intermine.web.logic.export.http,
• org.intermine.web.logic.export.rowformatters,
• org.intermine.web.logic.export.string,
• org.intermine.web.logic.login,
• org.intermine.web.logic.pathqueryresult,
• org.intermine.web.logic.profile,
• org.intermine.web.logic.query,
• org.intermine.web.logic.querybuilder,
• org.intermine.web.logic.results,
• org.intermine.web.logic.session,
• org.intermine.web.logic.template,
• org.intermine.web.logic.widget,
• org.intermine.web.logic.widget.config,
• org.intermine.web.registry.model,
• org.intermine.web.search,
• org.intermine.web.security,
• org.intermine.web.struts,
• org.intermine.web.struts.oauth2,
• org.intermine.web.tags.disclosure,
• org.intermine.web.tags.table,
• org.intermine.web.tags.util,
• org.intermine.web.task,
• org.intermine.web.uri,
• org.intermine.web.util,
• org.intermine.webservice.server,
• org.intermine.webservice.server.bg,
• org.intermine.webservice.server.branding,
• org.intermine.webservice.server.clob,
• org.intermine.webservice.server.core,
• org.intermine.webservice.server.data,
• org.intermine.webservice.server.exceptions,
• org.intermine.webservice.server.fair,
• org.intermine.webservice.server.filter,
• org.intermine.webservice.server.idresolution,
• org.intermine.webservice.server.jbrowse,
• org.intermine.webservice.server.jbrowse.util,
• org.intermine.webservice.server.lists,
• org.intermine.webservice.server.model,
• org.intermine.webservice.server.oauth2,
• org.intermine.webservice.server.output,
• org.intermine.webservice.server.path,
• org.intermine.webservice.server.query,
• org.intermine.webservice.server.query.result,
• org.intermine.webservice.server.search,
• org.intermine.webservice.server.template,
• org.intermine.webservice.server.template.result,
• org.intermine.webservice.server.user,
• org.intermine.webservice.server.webproperties,
• org.intermine.webservice.server.widget,
• org.intermine.xml,
• org.intermine.xml.full

Class Hierarchy

• java.lang.Object
  • java.util.AbstractCollection<E> (implements java.util.Collection<E>)
    • java.util.AbstractList<E> (implements java.util.List<E>)
      • java.util.ArrayList<E> (implements java.lang.Cloneable, java.util.List<E>, java.util.RandomAccess, java.io.Serializable)
        • org.intermine.util.CacheHoldingArrayList<E>
        • org.intermine.api.results.flatouterjoins.MultiRow<E>
        • org.intermine.objectstore.query.ResultsRow<E>
      • org.intermine.objectstore.query.Results (implements org.intermine.objectstore.proxy.LazyCollection<E>)
        • org.intermine.objectstore.query.SingletonResults (implements java.util.Collection<E>, java.util.Set<E>)
      • org.intermine.api.results.flatouterjoins.ResultsFlatOuterJoinsImpl
      • org.intermine.api.results.WebResults (implements org.intermine.api.results.WebTable)
    • java.util.AbstractSet<E> (implements java.util.Set<E>)
      • org.intermine.util.ConsistentSet<E>
      • org.intermine.objectstore.proxy.ProxyCollection<E> (implements org.intermine.objectstore.proxy.LazyCollection<E>)
  • org.intermine.sql.query.AbstractConstraint (implements org.intermine.sql.query.SQLStringable)
    • org.intermine.sql.query.Constraint
    • org.intermine.sql.query.ConstraintSet
    • org.intermine.sql.query.InListConstraint
    • org.intermine.sql.query.NotConstraint
    • org.intermine.sql.query.SubQueryConstraint
  • org.intermine.api.query.range.AbstractHelper (implements org.intermine.api.query.RangeHelper)
  • java.util.AbstractMap<K,V> (implements java.util.Map<K,V>)
    • org.intermine.api.util.DevNullMap<K,V>
    • java.util.HashMap<K,V> (implements java.lang.Cloneable, java.util.Map<K,V>, java.io.Serializable)
      • java.util.LinkedHashMap<K,V> (implements java.util.Map<K,V>)
        • org.intermine.api.util.LimitedMap<K,V>
        • org.intermine.web.logic.SortableMap<K,V>
      • org.intermine.metadata.Model.ModelAST
    • org.intermine.api.profile.UserPreferences
  • org.intermine.sql.query.AbstractTable (implements org.intermine.sql.query.SQLStringable)
    • org.intermine.sql.query.SubQuery
    • org.intermine.sql.query.Table
  • org.intermine.api.tracker.AbstractTracker (implements org.intermine.api.tracker.Tracker)
    • org.intermine.api.tracker.KeySearchTracker
    • org.intermine.api.tracker.ListTracker
    • org.intermine.api.tracker.LoginTracker
    • org.intermine.api.tracker.QueryTracker
    • org.intermine.api.tracker.TemplateTracker
  • org.intermine.sql.query.AbstractValue (implements org.intermine.sql.query.SQLStringable)
    • org.intermine.sql.query.Constant
    • org.intermine.sql.query.Field
    • org.intermine.sql.query.Function
    • org.intermine.sql.query.OrderDescending
  • org.apache.struts.action.Action
    • org.intermine.web.struts.BagDetailsAction
    • org.apache.struts.actions.BaseAction
      • org.apache.struts.actions.DispatchAction
        • org.intermine.web.struts.InterMineDispatchAction
          • org.intermine.web.struts.ChangeTableAction
          • org.intermine.web.struts.LoadQueryAction
          • org.intermine.web.struts.ModifyQueryChangeAction
          • org.intermine.web.struts.UserTemplateAction
        • org.intermine.web.struts.LoadTemplateAction
        • org.apache.struts.actions.LookupDispatchAction
          • org.intermine.web.struts.InterMineLookupDispatchAction
        • org.intermine.web.struts.ModifyDetails
        • org.intermine.web.struts.QueryBuilderChange
        • org.intermine.web.struts.QueryBuilderViewChange
        • org.intermine.web.struts.TreeAction
    • org.intermine.web.struts.CollectionDetailsAction
    • org.intermine.web.struts.CollectionTableAction
    • org.intermine.web.struts.GetAttributeAsFileAction
    • org.intermine.web.struts.InterMineAction
      • org.intermine.web.struts.AddColumnAction
      • org.intermine.web.struts.AddToBagAction
      • org.intermine.web.struts.oauth2.Authenticator
      • org.intermine.web.struts.AvailableColumnsController
      • org.intermine.web.struts.BagUpgradeAction
      • org.intermine.web.struts.BagUploadConfirmAction
      • org.intermine.web.struts.BeginAction
      • org.intermine.web.struts.BuildBagAction
      • org.intermine.web.struts.ChangePasswordAction
      • org.intermine.web.struts.ChangeTableSizeAction
      • org.intermine.web.struts.ContactAction
      • org.intermine.web.struts.CreateTemplateAction
      • org.intermine.web.struts.CurrentQueryAction
      • org.intermine.web.struts.EditPropertiesAction
      • org.intermine.web.struts.EditTemplateAction
      • org.intermine.web.struts.ExportQueryAction
      • org.intermine.web.struts.ExportTagsAction
      • org.intermine.web.struts.FileDownloadAction
      • org.intermine.web.struts.FindInListAction
      • org.intermine.web.struts.GotoWebSearchableAction
      • org.intermine.web.struts.HeartbeatAction
      • org.intermine.web.struts.ImportQueriesAction
      • org.intermine.web.struts.ImportTagsAction
      • org.intermine.web.struts.InvitationAction
      • org.intermine.web.struts.LabelsSummaryAction
      • org.intermine.web.logic.profile.LoginHandler
        • org.intermine.web.struts.oauth2.Callback
        • org.intermine.web.struts.CreateAccountAction
        • org.intermine.web.struts.LoginAction
        • org.intermine.web.struts.PasswordResetAction
      • org.intermine.web.struts.LogoutAction
      • org.intermine.web.struts.ModifyBagAction
      • org.intermine.web.struts.ModifyBagDetailsAction
      • org.intermine.web.struts.ModifyQueryAction
      • org.intermine.web.struts.ModifySuperUserAction
      • org.intermine.web.struts.ModifyTemplateAction
      • org.intermine.web.struts.PollQueryAction
      • org.intermine.web.struts.PortalQueryAction
      • org.intermine.web.struts.QueryBuilderConstraintAction
      • org.intermine.web.struts.QueryBuilderViewAction
      • org.intermine.web.struts.QueryClassSelectAction
      • org.intermine.web.struts.ReportController
      • org.intermine.web.struts.RequestPasswordAction
      • org.intermine.web.struts.ResultsAction
      • org.intermine.web.struts.RunQueryAction
      • org.intermine.web.struts.SaveBagAction
      • org.intermine.web.struts.SaveFromIdsToBagAction
      • org.intermine.web.struts.SaveQueryAction
      • org.intermine.web.struts.SummariseTemplatesAction
      • org.intermine.web.struts.TableExportAction
      • org.intermine.web.struts.TemplateAction
        • org.intermine.web.struts.TemplatesExportAction
      • org.intermine.web.struts.TemplatesImportAction
      • org.intermine.web.struts.TriageBagAction
      • org.intermine.web.struts.WebserviceCodeGenAction
    • org.apache.struts.tiles.actions.TilesAction
      • org.intermine.web.struts.ApiJavaController
      • org.intermine.web.struts.ApiPerlController
      • org.intermine.web.struts.AspectController
      • org.intermine.web.struts.BagBuildController
      • org.intermine.web.struts.BagDetailsController
      • org.intermine.web.struts.BagUploadConfirmController
      • org.intermine.web.struts.BagUploadConfirmIssueController
      • org.intermine.web.struts.ClassChooserController
      • org.intermine.web.struts.ConvertBagController
      • org.intermine.web.struts.CountTableController
      • org.intermine.web.struts.ErrorMessagesController
      • org.intermine.web.struts.ExportController
      • org.intermine.web.struts.ExportOptionsController
      • org.intermine.web.struts.FavouritesController
      • org.intermine.web.struts.HtmlHeadController
      • org.intermine.web.struts.InlineTagEditorController
      • org.intermine.web.struts.KeywordSearchResultsController
      • org.intermine.web.struts.ListTagsController
      • org.intermine.web.struts.LoginController
      • org.intermine.web.struts.MyMineController
      • org.intermine.web.struts.ObjectTrailController
      • org.intermine.web.struts.ObjectViewController
      • org.intermine.web.struts.PasswordResetController
      • org.intermine.web.struts.QueryBuilderConstraintController
      • org.intermine.web.struts.QueryBuilderController
      • org.intermine.web.struts.QueryBuilderSummaryController
      • org.intermine.web.struts.ReportAspectController
      • org.intermine.web.struts.ReportDisplayerController
      • org.intermine.web.struts.ReportInListController
      • org.intermine.web.struts.ReportTemplateController
      • org.intermine.web.struts.SharingBagUsersController
      • org.intermine.web.struts.SubMenuController
      • org.intermine.web.struts.TableController
      • org.intermine.web.struts.TemplateController
      • org.intermine.web.struts.TemplateListController
      • org.intermine.web.struts.TemplateProblemsController
      • org.intermine.web.struts.TemplatesController
      • org.intermine.web.struts.TreeController
      • org.intermine.web.struts.UsersController
      • org.intermine.web.struts.WebSearchableListController
  • org.apache.struts.action.ActionForm (implements java.io.Serializable)
    • org.intermine.web.struts.BagUploadConfirmForm
    • org.intermine.web.struts.BuildBagForm
    • org.intermine.web.struts.ChangePasswordForm
    • org.intermine.web.struts.ChangeTableSizeForm
    • org.intermine.web.struts.CreateAccountForm
    • org.intermine.web.struts.EditPropertiesForm
    • org.intermine.web.struts.EnrichmentWidgetForm
    • org.intermine.web.struts.FindInListForm
    • org.intermine.web.struts.ImportTagsForm
    • org.intermine.web.struts.InvitationForm
    • org.intermine.web.struts.LoginForm
    • org.intermine.web.struts.ModifyBagDetailsForm
    • org.intermine.web.struts.ModifyBagForm
      • org.intermine.web.struts.TriageBagForm
    • org.intermine.web.struts.ModifyQueryForm
    • org.intermine.web.struts.ModifySuperUserForm
    • org.intermine.web.struts.ModifyTemplateForm
    • org.intermine.web.struts.PasswordResetForm
    • org.intermine.web.struts.QueryBuilderConstraintForm
    • org.intermine.web.struts.QueryClassSelectForm
    • org.intermine.web.struts.QueryForm
    • org.intermine.web.struts.RequestPasswordForm
    • org.intermine.web.struts.SaveBagForm
    • org.intermine.web.struts.SaveQueryForm
    • org.intermine.web.struts.TableExportForm
      • org.intermine.web.struts.CSVExportForm
    • org.intermine.web.struts.TemplateForm
    • org.intermine.web.struts.TemplateSettingsForm
    • org.apache.struts.validator.ValidatorForm (implements java.io.Serializable)
      • org.intermine.web.struts.ContactForm
      • org.intermine.web.struts.ImportXMLForm
        • org.intermine.web.struts.ImportQueriesForm
        • org.intermine.web.struts.TemplatesImportForm
    • org.intermine.web.struts.WidgetForm
  • org.intermine.api.bag.AdditionalConverter
  • org.intermine.dwr.AjaxServices
  • org.intermine.util.AlwaysMap<K,V> (implements java.util.Map<K,V>)
  • org.intermine.web.logic.aspects.Aspect
  • org.intermine.web.logic.aspects.AspectBinding
  • org.intermine.web.logic.aspects.AspectSource
  • org.intermine.api.tag.AspectTagUtil
  • org.intermine.model.fulldata.Attribute (implements org.intermine.model.FastPathObject)
  • org.intermine.xml.full.Attribute
  • org.intermine.web.util.AttributeLinkURL
  • org.intermine.web.autocompletion.AutoCompleter
  • org.intermine.web.logic.bag.BagConversionHelper
  • org.intermine.web.logic.bag.BagConverter
  • org.intermine.web.logic.bag.BagHelper
  • org.intermine.api.bag.BagManager
  • org.intermine.api.bag.BagManager.ByTagOrder (implements java.util.Comparator<T>)
  • org.intermine.api.bag.BagManager.CaseInsensitiveComparator (implements java.util.Comparator<T>)
  • org.intermine.api.bag.operations.BagOperation (implements org.intermine.api.bag.operations.BagProducer)
    • org.intermine.api.bag.operations.Intersection
    • org.intermine.api.bag.operations.RelativeComplement
    • org.intermine.api.bag.operations.SymmetricDifference
    • org.intermine.api.bag.operations.Union
  • org.intermine.api.bag.BagOperations
  • org.intermine.api.bag.BagQuery
  • org.intermine.api.bag.BagQueryConfig
  • org.intermine.api.bag.BagQueryHelper
  • org.intermine.api.bag.BagQueryResult
  • org.intermine.api.bag.BagQueryResult.IssueResult
  • org.intermine.api.bag.BagQueryRunner
  • org.intermine.api.bag.BagQueryUpgrade
  • org.intermine.webservice.server.idresolution.BagResultCategoryKeyFormatter (implements org.intermine.webservice.server.idresolution.BagResultFormatter)
  • org.intermine.webservice.server.idresolution.BagResultOutputKeyFormatter (implements org.intermine.webservice.server.idresolution.BagResultFormatter)
  • org.intermine.api.profile.BagSet
  • org.intermine.api.profile.BagValue
  • org.intermine.web.security.Base64PublicKeyDecoder (implements org.intermine.web.security.KeyDecoder)
  • org.intermine.dataloader.BaseEquivalentObjectFetcher (implements org.intermine.dataloader.EquivalentObjectFetcher)
    • org.intermine.dataloader.HintingFetcher
      • org.intermine.dataloader.BatchingFetcher
        • org.intermine.dataloader.ParallelBatchingFetcher
  • org.intermine.sql.writebatch.Batch
  • org.intermine.sql.writebatch.BatchWriterSimpleImpl (implements org.intermine.sql.writebatch.BatchWriter)
    • org.intermine.sql.writebatch.BatchWriterPreparedStatementImpl
      • org.intermine.sql.writebatch.BatchWriterPostgresCopyImpl
  • org.intermine.sql.precompute.BestQuery
    • org.intermine.sql.precompute.BestQueryExplainer
      • org.intermine.sql.precompute.BestQueryExplainerVerbose
    • org.intermine.sql.precompute.BestQueryFallback
    • org.intermine.sql.precompute.BestQueryLogger
    • org.intermine.sql.precompute.BestQueryStorer
    • org.intermine.sql.precompute.EncloseSubqueryBestQuery
  • org.intermine.sql.precompute.BestQueryExplainer.Candidate
  • antlr.CharScanner (implements antlr.TokenStream)
    • org.intermine.objectstore.query.iql.IqlLexer (implements org.intermine.objectstore.query.iql.IqlTokenTypes, antlr.TokenStream)
    • org.intermine.pathquery.LogicLexer (implements org.intermine.pathquery.LogicTokenTypes, antlr.TokenStream)
    • org.intermine.sql.query.SqlLexer (implements org.intermine.sql.query.SqlTokenTypes, antlr.TokenStream)
  • org.intermine.objectstore.intermine.CheckForIsNotNullConstraint (implements org.intermine.objectstore.query.ConstraintTraverseAction)
  • org.intermine.api.searchengine.ClassAttributes
  • org.intermine.metadata.ClassDescriptor (implements java.lang.Comparable<T>)
  • org.intermine.api.config.ClassKeyHelper
  • org.intermine.web.uri.ClassNameURIIdentifierMapper
  • org.intermine.web.logic.ClassResourceOpener (implements org.intermine.web.logic.ResourceOpener)
  • org.intermine.objectstore.query.Clob (implements org.intermine.objectstore.query.QuerySelectable)
  • org.intermine.objectstore.query.ClobAccess (implements java.lang.CharSequence, org.intermine.objectstore.proxy.Lazy)
    • org.intermine.objectstore.query.PendingClob
  • org.intermine.objectstore.query.ClobAccess.ClobAccessSubclassFactory
  • org.intermine.webservice.server.CodeTranslator
  • org.intermine.util.CollectionUtil
  • org.intermine.api.results.Column
  • org.intermine.util.CombinedIterator<E> (implements java.util.Iterator<E>)
  • org.intermine.webservice.server.jbrowse.Command
  • org.intermine.webservice.server.jbrowse.CommandRunner
  • org.intermine.webservice.server.jbrowse.Commands
  • org.intermine.api.config.Constants
  • org.intermine.web.logic.Constants
  • org.intermine.objectstore.query.Constraint
    • org.intermine.objectstore.query.BagConstraint (implements org.intermine.objectstore.query.ConstraintWithBag)
    • org.intermine.objectstore.query.ClassConstraint
    • org.intermine.objectstore.query.ConstraintSet
    • org.intermine.objectstore.query.ContainsConstraint
    • org.intermine.objectstore.query.MultipleInBagConstraint (implements org.intermine.objectstore.query.ConstraintWithBag)
    • org.intermine.objectstore.query.OverlapConstraint
    • org.intermine.objectstore.query.SimpleConstraint
    • org.intermine.objectstore.query.SubqueryConstraint
    • org.intermine.objectstore.query.SubqueryExistsConstraint
  • org.intermine.objectstore.query.ConstraintHelper
  • org.intermine.web.logic.template.ConstraintInput
  • org.intermine.metadata.ConstraintOp
  • org.intermine.api.query.range.ConstraintOptions
  • org.intermine.pathquery.Constraints
  • org.intermine.pathquery.ConstraintValueParser
  • org.intermine.api.bag.ConvertedObjectPair
  • org.intermine.webservice.server.core.CountProcessor
  • org.intermine.web.struts.oauth2.CustomOAuthProvider (implements org.intermine.web.struts.oauth2.OAuthProvider)
  • org.intermine.sql.Database (implements org.intermine.util.Shutdownable)
  • org.intermine.sql.DatabaseFactory
  • org.intermine.objectstore.intermine.DatabaseSchema
  • org.intermine.objectstore.intermine.DatabaseSchema.Fields
  • org.intermine.sql.DatabaseUtil
  • org.intermine.dataconversion.DataConverter
    • org.intermine.dataconversion.DBConverter
    • org.intermine.dataconversion.DirectoryConverter
    • org.intermine.dataconversion.FileConverter
    • org.intermine.dataconversion.FullXmlConverter
  • org.intermine.dataloader.DataLoader
    • org.intermine.dataloader.DirectDataLoader
    • org.intermine.dataloader.ObjectStoreDataLoader
    • org.intermine.dataloader.XmlDataLoader
  • org.intermine.dataloader.DataLoaderHelper
  • org.intermine.dataloader.DataTracker
  • org.xml.sax.helpers.DefaultHandler (implements org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler)
    • org.intermine.api.bag.BagQueryHandler
    • org.intermine.xml.full.FullHandler
    • org.intermine.api.xml.InterMineBagHandler
    • org.intermine.api.bag.InvitationHandler
    • org.intermine.pathquery.PathQueryHandler
      • org.intermine.api.xml.SavedQueryHandler
      • org.intermine.template.xml.TemplateQueryHandler
    • org.intermine.api.profile.PreferencesHandler
    • org.intermine.webservice.server.ServiceListingHandler
    • org.intermine.api.xml.SharedBagHandler
    • org.intermine.api.profile.TagHandler
    • org.intermine.api.tracker.xml.TrackHandler
    • org.intermine.api.tracker.xml.TrackManagerHandler
  • org.intermine.web.struts.oauth2.DefaultOAuthProvider (implements org.intermine.web.struts.oauth2.OAuthProvider)
  • org.intermine.web.struts.oauth2.DelegatedIdentity
  • org.intermine.webservice.server.user.DeletionToken
  • org.intermine.webservice.server.user.DeletionTokens
  • org.intermine.task.DelimitedFileConfiguration
  • org.intermine.metadata.DescriptorUtils
  • java.util.Dictionary<K,V>
    • java.util.Hashtable<K,V> (implements java.lang.Cloneable, java.util.Map<K,V>, java.io.Serializable)
      • java.util.Properties
        • org.intermine.webservice.server.jbrowse.util.NameSpacedProperties
        • org.intermine.metadata.NonOverrideableProperties
  • org.intermine.web.logic.query.DisplayConstraint
  • org.intermine.web.logic.query.DisplayConstraint.DisplayConstraintOption
  • org.intermine.web.logic.query.DisplayConstraintFactory
  • org.intermine.web.logic.query.DisplayConstraintHelpMessages
  • org.intermine.web.logic.config.Displayer
  • org.intermine.web.displayer.DisplayerManager
  • org.intermine.web.logic.results.DisplayField
    • org.intermine.web.logic.results.DisplayCollection
    • org.intermine.web.logic.results.DisplayReference
  • org.intermine.web.struts.DisplayLookupMessageHandler
  • org.intermine.web.logic.querybuilder.DisplayPath
    • org.intermine.web.logic.querybuilder.SummaryPath (implements java.lang.Comparable<T>)
  • org.intermine.util.DynamicBean (implements net.sf.cglib.proxy.MethodInterceptor)
  • org.intermine.util.DynamicUtil
  • org.intermine.webservice.server.core.Either<A,B>
    • org.intermine.webservice.server.core.Either.Left<A,B>
    • org.intermine.webservice.server.core.Either.Right<A,B>
  • org.intermine.webservice.server.core.EitherVisitor<A,B,T> (implements org.intermine.webservice.server.core.Function<A,B>)
    • org.intermine.webservice.server.core.TreeWalker<L>
  • org.intermine.util.Emailer
    • org.intermine.web.context.NullMailer
  • org.intermine.web.context.EmailerFactory
  • org.intermine.web.logic.widget.EnrichmentCalculation
  • org.intermine.web.logic.widget.EnrichmentInputWidgetLdr (implements org.intermine.web.logic.widget.EnrichmentInput)
  • org.intermine.webservice.server.widget.EnrichmentJSONProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.web.logic.widget.EnrichmentResults
  • org.intermine.webservice.server.widget.EnrichmentXMLProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.dataloader.EquivalentObjectHints
  • org.intermine.web.logic.widget.ErrorCorrection
  • org.apache.struts.action.ExceptionHandler
    • org.intermine.web.struts.InterMineExceptionHandler
  • org.intermine.web.filters.ExpiresHeaderFilter (implements javax.servlet.Filter)
  • org.intermine.sql.query.ExplainResult
    • org.intermine.sql.query.DummyExplainResult
    • org.intermine.sql.query.PostgresExplainResult
  • org.intermine.web.logic.export.ExporterImpl (implements org.intermine.web.logic.export.Exporter)
  • org.intermine.web.logic.export.ExportHelper
  • org.intermine.api.results.ExportResultsIterator (implements java.util.Iterator<E>)
  • org.intermine.objectstore.intermine.ExtraQueryTime
  • org.intermine.webservice.server.core.F<A,B> (implements org.intermine.webservice.server.core.Function<A,B>)
    • org.intermine.webservice.server.core.F.Constant<X,R>
  • org.intermine.web.logic.config.FieldConfig
  • org.intermine.web.logic.config.FieldConfigHelper
  • org.intermine.metadata.FieldDescriptor
    • org.intermine.metadata.AttributeDescriptor
    • org.intermine.metadata.ReferenceDescriptor
      • org.intermine.metadata.CollectionDescriptor
  • org.intermine.webservice.server.output.FilteringResultIterator (implements java.util.Iterator<E>)
  • org.intermine.webservice.server.widget.FlatFileWidgetResultProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.webservice.server.lists.FlatListFormatter (implements org.intermine.webservice.server.lists.ListFormatter)
  • org.intermine.sql.writebatch.FlushJobBatchCommit (implements org.intermine.sql.writebatch.FlushJob)
  • org.intermine.sql.writebatch.FlushJobPostgresCopyImpl (implements org.intermine.sql.writebatch.FlushJob)
  • org.intermine.sql.writebatch.FlushJobStatementBatchImpl (implements org.intermine.sql.writebatch.FlushJob)
  • org.intermine.sql.writebatch.FlushJobUpdateStatistics (implements org.intermine.sql.writebatch.FlushJob)
  • java.text.Format (implements java.lang.Cloneable, java.io.Serializable)
    • java.text.DateFormat
      • java.text.SimpleDateFormat
        • org.intermine.webservice.server.core.ISO8601DateFormat
    • java.text.NumberFormat
      • java.text.DecimalFormat
        • org.intermine.web.logic.widget.GraphWidget.DivNumberFormat
  • org.intermine.util.FormattedTextParser
  • org.intermine.webservice.server.output.Formatter
    • org.intermine.webservice.server.jbrowse.util.ArrayFormatter
    • org.intermine.webservice.server.output.FlatFileFormatter
      • org.intermine.webservice.server.output.CSVFormatter
      • org.intermine.webservice.server.output.TabFormatter
    • org.intermine.webservice.server.output.JSONFormatter
      • org.intermine.webservice.server.output.JSONCountFormatter
      • org.intermine.webservice.server.output.JSONResultFormatter
        • org.intermine.webservice.server.output.JSONObjectFormatter
        • org.intermine.webservice.server.output.JSONTableFormatter
          • org.intermine.webservice.server.output.JSONRowFormatter
      • org.intermine.webservice.server.jbrowse.util.ObjectFormatter
    • org.intermine.webservice.server.output.PlainFormatter
    • org.intermine.webservice.server.output.XMLFormatter
      • org.intermine.webservice.server.output.HTMLTableFormatter
      • org.intermine.webservice.server.user.UserDataFormatter
  • org.intermine.web.struts.ForwardParameters
  • org.intermine.webservice.server.query.result.FrictionlessDataPackage
  • org.intermine.api.mines.FriendlyMineManager
  • org.intermine.xml.full.FullParser
  • org.intermine.xml.full.FullRenderer
  • javax.servlet.GenericServlet (implements java.io.Serializable, javax.servlet.Servlet, javax.servlet.ServletConfig)
    • javax.servlet.http.HttpServlet (implements java.io.Serializable)
      • org.intermine.webservice.server.oauth2.AuthenticatorServlet
      • org.intermine.webservice.server.AvailableServicesServlet
      • org.intermine.webservice.server.widget.AvailableWidgetsServlet
      • org.intermine.webservice.server.oauth2.CallbackServlet
      • org.intermine.webservice.server.ClassKeyServlet
      • org.intermine.webservice.server.query.CodeServlet
      • org.intermine.webservice.server.FacetListServlet
      • org.intermine.webservice.server.FeedbackServlet
      • org.intermine.webservice.server.widget.GraphWidgetsServlet
      • org.intermine.webservice.server.user.LoginServlet
      • org.intermine.webservice.server.user.LogoutServlet
      • org.intermine.webservice.server.model.ModelServlet
      • org.intermine.web.logic.login.OpenIDAuthenticator
      • org.intermine.webservice.server.path.PossibleValuesServlet
      • org.intermine.webservice.server.user.PswResetServlet
      • org.intermine.webservice.server.query.QueryListAppendServlet
      • org.intermine.webservice.server.query.result.QueryResultServlet
      • org.intermine.webservice.server.query.QueryToListServlet
      • org.intermine.webservice.server.user.RequestPswResetServlet
      • org.intermine.webservice.server.SchemaServlet
      • org.intermine.webservice.server.ServicesListingsServlet
      • org.intermine.webservice.server.SummaryServlet
      • org.intermine.webservice.server.widget.TableWidgetsServlet
      • org.intermine.webservice.server.template.TemplateListAppendServlet
      • org.intermine.webservice.server.user.TokenServlet
      • org.intermine.webservice.server.VersionServlet
      • org.intermine.webservice.server.webproperties.WebPropertiesServlet
      • org.intermine.webservice.server.core.WebServiceServlet
        • org.intermine.webservice.server.lists.AvailableListsServlet
        • org.intermine.webservice.server.bg.BGPropertiesServlet
        • org.intermine.webservice.server.core.ConfigurableWebServiceServlet
        • org.intermine.webservice.server.user.DeregistrationTokenServlet
        • org.intermine.webservice.server.FacetServlet
        • org.intermine.webservice.server.idresolution.IdResolutionServlet
          • org.intermine.webservice.server.idresolution.ListResolutionServlet
        • org.intermine.webservice.server.lists.JaccardIndexServlet
        • org.intermine.webservice.server.lists.ListRenameServlet
        • org.intermine.webservice.server.lists.ListShareServlet
        • org.intermine.webservice.server.lists.ListSharingInvitationServlet
        • org.intermine.webservice.server.lists.ListUpgradingServlet
        • org.intermine.webservice.server.user.NewUserServlet
        • org.intermine.webservice.server.user.PermaTokensServlet
        • org.intermine.webservice.server.query.QueryUploadServlet
        • org.intermine.webservice.server.search.QuickSearchServlet
        • org.intermine.webservice.server.core.RestfulServlet
        • org.intermine.webservice.server.template.result.TemplateResultServlet
        • org.intermine.webservice.server.template.TemplateToListServlet
        • org.intermine.webservice.server.template.TemplateUploadServlet
        • org.intermine.webservice.server.user.WhoAmIServlet
      • org.intermine.webservice.server.widget.WidgetsServlet
  • org.intermine.webservice.server.widget.GraphJSONProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.webservice.server.widget.GraphXMLProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.web.logic.config.HeaderConfigLink
  • org.intermine.web.logic.config.HeaderConfigTitle
  • org.intermine.web.logic.config.HeaderConfigTitle.TitlePart
  • org.intermine.web.filters.HeaderFilter (implements javax.servlet.Filter)
  • org.intermine.webservice.server.lists.HtmlListFormatter (implements org.intermine.webservice.server.lists.ListFormatter)
  • org.intermine.web.util.HttpClient
  • org.intermine.web.logic.export.http.HttpExporterBase
    • org.intermine.web.logic.export.http.StandardHttpExporter (implements org.intermine.web.logic.export.http.TableHttpExporter)
      • org.intermine.web.logic.export.http.CSVHttpExporter
      • org.intermine.web.logic.export.http.TabHttpExporter
  • org.intermine.web.logic.export.http.HttpExportUtil
  • org.intermine.api.mines.HttpRequester (implements org.intermine.api.mines.MineRequester)
  • org.intermine.util.IdentityMap<E> (implements java.util.Map<K,V>)
  • org.intermine.api.idresolution.IDResolver
  • org.intermine.sql.writebatch.IndirectionTableBatch (implements org.intermine.sql.writebatch.Table)
  • org.intermine.web.struts.InitialiserPlugin (implements org.apache.struts.action.PlugIn)
  • org.intermine.web.logic.results.InlineList
  • org.intermine.web.logic.config.InlineListConfig
  • org.intermine.web.logic.config.InlineListObject
  • org.intermine.web.logic.results.InlineResultsTable
    • org.intermine.web.logic.results.BagUploadConfirmInlineResultsTable
  • org.intermine.web.logic.results.InlineResultsTableRow
    • org.intermine.web.logic.results.BagUploadConfirmInlineResultsTableRow
  • java.io.InputStream (implements java.io.Closeable)
    • org.intermine.modelproduction.MetadataManager.LargeObjectInputStream
  • org.intermine.web.registry.model.Instance
  • org.intermine.dataloader.IntegrationWriterAbstractImpl (implements org.intermine.dataloader.IntegrationWriter)
    • org.intermine.dataloader.IntegrationWriterDataTrackingImpl
  • org.intermine.dataloader.IntegrationWriterFactory
  • org.intermine.api.InterMineAPI
  • org.intermine.api.xml.InterMineBagBinding
  • org.intermine.web.context.InterMineContext (implements org.intermine.util.Shutdownable)
  • org.intermine.web.util.InterMineLinkGenerator
  • org.intermine.web.uri.InterMineLUI
  • org.intermine.web.uri.InterMineLUIConverter
  • org.intermine.metadata.InterMineModelParser (implements org.intermine.metadata.ModelParser)
  • org.intermine.api.searchengine.InterMineResultsContainer
  • org.intermine.api.query.range.IntHelper (implements org.intermine.api.query.RangeHelper)
  • org.intermine.util.IntPresentSet
  • org.intermine.util.IntToIntMap
  • org.intermine.objectstore.query.iql.IqlQuery
  • org.intermine.objectstore.query.iql.IqlQueryParser
  • org.intermine.model.fulldata.Item (implements org.intermine.model.InterMineObject)
  • org.intermine.xml.full.Item (implements java.lang.Comparable<T>)
  • org.intermine.xml.full.ItemFactory
  • org.intermine.xml.full.ItemHelper
  • org.intermine.util.IteratorIterable<T> (implements java.lang.Iterable<T>)
  • org.intermine.codegen.JavaModelOutput
  • org.intermine.webservice.server.idresolution.JobJanitor (implements java.lang.Runnable)
  • org.intermine.webservice.server.output.JSONDataTableRowIterator (implements java.util.Iterator<E>)
  • org.intermine.webservice.server.lists.JSONListFormatter (implements org.intermine.webservice.server.lists.ListFormatter)
  • org.intermine.pathquery.JSONQueryHandler
  • org.intermine.webservice.server.output.JSONResultsIterator (implements java.util.Iterator<E>)
  • org.intermine.webservice.server.output.JSONRowIterator (implements java.util.Iterator<E>)
  • org.intermine.webservice.server.user.JSONUserFormatter
  • org.intermine.api.query.codegen.JSStrings
  • org.intermine.webservice.server.JWTBuilder
  • org.intermine.webservice.server.JWTVerifier
  • org.intermine.webservice.server.JWTVerifier.Verification
  • org.intermine.web.security.KeySigner
  • org.intermine.web.security.KeyStoreBuilder
  • org.intermine.web.security.KeyStorePublicKeySource (implements org.intermine.web.security.PublicKeySource)
  • org.intermine.api.searchengine.KeywordSearchFacet<E>
  • org.intermine.api.searchengine.KeywordSearchFacetData
  • org.intermine.api.searchengine.KeywordSearchPropertiesManager
  • org.intermine.web.search.KeywordSearchResult
  • org.intermine.api.searchengine.KeywordSearchResultContainer<E>
  • org.intermine.api.searchengine.KeywordSearchResults
  • org.intermine.sql.precompute.LimitOffsetQuery
  • org.intermine.webservice.server.LinkGeneratorBase
    • org.intermine.webservice.server.query.result.QueryResultLinkGenerator
    • org.intermine.webservice.server.template.result.TemplateResultLinkGenerator
  • org.intermine.api.LinkRedirectManager
  • org.intermine.webservice.server.core.ListFunctions
  • org.intermine.webservice.server.lists.ListInput
    • org.intermine.webservice.server.lists.AsymmetricOperationInput
    • org.intermine.webservice.server.lists.CommutativeOperationInput
    • org.intermine.webservice.server.lists.ListCreationInput
    • org.intermine.webservice.server.lists.ListRenameInput
  • org.intermine.webservice.server.core.ListManager (implements org.intermine.webservice.server.core.Producer<T>)
  • org.intermine.webservice.server.lists.ListServiceUtils
  • org.intermine.webservice.server.lists.ListsRequestParser
  • org.intermine.api.tracker.xml.ListTrackBinding
  • org.intermine.api.mines.LocalMine (implements org.intermine.api.mines.ConfigurableMine)
  • org.intermine.pathquery.LogicExpression
  • org.intermine.pathquery.LogicExpression.Node
    • org.intermine.pathquery.LogicExpression.Operator
      • org.intermine.pathquery.LogicExpression.And
      • org.intermine.pathquery.LogicExpression.Or
    • org.intermine.pathquery.LogicExpression.Variable
  • org.intermine.api.tracker.xml.LoginTrackBinding
  • org.intermine.api.query.LookupTokeniser
  • org.intermine.web.context.MailDaemon (implements java.lang.Runnable)
  • org.intermine.util.MailUtils
  • org.intermine.api.query.MainHelper
  • org.intermine.api.query.MainHelper.RangeConfig
  • org.intermine.api.query.MainHelper.SummaryConfig
  • org.intermine.util.MappingUtil
  • org.intermine.api.search.MassTaggingEvent (implements org.intermine.api.search.ChangeEvent)
  • org.intermine.api.query.MemoryQueryStore (implements org.intermine.api.query.QueryStore)
  • org.intermine.modelproduction.MetadataManager
  • org.intermine.web.struts.oauth2.MigrationMapping
  • org.intermine.webservice.server.output.MinimalJsonIterator (implements java.util.Iterator<E>)
  • org.intermine.dataconversion.MockItemWriter (implements org.intermine.dataconversion.ItemWriter)
  • org.intermine.metadata.Model
  • org.intermine.web.logic.querybuilder.ModelBrowserHelper
  • org.intermine.web.logic.querybuilder.ModelBrowserHelper.NodeBuilder
  • org.intermine.metadata.ModelFactory
  • org.intermine.modelproduction.ModelFileMerger
  • org.intermine.modelproduction.ModelMerger
  • org.intermine.api.profile.ModelUpdate
  • org.intermine.api.results.flatouterjoins.MultiRowValue<E>
    • org.intermine.api.results.flatouterjoins.MultiRowFirstValue<E>
    • org.intermine.api.results.flatouterjoins.MultiRowLaterValue<E>
  • org.intermine.api.util.NameUtil
  • org.intermine.pathquery.Node
    • org.intermine.web.logic.query.MetadataNode
  • org.intermine.objectstore.intermine.NotXmlParser
  • org.intermine.objectstore.intermine.NotXmlRenderer
  • org.intermine.util.NullFirstComparator (implements java.util.Comparator<T>)
  • org.intermine.dataloader.ObjectDescription
  • org.intermine.api.beans.ObjectDetails (implements java.io.Serializable)
  • org.intermine.api.beans.ObjectDetailsBeanInfo (implements java.beans.BeanInfo)
  • org.intermine.util.ObjectPipe<E> (implements java.util.Iterator<E>)
  • org.intermine.api.mines.ObjectRequest
  • org.intermine.api.data.Objects
  • org.intermine.objectstore.ObjectStoreAbstractImpl (implements org.intermine.objectstore.ObjectStore)
    • org.intermine.objectstore.intermine.ObjectStoreInterMineImpl (implements org.intermine.util.Shutdownable)
      • org.intermine.objectstore.intermine.ObjectStoreWriterInterMineImpl (implements org.intermine.objectstore.ObjectStoreWriter)
    • org.intermine.objectstore.translating.ObjectStoreTranslatingImpl
  • org.intermine.objectstore.query.ObjectStoreBag (implements org.intermine.objectstore.query.QuerySelectable)
  • org.intermine.objectstore.query.ObjectStoreBagCombination (implements org.intermine.objectstore.query.QuerySelectable)
  • org.intermine.objectstore.query.ObjectStoreBagsForObject (implements org.intermine.objectstore.query.QuerySelectable)
  • org.intermine.objectstore.ObjectStoreFactory
  • org.intermine.dataconversion.ObjectStoreItemWriter (implements org.intermine.dataconversion.ItemWriter)
  • org.intermine.objectstore.ObjectStorePassthruImpl (implements org.intermine.objectstore.ObjectStore)
    • org.intermine.objectstore.fastcollections.ObjectStoreFastCollectionsForTranslatorImpl
    • org.intermine.objectstore.fastcollections.ObjectStoreFastCollectionsImpl
    • org.intermine.objectstore.safe.ObjectStoreSafeImpl
  • org.intermine.objectstore.ObjectStoreSummary
  • org.intermine.objectstore.ObjectStoreWriterFactory
  • org.intermine.web.struts.ObjectTrailController.TrailElement
  • org.intermine.api.searchengine.ObjectValueContainer
  • org.intermine.sql.precompute.OptimiserCache
  • org.intermine.sql.precompute.OptimiserCacheLine
  • org.intermine.sql.precompute.OptimiserMappingChecker (implements org.intermine.util.MappingUtilChecker<T>)
  • org.intermine.objectstore.query.OrderDescending (implements org.intermine.objectstore.query.QueryOrderable)
  • org.intermine.pathquery.OrderElement
  • org.intermine.api.search.OriginatingEvent (implements org.intermine.api.search.ChangeEvent)
    • org.intermine.api.search.CreationEvent
    • org.intermine.api.search.DeletionEvent
    • org.intermine.api.search.PropertyChangeEvent
    • org.intermine.api.search.TaggingEvent
  • org.intermine.webservice.server.output.Output
    • org.intermine.webservice.server.output.MemoryOutput
      • org.intermine.webservice.server.output.HTMLOutput
    • org.intermine.webservice.server.output.StreamedOutput
  • java.io.OutputStream (implements java.io.Closeable, java.io.Flushable)
    • java.io.ByteArrayOutputStream
      • org.intermine.util.SensibleByteArrayOutputStream
        • org.intermine.sql.writebatch.PostgresByteArrayOutputStream
    • java.io.FilterOutputStream
      • java.io.DataOutputStream (implements java.io.DataOutput)
        • org.intermine.sql.writebatch.PostgresDataOutputStream
    • org.intermine.modelproduction.MetadataManager.LargeObjectOutputStream
  • org.intermine.objectstore.query.OverlapRange
  • org.intermine.webservice.server.core.Page
  • org.intermine.web.logic.results.PagedTable
  • org.intermine.webservice.server.core.Pair<A,B> (implements java.util.Map.Entry<K,V>)
  • org.intermine.objectstore.intermine.ParallelPrecomputer
  • org.intermine.objectstore.intermine.ParallelPrecomputer.Job (implements java.lang.Comparable<T>)
  • antlr.Parser
    • antlr.LLkParser
      • org.intermine.objectstore.query.iql.IqlParser (implements org.intermine.objectstore.query.iql.IqlTokenTypes)
      • org.intermine.pathquery.LogicParser (implements org.intermine.pathquery.LogicTokenTypes)
      • org.intermine.sql.query.SqlParser (implements org.intermine.sql.query.SqlTokenTypes)
  • org.intermine.api.beans.PartnerLink (implements java.io.Serializable)
  • org.intermine.api.beans.PartnerLinkBeanInfo (implements java.beans.BeanInfo)
  • org.intermine.util.PasswordHasher
  • org.intermine.pathquery.Path
  • org.intermine.pathquery.PathConstraint
    • org.intermine.pathquery.PathConstraintAttribute
    • org.intermine.pathquery.PathConstraintBag
    • org.intermine.pathquery.PathConstraintIds
    • org.intermine.pathquery.PathConstraintLookup
    • org.intermine.pathquery.PathConstraintLoop
    • org.intermine.pathquery.PathConstraintMultiValue
      • org.intermine.pathquery.PathConstraintMultitype
      • org.intermine.pathquery.PathConstraintRange
    • org.intermine.pathquery.PathConstraintNull
    • org.intermine.pathquery.PathConstraintSubclass
  • org.intermine.objectstore.query.PathExpressionField (implements org.intermine.objectstore.query.QueryPathExpression)
  • org.intermine.pathquery.PathLengthComparator (implements java.util.Comparator<T>)
  • org.intermine.pathquery.PathQuery (implements java.lang.Cloneable)
    • org.intermine.template.TemplateQuery
      • org.intermine.api.template.ApiTemplate (implements org.intermine.api.search.WebSearchable)
  • org.intermine.api.query.PathQueryAPI
  • org.intermine.pathquery.PathQueryBinding
    • org.intermine.template.xml.TemplateQueryBinding
  • org.intermine.webservice.server.query.result.PathQueryBuilder
    • org.intermine.webservice.server.query.result.PathQueryBuilderForJSONObj
  • org.intermine.web.logic.pathqueryresult.PathQueryResultHelper
  • org.intermine.api.profile.PathQueryUpdate
    • org.intermine.api.profile.TemplateQueryUpdate
  • org.intermine.api.util.PathUtil
  • org.intermine.web.commandline.PerformanceTester
  • org.intermine.api.userprofile.PermanentToken (implements org.intermine.model.InterMineObject)
  • org.intermine.web.logic.PermanentURIHelper
  • org.intermine.web.filters.PermanentURLFilter (implements javax.servlet.Filter)
  • org.intermine.webservice.server.user.PermaTokens
  • org.intermine.api.bag.PkQueryIdUpgrader (implements org.intermine.api.bag.IdUpgrader)
  • org.intermine.web.logic.widget.PopulationInfo
  • org.intermine.web.logic.PortalHelper
  • org.intermine.postprocess.PostProcessor
  • org.intermine.sql.precompute.PrecomputedTable (implements java.lang.Comparable<T>, org.intermine.sql.query.SQLStringable)
  • org.intermine.sql.precompute.PrecomputedTableManager
  • org.intermine.api.profile.PreferencesManager
  • org.intermine.objectstore.query.PrefetchManager
  • org.intermine.metadata.PrimaryKey
  • org.intermine.metadata.PrimaryKeyUtil
  • org.intermine.dataloader.PriorityConfig
  • org.intermine.api.profile.Profile
    • org.intermine.api.util.AnonProfile
  • org.intermine.api.xml.ProfileBinding
  • org.intermine.api.profile.ProfileManager
  • org.intermine.api.profile.ProfileManager.ApiPermission (implements java.security.Principal)
  • org.intermine.api.xml.ProfileManagerBinding
  • org.intermine.web.logic.profile.ProfileMergeIssues
  • org.apache.tools.ant.ProjectComponent
    • org.apache.tools.ant.Task
      • org.intermine.task.AcceptanceTestTask
      • org.intermine.task.AnalyseDbTask
      • org.intermine.task.BuildDbTask
      • org.intermine.task.CreateIndexesTask
      • org.intermine.web.task.CreateSearchIndexTask
      • org.intermine.task.DropPrecomputedTablesTask
      • org.intermine.web.task.DumpDefaultTemplatesTask
      • org.intermine.task.DynamicAttributeTask
        • org.intermine.task.ConverterTask
          • org.intermine.task.DBConverterTask
          • org.intermine.task.DirectoryConverterTask
          • org.intermine.task.FileConverterTask
          • org.intermine.task.FullXmlConverterTask
        • org.intermine.task.DirectDataLoaderTask
          • org.intermine.task.FileDirectDataLoaderTask
            • org.intermine.task.TSVFileReaderTask
        • org.intermine.task.PostProcessorTask
      • org.intermine.web.task.EvictOrphansTask
      • org.intermine.task.GenerateUpdateTriggersTask
      • org.intermine.task.GrantTask
      • org.intermine.web.task.KeyStoreTask
        • org.intermine.web.task.IssueTokenTask
        • org.intermine.web.task.VerifyTokenTask
      • org.intermine.web.task.LoadBagValuesTask
      • org.intermine.web.task.LoadDefaultTemplatesTask
      • org.intermine.task.ModelMergerTask
      • org.intermine.task.ModelOutputTask
      • org.intermine.web.task.ModelUpdateTask
      • org.intermine.dataloader.ObjectStoreDataLoaderTask
      • org.intermine.task.PrecomputeTask
      • org.intermine.web.task.PrecomputeTemplatesTask
      • org.intermine.web.task.ProfileReadTask
      • org.intermine.web.task.ProfileWriteTask
      • org.intermine.task.RetrieveMetadataTask
      • org.intermine.task.RunIqlQueryTask
      • org.intermine.task.StaticMethodTask
      • org.intermine.task.StoreMetadataTask
      • org.intermine.task.SummariseObjectStoreTask
      • org.intermine.web.task.TemplateTrackReadTask
      • org.intermine.web.task.TemplateTrackWriteTask
      • org.intermine.objectstore.intermine.TorqueModelOutputTask
      • org.intermine.web.task.UpdateListTablesTask
      • org.intermine.web.task.UpdateTrackTableTask
      • org.intermine.dataloader.XmlDataLoaderTask
  • org.intermine.util.PropertiesUtil
  • org.intermine.objectstore.proxy.ProxyReference (implements org.intermine.model.InterMineObject, org.intermine.objectstore.proxy.Lazy)
  • org.intermine.util.PseudoSet<E> (implements java.util.Set<E>)
    • org.intermine.util.AlwaysSet<E>
  • org.intermine.webservice.server.jbrowse.Queries
  • org.intermine.objectstore.query.Query (implements org.intermine.objectstore.query.FromElement, org.intermine.objectstore.query.HasFromList, org.intermine.objectstore.query.Queryable)
  • org.intermine.sql.query.Query (implements org.intermine.sql.query.SQLStringable)
  • org.intermine.web.logic.querybuilder.QueryBuilderSummaryHelper
  • org.intermine.objectstore.query.QueryCast (implements org.intermine.objectstore.query.QueryEvaluable)
  • org.intermine.objectstore.query.QueryClass (implements org.intermine.objectstore.query.FromElement, org.intermine.objectstore.query.QueryNode)
  • org.intermine.objectstore.query.QueryClassBag (implements org.intermine.objectstore.query.FromElement)
  • org.intermine.objectstore.query.QueryCloner
  • org.intermine.objectstore.query.QueryCollectionPathExpression (implements org.intermine.objectstore.query.HasFromList, org.intermine.objectstore.query.Queryable, org.intermine.objectstore.query.QueryPathExpressionWithSelect)
  • org.intermine.objectstore.query.QueryCreator
  • org.intermine.api.query.QueryExecutor
    • org.intermine.api.query.PathQueryExecutor
    • org.intermine.api.query.WebResultsExecutor
  • org.intermine.objectstore.query.QueryExpression (implements org.intermine.objectstore.query.QueryEvaluable)
  • org.intermine.objectstore.query.QueryField (implements org.intermine.objectstore.query.QueryEvaluable)
  • org.intermine.objectstore.query.QueryForeignKey (implements org.intermine.objectstore.query.QueryEvaluable)
  • org.intermine.objectstore.query.QueryFunction (implements org.intermine.objectstore.query.QueryEvaluable)
    • org.intermine.objectstore.query.WidthBucketFunction
  • org.intermine.objectstore.querygen.QueryGenUtil
  • org.intermine.objectstore.querygen.QueryGenUtil.QueryAndClass
  • org.intermine.objectstore.query.QueryHelper
  • org.intermine.sql.logging.QueryLogger
  • org.intermine.web.logic.query.QueryMonitorTimeout (implements org.intermine.web.logic.query.QueryMonitor)
    • org.intermine.web.logic.query.PageTableQueryMonitor
    • org.intermine.web.logic.session.QueryCountQueryMonitor
  • org.intermine.objectstore.query.QueryObjectPathExpression (implements org.intermine.objectstore.query.Queryable, org.intermine.objectstore.query.QueryPathExpressionWithSelect)
  • org.intermine.sql.precompute.QueryOptimiser
  • org.intermine.sql.precompute.QueryOptimiser.AbstractTableComparator (implements java.util.Comparator<T>)
  • org.intermine.sql.precompute.QueryOptimiserContext
  • org.intermine.objectstore.query.QueryReference
    • org.intermine.objectstore.query.QueryCollectionReference
    • org.intermine.objectstore.query.QueryObjectReference (implements org.intermine.objectstore.query.QueryOrderable)
  • org.intermine.api.tracker.xml.QueryTrackBinding
  • org.intermine.objectstore.query.QueryValue (implements org.intermine.objectstore.query.QueryEvaluable)
  • org.intermine.webservice.server.search.QuickSearchJSONProcessor (implements org.intermine.webservice.server.search.QuickSearchResultProcessor)
  • org.intermine.webservice.server.search.QuickSearchTextProcessor (implements org.intermine.webservice.server.search.QuickSearchResultProcessor)
  • org.intermine.webservice.server.search.QuickSearchXMLProcessor (implements org.intermine.webservice.server.search.QuickSearchResultProcessor)
  • org.intermine.webservice.server.core.RateLimitHistory (implements org.intermine.webservice.server.core.Predicate<T>)
  • org.intermine.api.results.flatouterjoins.ReallyFlatIterator (implements java.util.Iterator<E>)
  • java.lang.ref.Reference<T>
    • java.lang.ref.WeakReference<T>
      • org.intermine.objectstore.intermine.ObjectStoreInterMineImpl.BagTableToRemove
  • org.intermine.model.fulldata.Reference (implements org.intermine.model.FastPathObject)
  • org.intermine.xml.full.Reference
  • org.intermine.model.fulldata.ReferenceList (implements org.intermine.model.FastPathObject)
  • org.intermine.xml.full.ReferenceList
  • org.intermine.util.ReferenceMap<K,V> (implements java.util.Map<K,V>)
    • org.intermine.util.SoftReferenceMap<K,V>
      • org.intermine.util.CacheMap<K,V>
        • org.intermine.web.logic.results.ReportObjectFactory
    • org.intermine.util.WeakReferenceMap<K,V>
      • org.intermine.util.WeakReferenceHashMap<K,V>
  • org.intermine.web.registry.model.RegistryResponse
  • org.intermine.web.filters.ReleaseEtagFilter (implements javax.servlet.Filter)
  • org.intermine.api.mines.RemoteMine (implements org.intermine.api.mines.ConfigurableMine)
  • org.intermine.xml.full.RendererComparator (implements java.util.Comparator<T>)
  • org.intermine.web.displayer.ReportDisplayer
  • org.intermine.web.logic.config.ReportDisplayerConfig
  • org.intermine.web.logic.results.ReportInList
  • org.intermine.web.logic.results.ReportObject
  • org.intermine.web.logic.results.ReportObject.TitleValue
  • org.intermine.web.logic.results.ReportObjectField
  • org.apache.struts.action.RequestProcessor
    • org.apache.struts.tiles.TilesRequestProcessor
      • org.intermine.web.struts.InterMineRequestProcessor
  • org.intermine.webservice.server.filter.RequestSubClassFilter (implements javax.servlet.Filter)
  • org.intermine.web.logic.RequestUtil
  • org.intermine.api.idresolution.ResolutionJob (implements org.intermine.api.idresolution.Job)
  • org.intermine.web.struts.ResourceFinder (implements org.intermine.web.logic.ResourceOpener)
  • org.intermine.web.logic.export.ResponseUtil
  • org.intermine.api.results.ResultElement (implements org.intermine.api.results.ResultCell, java.io.Serializable)
    • org.intermine.web.logic.results.InlineTableResultElement
  • org.intermine.web.logic.export.ResultElementConverter
  • org.intermine.webservice.server.core.ResultProcessor
    • org.intermine.webservice.server.output.JSONResultProcessor
      • org.intermine.webservice.server.output.JSONDataTableRowResultProcessor
      • org.intermine.webservice.server.output.JSONObjResultProcessor
      • org.intermine.webservice.server.output.JSONRowResultProcessor
      • org.intermine.webservice.server.output.JSONSummaryProcessor
      • org.intermine.webservice.server.output.JSONTableResultProcessor
  • org.intermine.objectstore.query.ResultsBatches
  • org.intermine.objectstore.intermine.ResultsConverter
  • org.intermine.objectstore.query.ResultsInfo
  • org.intermine.sql.writebatch.Row (implements java.lang.Comparable<T>)
  • org.intermine.web.logic.export.RowFormatterImpl (implements org.intermine.web.logic.export.RowFormatter)
    • org.intermine.web.logic.export.rowformatters.CSVRowFormatter
    • org.intermine.web.logic.export.rowformatters.TabRowFormatter
  • org.intermine.api.userprofile.SavedBag (implements org.intermine.model.InterMineObject)
  • org.intermine.api.profile.SavedQuery
  • org.intermine.api.userprofile.SavedQuery (implements org.intermine.model.InterMineObject)
  • org.intermine.api.xml.SavedQueryBinding
  • org.intermine.api.userprofile.SavedTemplateQuery (implements org.intermine.model.InterMineObject)
  • org.intermine.metadata.SAXParser
  • org.intermine.util.SAXParser
  • org.intermine.api.search.Scope
  • org.intermine.api.search.SearchFilterEngine
  • org.intermine.api.search.SearchRepository (implements org.intermine.api.search.WebSearchWatcher)
    • org.intermine.api.search.UserRepository
      • org.intermine.api.search.GlobalRepository
  • org.intermine.api.search.SearchResult
  • org.intermine.api.search.SearchResults (implements java.lang.Iterable<T>)
  • org.intermine.api.search.SearchTarget
  • org.intermine.api.tracker.xml.SearchTrackBinding
  • org.intermine.web.search.SearchUtils
  • org.intermine.webservice.server.jbrowse.Segment
  • org.intermine.sql.query.SelectValue (implements org.intermine.sql.query.SQLStringable)
  • org.intermine.web.fair.SemanticMarkupFormatter
  • javax.servlet.ServletRequestWrapper (implements javax.servlet.ServletRequest)
    • javax.servlet.http.HttpServletRequestWrapper (implements javax.servlet.http.HttpServletRequest)
      • org.intermine.webservice.server.core.SessionlessRequest
  • org.intermine.web.logic.session.SessionActivationListener (implements javax.servlet.http.HttpSessionActivationListener, java.io.Serializable)
  • org.intermine.web.logic.session.SessionListener (implements javax.servlet.http.HttpSessionListener)
  • org.intermine.web.logic.session.SessionMethods
  • org.intermine.web.filters.SetCharacterEncodingFilter (implements javax.servlet.Filter)
  • org.intermine.api.xml.SharedBagBinding
  • org.intermine.api.bag.SharedBagManager
  • org.intermine.api.bag.SharingInvite
  • org.intermine.api.bag.SharingInvite.IntermediateRepresentation
  • javax.servlet.jsp.tagext.SimpleTagSupport (implements javax.servlet.jsp.tagext.SimpleTag)
    • org.intermine.web.tags.disclosure.BaseDisclosureTag
      • org.intermine.web.tags.disclosure.DisclosureBodyTag
      • org.intermine.web.tags.disclosure.DisclosureDetailsTag
      • org.intermine.web.tags.disclosure.DisclosureHeadTag
      • org.intermine.web.tags.disclosure.DisclosureTag
      • org.intermine.web.tags.disclosure.DisclosureTitleTag
    • org.intermine.web.tags.table.NavigationBarTag
    • org.intermine.web.tags.table.TableTag
    • org.intermine.web.tags.util.TreatStringTag
  • org.intermine.api.searchengine.solr.SolrClientManager
  • org.intermine.api.searchengine.solr.SolrIndexHandler (implements org.intermine.api.searchengine.IndexHandler)
  • org.intermine.api.searchengine.solr.SolrKeywordSearchHandler (implements org.intermine.api.searchengine.KeywordSearchHandler)
  • org.intermine.dataloader.Source
  • org.intermine.dataloader.SourcePriorityComparator (implements java.util.Comparator<T>)
  • org.intermine.objectstore.intermine.SqlGenerator
  • org.intermine.objectstore.intermine.SqlGenerator.State
  • org.intermine.objectstore.intermine.SQLOperation<T>
  • org.intermine.webservice.server.StatusDictionary
  • org.intermine.api.profile.StorableBag (implements org.intermine.api.search.WebSearchable)
    • org.intermine.api.profile.InterMineBag (implements java.lang.Cloneable)
    • org.intermine.api.profile.InvalidBag
  • org.intermine.model.StringConstructor (implements java.lang.CharSequence)
  • org.intermine.api.query.range.StringHelper (implements org.intermine.api.query.RangeHelper)
  • org.intermine.web.logic.export.string.StringTableExporter
  • org.intermine.metadata.StringUtil
  • org.intermine.metadata.StringUtil.LineWrappedString
  • org.intermine.webservice.server.core.SubTable
  • org.intermine.web.logic.querybuilder.SummaryConstraint
  • org.intermine.util.SynchronisedIterator<E> (implements java.util.Iterator<E>)
  • org.intermine.sql.writebatch.TableBatch (implements org.intermine.sql.writebatch.Table)
  • org.intermine.webservice.server.core.TableCell (implements org.intermine.api.results.ResultCell)
  • org.intermine.webservice.server.output.TableCellFormatter
  • org.intermine.web.logic.config.TableExportConfig
  • org.intermine.web.logic.export.http.TableExporterFactory
  • org.intermine.webservice.server.widget.TableJSONProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.webservice.server.core.TableRowIterator (implements java.lang.Iterable<T>, java.util.Iterator<E>)
  • org.intermine.webservice.server.widget.TableXMLProcessor (implements org.intermine.webservice.server.widget.WidgetResultProcessor)
  • org.intermine.api.userprofile.Tag (implements org.intermine.model.InterMineObject)
  • org.intermine.api.xml.TagBinding
  • org.intermine.api.search.TagFilter
  • org.intermine.api.profile.TagManager
  • org.intermine.api.profile.TagManagerFactory
  • org.intermine.api.profile.TagMapper (implements org.apache.commons.collections.Transformer)
  • org.intermine.api.tag.TagNames
  • org.intermine.api.tag.TagTypes
  • org.intermine.template.TemplateComparator (implements java.util.Comparator<T>)
  • org.intermine.api.template.TemplateHelper
  • org.intermine.api.template.TemplateManager
  • org.intermine.api.template.TemplatePopulator
  • org.intermine.api.template.TemplatePrecomputeHelper
  • org.intermine.web.logic.template.Templates
  • org.intermine.api.tracker.TemplatesExecutionMap
  • org.intermine.api.template.TemplateSummariser
  • org.intermine.api.userprofile.TemplateSummary (implements org.intermine.model.InterMineObject)
  • org.intermine.api.tracker.xml.TemplateTrackBinding
  • org.intermine.template.TemplateValue
  • org.intermine.metadata.TextTable
  • org.intermine.api.util.TextUtil
  • java.lang.Thread (implements java.lang.Runnable)
    • org.intermine.util.ShutdownHook
    • org.intermine.api.searchengine.solr.SolrObjectHandler
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • org.intermine.api.profile.BadTemplateException
      • org.intermine.api.bag.operations.BagOperationException
        • org.intermine.api.bag.operations.IncompatibleTypes
        • org.intermine.api.bag.operations.InternalBagOperationException
        • org.intermine.api.bag.operations.NoContent
        • org.intermine.api.bag.operations.NonUniqueName
        • org.intermine.api.bag.operations.NotCurrent
      • org.intermine.sql.precompute.BestQueryException
      • org.intermine.api.bag.ClassKeysNotFoundException
      • org.intermine.api.mines.ConfigurationException
      • org.intermine.web.security.DecodingException
      • org.intermine.web.struts.oauth2.ForseenProblem
      • org.intermine.InterMineException
        • org.intermine.pathquery.ParseValueException
      • org.intermine.web.uri.InvalidPermanentURLException
      • org.intermine.api.query.codegen.InvalidQueryException
      • org.intermine.webservice.server.JWTVerifier.VerificationError
      • org.intermine.web.security.KeySigner.SigningException
      • org.intermine.web.security.KeySourceException
      • org.intermine.metadata.MetaDataException
      • org.intermine.modelproduction.ModelMergerException
      • org.intermine.metadata.ModelParserException
      • org.intermine.webservice.server.core.NoServiceException
      • org.intermine.objectstore.ObjectStoreException
        • org.intermine.api.query.BagNotFound
        • org.intermine.objectstore.intermine.CompletelyFalseException
        • org.intermine.objectstore.DataChangedException
        • org.intermine.objectstore.ObjectStoreLimitReachedException
        • org.intermine.objectstore.ObjectStoreQueryDurationException
      • org.intermine.pathquery.PathException
      • org.intermine.sql.precompute.QueryOptimiserException
      • org.intermine.api.query.QueryStoreException
        • org.intermine.api.query.BadQueryException
        • org.intermine.api.query.KeyFormatException
        • org.intermine.api.query.NotPresentException
      • java.lang.RuntimeException
        • org.intermine.api.profile.BagDoesNotExistException
        • org.intermine.web.context.ContextNotInitialisedException
        • org.intermine.api.profile.DuplicateMappingException
        • org.intermine.web.logic.export.ExportException
        • org.intermine.api.bag.IncompatibleTypesException
        • org.intermine.webservice.server.output.JSONFormattingException
        • org.intermine.metadata.NonFatalMetaDataException
        • org.intermine.web.logic.results.PageOutOfRangeException
        • org.intermine.api.profile.ProfileAlreadyExistsException
        • org.intermine.api.profile.ProfileManager.AuthenticationException
        • org.intermine.sql.query.QueryParseTimeoutException
        • org.intermine.webservice.server.exceptions.ServiceException
          • org.intermine.webservice.server.exceptions.BadRequestException
            • org.intermine.webservice.server.exceptions.MissingParameterException
          • org.intermine.webservice.server.exceptions.NoContentException
          • org.intermine.webservice.server.exceptions.NotAcceptableException
          • org.intermine.webservice.server.exceptions.NotImplementedException
          • org.intermine.webservice.server.exceptions.ResourceNotFoundException
          • org.intermine.webservice.server.exceptions.ServiceForbiddenException
            • org.intermine.webservice.server.exceptions.RateLimitException
          • org.intermine.webservice.server.exceptions.UnauthorizedException
        • org.intermine.template.TemplatePopulatorException
        • org.intermine.api.profile.UserAlreadyShareBagException
        • org.intermine.api.profile.UserNotFoundException
      • org.intermine.api.bag.SharingInvite.NotFoundException
      • java.sql.SQLException (implements java.lang.Iterable<T>)
        • org.intermine.sql.DatabaseConnectionException
      • org.intermine.api.profile.TagManager.TagException
        • org.intermine.api.profile.TagManager.TagNameException
        • org.intermine.api.profile.TagManager.TagNamePermissionException
      • org.intermine.web.logic.template.Templates.TemplateValueParseException
      • org.intermine.api.query.codegen.UnhandledFeatureException
      • org.intermine.api.bag.UnknownBagTypeException
  • org.intermine.objectstore.intermine.TorqueModelOutput
  • org.intermine.api.tracker.track.TrackAbstract (implements org.intermine.api.tracker.track.Track)
    • org.intermine.api.tracker.track.KeySearchTrack
    • org.intermine.api.tracker.track.ListTrack
    • org.intermine.api.tracker.track.LoginTrack
    • org.intermine.api.tracker.track.QueryTrack
    • org.intermine.api.tracker.track.TemplateTrack
  • org.intermine.dwr.TrackAjaxServices
  • org.intermine.api.tracker.TrackerDelegate (implements org.intermine.util.Shutdownable)
  • org.intermine.api.tracker.factory.TrackerFactory
  • org.intermine.api.tracker.TrackerLogger (implements java.lang.Runnable)
  • org.intermine.api.tracker.util.TrackerUtil
  • org.intermine.api.tracker.xml.TrackManagerBinding
  • org.intermine.objectstore.translating.Translator
    • org.intermine.dataconversion.ItemToObjectTranslator
  • org.intermine.web.logic.TreeNode
  • antlr.TreeParser
    • org.intermine.sql.query.SqlTreeParser (implements org.intermine.sql.query.SqlTokenTypes)
  • org.intermine.web.logic.config.Type
  • org.intermine.api.bag.TypeConverter
  • org.intermine.metadata.TypeUtil
  • org.intermine.metadata.TypeUtil.FieldInfo
  • org.intermine.objectstore.query.UnknownTypeValue
  • org.intermine.web.logic.profile.UpgradeBagList (implements java.lang.Runnable)
  • org.intermine.api.idresolution.UpgradeJob (implements org.intermine.api.idresolution.Job)
  • org.intermine.web.util.URLGenerator
  • org.intermine.web.util.URLUtil
  • org.intermine.api.userprofile.UserProfile (implements org.intermine.model.InterMineObject)
  • org.intermine.metadata.Util
  • org.intermine.web.logic.config.WebConfig
  • org.intermine.web.logic.bag.WebJobInput (implements org.intermine.api.idresolution.JobInput)
  • org.intermine.webservice.server.WebService
    • org.intermine.webservice.server.query.AbstractQueryService
      • org.intermine.webservice.server.query.CodeService
      • org.intermine.webservice.server.query.result.QueryResultService
        • org.intermine.webservice.server.query.result.TableRowService
        • org.intermine.webservice.server.template.result.TemplateResultService
      • org.intermine.webservice.server.query.QueryToListService
        • org.intermine.webservice.server.query.QueryListAppendService
        • org.intermine.webservice.server.template.TemplateToListService
          • org.intermine.webservice.server.template.TemplateListAppendService
    • org.intermine.webservice.server.lists.AvailableListsService
      • org.intermine.webservice.server.lists.ListsService
    • org.intermine.webservice.server.template.AvailableTemplatesService
    • org.intermine.webservice.server.user.DeregistrationService
    • org.intermine.webservice.server.lists.JaccardIndexService
    • org.intermine.webservice.server.core.JSONService
      • org.intermine.webservice.server.lists.AbstractListService
        • org.intermine.webservice.server.lists.AuthenticatedListService
          • org.intermine.webservice.server.lists.ListDeletionService
          • org.intermine.webservice.server.lists.ListMakerService
            • org.intermine.webservice.server.lists.ListOperationService
              • org.intermine.webservice.server.lists.ListDifferenceService
              • org.intermine.webservice.server.lists.ListIntersectionService
              • org.intermine.webservice.server.lists.ListSubtractionService
              • org.intermine.webservice.server.lists.ListUnionService
            • org.intermine.webservice.server.lists.ListUploadService
              • org.intermine.webservice.server.lists.ListAppendService
              • org.intermine.webservice.server.lists.ListUpgradingService
          • org.intermine.webservice.server.lists.ListRenameService
          • org.intermine.webservice.server.lists.ListUpdateService
        • org.intermine.webservice.server.lists.ListTagService
          • org.intermine.webservice.server.lists.ListTagAddingService
            • org.intermine.webservice.server.lists.ListTagRemovalService
      • org.intermine.webservice.server.oauth2.AuthenticatorService
      • org.intermine.webservice.server.widget.AvailableWidgetsService
      • org.intermine.webservice.server.bg.BGPropertiesCreationService
      • org.intermine.webservice.server.bg.BGPropertiesDelationService
      • org.intermine.webservice.server.bg.BGPropertiesService
      • org.intermine.webservice.server.bg.BGPropertiesUpdateService
      • org.intermine.webservice.server.fair.BioEntityMarkupService
      • org.intermine.webservice.server.branding.BrandingService
      • org.intermine.webservice.server.oauth2.CallbackService
      • org.intermine.webservice.server.user.ChangePasswordService
      • org.intermine.webservice.server.jbrowse.Config
      • org.intermine.webservice.server.data.DataService
      • org.intermine.webservice.server.jbrowse.Endpoint
      • org.intermine.webservice.server.FacetListService
      • org.intermine.webservice.server.FacetService
      • org.intermine.webservice.server.FeedbackService
      • org.intermine.webservice.server.fair.HomePageMarkupService
      • org.intermine.webservice.server.idresolution.IdResolutionService
      • org.intermine.webservice.server.idresolution.JobRemovalService
      • org.intermine.webservice.server.idresolution.JobResultsService
      • org.intermine.webservice.server.idresolution.JobStatusService
      • org.intermine.webservice.server.idresolution.ListResolutionService
      • org.intermine.webservice.server.lists.ListShareCreationService
      • org.intermine.webservice.server.lists.ListShareDeletionService
      • org.intermine.webservice.server.lists.ListShareDetailsService
      • org.intermine.webservice.server.lists.ListSharingInvitationAcceptanceService
      • org.intermine.webservice.server.lists.ListSharingInvitationDeletionService
      • org.intermine.webservice.server.lists.ListSharingInvitationDetailsService
      • org.intermine.webservice.server.lists.ListSharingInvitationService
      • org.intermine.webservice.server.user.LoginService
      • org.intermine.webservice.server.user.LogoutService
      • org.intermine.webservice.server.jbrowse.Names
      • org.intermine.webservice.server.user.NewUserService
      • org.intermine.webservice.server.fair.PermanentURLService
      • org.intermine.webservice.server.path.PossibleValuesService
      • org.intermine.webservice.server.user.PswResetService
      • org.intermine.webservice.server.query.QueryStoreService
      • org.intermine.webservice.server.search.QuickSearch
      • org.intermine.webservice.server.core.ReadWriteJSONService
        • org.intermine.webservice.server.user.DeleteTokensService
        • org.intermine.webservice.server.user.NewDeletionTokenService
          • org.intermine.webservice.server.user.DeletionTokenInfoService
            • org.intermine.webservice.server.user.DeletionTokenCancellationService
        • org.intermine.webservice.server.user.PermaTokenDeletionService
        • org.intermine.webservice.server.user.PermaTokenInfoService
        • org.intermine.webservice.server.query.QueryRemovalService
        • org.intermine.webservice.server.user.ReadPreferencesService
          • org.intermine.webservice.server.user.DeletePreferencesService
          • org.intermine.webservice.server.user.SetPreferencesService
        • org.intermine.webservice.server.template.TemplateRemovalService
        • org.intermine.webservice.server.user.TokenService
        • org.intermine.webservice.server.user.TokensService
      • org.intermine.webservice.server.user.RequestPswResetService
      • org.intermine.webservice.server.query.SavedQueryRetrievalService
      • org.intermine.webservice.server.SchemaListService
      • org.intermine.webservice.server.clob.SequenceService
      • org.intermine.webservice.server.SessionService
      • org.intermine.webservice.server.template.SingleTemplateService
      • org.intermine.webservice.server.SummaryService
        • org.intermine.webservice.server.ClassKeysService
      • org.intermine.webservice.server.template.TemplateTagService
        • org.intermine.webservice.server.template.TemplateTagAddingService
          • org.intermine.webservice.server.template.TemplateTagRemovalService
      • org.intermine.webservice.server.VersionService
      • org.intermine.webservice.server.webproperties.WebPropertiesService
      • org.intermine.webservice.server.user.WhoAmIService
      • org.intermine.webservice.server.widget.WidgetService
        • org.intermine.webservice.server.widget.EnrichmentWidgetResultService
        • org.intermine.webservice.server.widget.GraphService
        • org.intermine.webservice.server.widget.TableWidgetService
    • org.intermine.webservice.server.model.ModelService
    • org.intermine.webservice.server.query.QueryRetrieverService
    • org.intermine.webservice.server.query.QueryUploadService
      • org.intermine.webservice.server.query.QueryUpdateService
    • org.intermine.webservice.server.template.SystemTemplatesService
    • org.intermine.webservice.server.template.TemplateUploadService
  • org.intermine.api.query.codegen.WebserviceCodeGenInfo
  • org.intermine.webservice.server.WebServiceConstants
  • org.intermine.webservice.server.WebServiceInput
    • org.intermine.webservice.server.lists.ListsServiceInput
    • org.intermine.webservice.server.query.result.QueryResultInput
    • org.intermine.web.logic.template.TemplateResultInput
  • org.intermine.api.query.codegen.WebserviceJavaCodeGenerator (implements org.intermine.api.query.codegen.WebserviceCodeGenerator)
  • org.intermine.api.query.codegen.WebserviceJavaScriptCodeGenerator (implements org.intermine.api.query.codegen.WebserviceCodeGenerator)
  • org.intermine.api.query.codegen.WebservicePerlCodeGenerator (implements org.intermine.api.query.codegen.WebserviceCodeGenerator)
  • org.intermine.api.query.codegen.WebservicePythonCodeGenerator (implements org.intermine.api.query.codegen.WebserviceCodeGenerator)
  • org.intermine.webservice.server.WebServiceRequestParser
    • org.intermine.webservice.server.query.QueryRequestParser
      • org.intermine.webservice.server.query.result.QueryResultRequestParser
    • org.intermine.webservice.server.template.result.TemplateResultRequestParser
  • org.intermine.api.query.codegen.WebserviceRubyCodeGenerator (implements org.intermine.api.query.codegen.WebserviceCodeGenerator)
  • org.intermine.web.logic.results.WebState
  • org.intermine.web.logic.WebUtil
  • org.intermine.web.logic.WebUtil.HeadResource
  • org.intermine.web.logic.widget.Widget
    • org.intermine.web.logic.widget.EnrichmentWidget
    • org.intermine.web.logic.widget.GraphWidget
    • org.intermine.web.logic.widget.HTMLWidget
    • org.intermine.web.logic.widget.TableWidget
  • org.intermine.web.logic.widget.config.WidgetConfig
    • org.intermine.web.logic.widget.config.EnrichmentWidgetConfig
    • org.intermine.web.logic.widget.config.GraphWidgetConfig
    • org.intermine.web.logic.widget.config.HTMLWidgetConfig
    • org.intermine.web.logic.widget.config.TableWidgetConfig
  • org.intermine.web.logic.widget.config.WidgetConfigUtil
  • org.intermine.web.logic.widget.WidgetLdr
    • org.intermine.web.logic.widget.EnrichmentWidgetImplLdr
    • org.intermine.web.logic.widget.GraphWidgetLoader (implements org.intermine.web.logic.widget.DataSetLdr)
    • org.intermine.web.logic.widget.TableWidgetLdr
  • org.intermine.webservice.server.widget.WidgetProcessorImpl (implements org.intermine.webservice.server.widget.WidgetProcessor)
    • org.intermine.webservice.server.widget.FlatWidgetProcessor
    • org.intermine.webservice.server.widget.JSONWidgetProcessor
    • org.intermine.webservice.server.widget.XMLWidgetProcessor
  • org.intermine.webservice.server.widget.WidgetsRequestParser
  • org.intermine.webservice.server.widget.WidgetsServiceInput (implements org.intermine.web.logic.widget.EnrichmentOptions)
    • org.intermine.webservice.server.widget.WidgetsServiceInput.Builder
  • java.io.Writer (implements java.lang.Appendable, java.io.Closeable, java.io.Flushable)
    • org.intermine.sql.logging.DatabaseWriter
    • java.io.PrintWriter
      • org.intermine.web.logic.export.CustomPrintWriter
  • org.intermine.util.XmlBinding
  • org.intermine.xml.XmlHelper
  • org.intermine.util.XmlUtil
  • org.intermine.webservice.server.query.result.XMLValidator
  • org.intermine.webservice.server.query.result.XMLValidatorErrorHandler (implements org.xml.sax.ErrorHandler)

Interface Hierarchy

• org.intermine.api.API
• org.intermine.api.bag.operations.BagProducer
• org.intermine.webservice.server.idresolution.BagResultFormatter
• org.intermine.sql.writebatch.BatchWriter
• org.intermine.api.search.ChangeEvent
• org.intermine.objectstore.query.ConstraintTraverseAction
• org.intermine.objectstore.query.ConstraintWithBag
• org.intermine.web.logic.widget.CorrectionCoefficient
• org.intermine.dataconversion.DataConverterStoreHook
• org.intermine.web.logic.widget.DataSetLdr
• org.intermine.web.logic.widget.EnrichmentInput
• org.intermine.webservice.server.widget.EnrichmentResultProcessor
• org.intermine.dataloader.EquivalentObjectFetcher
• org.intermine.web.logic.export.Exporter
• org.intermine.model.FastPathObject
  • org.intermine.model.InterMineFastPathObject
    • org.intermine.model.InterMineObject
• org.intermine.web.logic.export.FieldExporter
• org.intermine.sql.writebatch.FlushJob
• org.intermine.objectstore.query.FromElement
• org.intermine.webservice.server.core.Function<A,B>
  • org.intermine.webservice.server.core.Predicate<T>
• org.intermine.objectstore.query.HasFromList
• org.intermine.api.bag.IdUpgrader
• org.intermine.api.searchengine.IndexHandler
• org.intermine.web.displayer.InterMineLinkGenerator
• org.intermine.objectstore.query.iql.IqlTokenTypes
• org.intermine.dataconversion.ItemWriter
• java.lang.Iterable<T>
  • java.util.Collection<E>
    • org.intermine.objectstore.proxy.LazyCollection<E> (also extends org.intermine.objectstore.proxy.Lazy)
    • java.util.List<E>
      • org.intermine.api.results.WebTable
• org.intermine.api.idresolution.JobInput
• org.intermine.web.security.KeyDecoder
• org.intermine.api.searchengine.KeywordSearchHandler
• org.intermine.objectstore.proxy.Lazy
  • org.intermine.objectstore.proxy.LazyCollection<E> (also extends java.util.Collection<E>)
• org.intermine.webservice.server.lists.ListFormatter
• org.intermine.webservice.server.lists.ListMaker<T>
• org.intermine.pathquery.LogicTokenTypes
• org.intermine.web.context.MailAction
• java.util.Map<K,V>
  • org.intermine.api.types.ClassKeys
• org.intermine.webservice.server.jbrowse.MapListener<K,V>
• org.intermine.util.MappingUtilChecker<T>
• org.intermine.api.mines.Mine
  • org.intermine.api.mines.ConfigurableMine
• org.intermine.api.mines.MineRequester
• org.intermine.metadata.ModelParser
• org.intermine.web.struts.oauth2.OAuthProvider
• org.intermine.objectstore.ObjectStore
  • org.intermine.objectstore.ObjectStoreWriter
    • org.intermine.dataloader.IntegrationWriter
• org.intermine.webservice.server.core.Producer<T>
• org.intermine.web.security.PublicKeySource
• org.intermine.objectstore.query.Queryable
• org.intermine.web.logic.query.QueryMonitor
• org.intermine.objectstore.query.QueryOrderable
  • org.intermine.objectstore.query.QueryNode (also extends org.intermine.objectstore.query.QuerySelectable)
    • org.intermine.objectstore.query.QueryEvaluable
• org.intermine.objectstore.query.QuerySelectable
  • org.intermine.objectstore.query.QueryNode (also extends org.intermine.objectstore.query.QueryOrderable)
    • org.intermine.objectstore.query.QueryEvaluable
  • org.intermine.objectstore.query.QueryPathExpression
    • org.intermine.objectstore.query.QueryPathExpressionWithSelect
• org.intermine.api.query.QueryStore
• org.intermine.webservice.server.search.QuickSearchResultProcessor
• org.intermine.api.query.range.Range
• org.intermine.api.query.RangeHelper
• org.intermine.util.ReferenceMap.ReferenceWithKey<K>
• org.intermine.web.logic.ResourceOpener
• org.intermine.api.results.ResultCell
• org.intermine.webservice.server.core.ResultRowParser
• org.intermine.web.logic.export.RowFormatter
• java.lang.Runnable
  • org.intermine.api.idresolution.Job
• org.intermine.model.ShadowClass
• org.intermine.util.Shutdownable
• org.intermine.sql.query.SQLStringable
• org.intermine.sql.query.SqlTokenTypes
• org.intermine.sql.writebatch.Table
• org.intermine.web.logic.export.http.TableHttpExporter
• org.intermine.api.profile.TagChecker
• org.intermine.api.profile.Taggable
  • org.intermine.api.search.WebSearchable
• org.intermine.api.tracker.track.Track
• org.intermine.api.tracker.Tracker
• org.intermine.api.search.WebSearchWatcher
• org.intermine.api.query.codegen.WebserviceCodeGenerator
• org.intermine.web.logic.widget.WidgetHelper
• org.intermine.web.logic.widget.WidgetOptions
  • org.intermine.web.logic.widget.EnrichmentOptions
• org.intermine.webservice.server.widget.WidgetProcessor
• org.intermine.webservice.server.widget.WidgetResultProcessor

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • org.intermine.api.profile.BagState
    • org.intermine.webservice.server.ColumnHeaderStyle
    • org.intermine.webservice.server.jbrowse.Commands.Action
    • org.intermine.api.mines.ContentType
    • org.intermine.sql.DatabaseUtil.Type
    • org.intermine.web.logic.widget.ErrorCorrection.Strategy
    • org.intermine.webservice.server.Format
    • org.intermine.web.logic.widget.GraphWidgetActionType
    • org.intermine.api.idresolution.Job.JobStatus
    • org.intermine.webservice.server.output.JSONRowResultProcessor.Verbosity
    • org.intermine.webservice.server.JWTBuilder.Algorithm
    • org.intermine.api.searchengine.KeywordSearchFacetType
    • org.intermine.api.tracker.util.ListBuildMode
    • org.intermine.api.tracker.util.ListTrackerEvent
    • org.intermine.web.struts.oauth2.MessageFormat
    • org.intermine.pathquery.OrderDirection
    • org.intermine.pathquery.OuterJoinStatus
    • org.intermine.api.profile.ProfileManager.ApiPermission.Level
    • org.intermine.web.struts.oauth2.ResponseType
    • org.intermine.template.SwitchOffAbility
    • org.intermine.api.search.TaggingEvent.TagChange
    • org.intermine.api.profile.TagMapper.Field
    • org.intermine.template.TemplateValue.ValueType
    • org.intermine.webservice.server.core.WebServiceServlet.Method
    • org.intermine.webservice.server.widget.WidgetProcessorImpl.WidgetType