  cz | |
 vutbr | |
| fit | |
| knot | |
| annotations | |
 app | Global objects and constants |
   AppBean | Singleton for storing global variables |
| Constants | Global constants |
| LastTextModifications | Class representing last applied modifications on a document |
| Localisation | Class responsible for localised strings |
| PersistM | Persistence manager (database manipulator) |
 TextModification | Class representing modification of annotated document text |
 TextModificationException | Class for throwing exceptions which are directly related to some text modification |
| comet | Classes related to communication with client, session handling etc |
| documentLock | Classes responsible for synchronization of modifications of the document |
| LockMaster | Class manages documents locks |
| Padlock | Class represents the document protection, and provides methods to lock |
| protocolV1 | Classes which process XML with messages in 4A protocol v 1.x |
| P1Processor | Class which process XML with messages in 4A protocol v 1.x |
| protocolV2_0 | Classes which process XML with messages in 4A protocol v 2.0 |
| P2Trix | Classes which represents trix triples |
| P2BaseTrix | Class that represents base trix triple |
| P2EntityAdditionalTrix | Class that represents entity additional attribute trix triple |
| P2EntityTrix | Class that represents entity trix triple |
| P2LinkedTrix | Class that represents linked trix triple |
| P2NestedTrix | Class that represents nested trix triple |
| P2SimpleTrix | Class that represents simple trix triple |
| P2AnnotationProcessor | Class which parses and process XML with messages with annotations for protocol version 2 |
| P2AnnotBaseProcessor | Abstract class provides a parser for the annotation of protocol version 2 |
| P2AnnotTypeProcessor | Class which parses and process XML with messages with types for protocol version 2 |
| P2Constants | Constants for protocol version 2 |
| P2MessagesCreator | Class provides methods for transforming objects to messages |
| P2Processor | Class which parses and process XML with messages for protocol version 2 |
| P2SuggestionProcessor | Class which process messages related to suggestions in protocol v 2.0 |
| SuggestionFragmentComp | Class which implements Comparator to sort arrayList of SuggestionFragment alphabetically |
| AnnotCometServlet | Servlet for communication with clients (annotation editors) |
| AnnotHandler | Comet handler |
| AnnotServerModule | Interface for server module |
| DrupAuthServlet | Servlet which allows Drupal CMS to send informations about it's users |
| EditorSession | Informations about client session |
| Flier | Flier with informations for comet handlers |
| GetAnnotServlet | Servlet which makes available annotations |
| GetDocServlet | Servlet which makes available annotated copies of documents |
| Linearizer | Utility functions for document linearization |
| MessageProcessor | Static class which parses and process XML with messages |
| Persister | Static class which persists data to the database |
| RequestInfo | Processed informations about client request |
| EntityRequest | Holds information about the query to dictionary entries |
| ResponseCreator | Class that creates responses and persists data |
| SessionCleaner | Class that provides cleaning of unactive sessions (basic version, not final) |
| CheckAndClean | Class implement run() method. That method go trough list of sessions and try to find expired sessions. First kind of expiration occur in case of client unactivity second kind occur in case of lost connection with annotation client. This object detect both cases and remove session from sessions list |
| SubscribedSource | Subscribed source of annotations |
| SuggestionLogEntry | Suggested annotation with informations about suggestion |
| Util | Utility class (manipulates RFC 3339 dates) |
| document | Classes responsible for handling and updating of document |
| DocumentUpdate | Update of document |
| DocumentUpdateException | Exception of DocumentUpdate class which is thrown in case of modification failure |
| DocumentUpdateHelper | Document update Helper |
| Pair< L, R > | Java equivalent of C++ Pair or C# Tupple |
| documentCloner | Classes responsible for cloning document with all annotations |
| AnnotCloneItem | Class representing annotations for clone list item |
| CloneParams | Class representing paramethers for document cloning |
| DocClonerServer | Class representing approved document clone server |
| DocumentClone | Class provides document clonning with new content, iniciated from NLP |
| DocumentClonerServlet | Servlet for communication with NLP server (for document clonning) |
| entity | Basic persistent entities |
| attribute | Classes for representing particular types of attributes of annotations |
| AnyAnnotationAttribute | Class representing attribute of type AnyAnnotation |
| AttributeManager | Class attribute manager provides a way how to create new attributes |
| BaseAttribute | Base class representing attribute of annotation |
| BinaryAttribute | Class representing attribute of type Binary |
| BooleanAttribute | Class representing attribute of type Boolean |
| DateAttribute | Class representing attribute of type Date |
| DateTimeAttribute | Class representing attribute of type DateTime |
| DecimalAttribute | Class representing attribute of type Decimal |
| DurationAttribute | Class representing attribute of type Duration |
| EntityAdditionalAttribute | Additional attribute of entity in annotation attribute |
| EntityAttribute | Class representing vocabulary entity attribute |
| Entity | Class holds values of dictionary entity |
| GeoPointAttribute | Class representing attribute of type GeoPoint |
| GeoPoint | This class represents GeoPoint value |
| ImageAttribute | Class representing attribute of type Image |
| IntegerAttribute | Class representing attribute of type Integer |
| LinkedAnnotationAttribute | Class representing attribute of type AnnotationLink |
| NestedAnnotationAttribute | Class representing attribute of type NestedAnnotation |
| PersonAttribute | Class representing attribute of type Person |
| StringAttribute | Class representing attribute of type String. |
| StructuredAttribute | Abstract class representing more complex attribute |
| TextAttribute | Class representing attribute of type Text |
| TimeAttribute | Class representing attribute of type Time |
| UriAttribute | Class representing attribute of type URI |
| Annotation | Class representing annotation |
| AnnotDocument | Class representing annotated copy of document |
| AnnotType | Class representing type of annotation |
| AnnotTypeAttr | Class representing attribute of type of annotation |
| DefaultSettings | Class representing parameter of default user settings |
| DrupAuthServer | Class representing approved drupal authentization server |
| Fragment | Class representing annotated fragment |
| ServerSetting | Class representing parameter of server settings |
| Settings | Class representing parameter of user settings |
| Source | Class representing source of subscription |
| StoredDocument | Class representing stored document |
| Subscription | Class representing subscription |
| TypeAttrOnto | Class representing attribute of unknown type of annotation |
| User | Class representing user |
| UserGroup | Class representing user group |
| fragmentUpdater | Library for updating fragments of documents |
| compareMethods | Compare methods for comparing strings |
| CompareMethod | Generic abstract class for compare methods |
| ExactMethod | Exact compare method |
| LevenshteinMethod | Compare class using Levenshtein approximate string matching method |
| MetaphoneMethod | Compare class using Metaphone approximate string matching method |
| SoundexMethod | Compare class using Soundex approximate string matching method |
| nodeIterators | Node iterators for iterating through XML document nodes |
| BidirectionallyUnNestNodeIterator | Node iterator which is gradually unnesting |
| flow | Next node sides |
| NodeIterator | Generic class for node iterators |
| RecursiveNodeIterator | Recursive node iterator |
| SequenceNodeIterator | Sequence node iterator |
| XPathNodeIterator | Exact XPath node iterator |
| Comparator | Class consisting of traversing method and compare method |
| IndexAndlength | Auxiliary class with index, offset and word length |
| TraversingMethod | Names of traversing methods |
| Matcher | Class for matcher consisting of comparator and node iterator |
| MatcherProvider | Class providing access to available matchers |
| MatcherWrapper | Wrapper class for matcher |
| UpdatableFragment | Class for XML document fragment |
| XPathHelper | Helper class with util XPath methods |
| modules | Modules with server functionality |
| SECDictionaryInterface | Classes responsible for connection to the controlled vocabulary |
| SECDInterfaceModule | Class provides connection of SEC Dictionary module with server |
| SECDInterfaceThread | Class forwards queries from anotation client to the SEC API server and and creates a message for annotation client with the results from the SEC API server |
| StoryscopeInterface | Classes responsible for export of data (annotations and types) to StoryScope |
| SavedMessage | This class represent saved message that belongs unavailable StoryScope |
| StoryScope | Class representing StoryScope for needs of SEC Interface |
| StoryscopeInterfaceModule | Class provides connection of Storyscope Interface module with server |
| StoryscopeInterfaceSender | Class represent thread of Storyscope Interface that sends messages to StoryScopes |
| SubscribedItem | Class representing item of subscripted or unsubscripted sources list |
| suggestionManager | Classes responsible for management of suggestions |
| alternative | Classes responsible for work with alternatives of suggestions |
| AltEntityAdditionalAttribute | Class representing additional attribute of entity in alternative attribute |
| Alternative | Class representing alternative of suggestion |
| AlternativeAttribute | Class representing attribute of alternative of suggestion |
| AlternativeFragment | Class representing fragment for suggestion alternative |
| AlternativeManager | Class for manipulation with alternatives of suggestions |
| AltLinkedAttribute | Class representing attribute of type AnnotationLink for purpose of alternative |
| SecAttribute | Interface for SugBaseAttribute and AlternativeAttribuge |
| SecFragment | Interface for SuggestionFragment and AlternativeFragment |
| SecSuggestion | Interface for Suggestion and Alternative |
| attributes | Classes for representing particular types of attributes of suggestions |
| SugAnyAttribute | Class representing attribute of type AnyAnnotation for prupose of suggestion |
| SugAttributeManager | Attribute manager provides a way how to create new attributes for prupose of suggestion |
| SugBaseAttribute | Class representing attribute of suggestion |
| SugBinaryAttribute | Class representing attribute of type Binary for prupose of suggestion |
| SugBooleanAttribute | Class representing attribute of type Boolean for prupose of suggestion |
| SugDateAttribute | Class representing attribute of type Date for prupose of suggestion |
| SugDateTimeAttribute | Class representing attribute of type DateTime prupose of suggestion |
| SugDecimalAttribute | Class representing attribute of type Decimal for prupose of suggestion |
| SugDurationAttribute | Class representing attribute of type Duration for prupose of suggestion |
| SugEntityAdditionalAttribute | Additional attribute of entity in suggestion attribute |
| SugEntityAttribute | Class representing vocabulary entity attribute for prupose of suggestion |
| SugGeoPointAttribute | Class representing attribute of type GeoPoint |
| SugImageAttribute | Class representing attribute of type Image for pruposes of suggestion |
| SugIntegerAttribute | Class representing attribute of type Integer for prupose of suggestion |
| SugLinkedAttribute | Class representing attribute of type AnnotationLink for prupose of suggestion |
| SugNestedAttribute | Class representing attribute of type NestedAnnotation for peupose of suggestion |
| SugPersonAttribute | Class representing attribute of type Person for peupose of suggestion |
| SugStringAttribute | Class representing attribute of type String for prupose of suggestion |
| SugStructuredAttribute | Abstract class representing more complex attribute of suggestion |
| SugTextAttribute | Class representing attribute of type Text for prupose of suggestion |
| SugTimeAttribute | Class representing attribute of type Time for prupose of suggestion |
| SugUriAttribute | Class representing attribute of type URI for prupose of suggestion |
| AnnotSugPair | Class holds pair of suggestion and corresponding anntation |
| NERInterface | Interface for call of external program (deamon) |
| SECAPIConn | Class implementing functions for communication with remote SEC API |
| SECAPIInterface | Interface for call of SEC API as external program (deamon) |
| SecApiReqTypeDef | Class for creating of requested type definition for SEC API |
| SECAPISuggestionTranslator | Methods for translating output from SEC API to the Suggestion objects |
| TranslateAlternativeHolder | The object that hold informations ipmortant for translate of alternative from SEC Api |
| ConfidenceComparator | The object implements comparator of Alternative objects that are compared by confidence (from highest to lowest confidence) |
| SECTypesTranslator | Translates JSON with types from SEC API to requested type definitions |
| Suggestion | Class representing suggestion of annotation |
| SuggestionFeedback | Represents database entitiy with suggestion feedback. feedback |
| SuggestionFragment | Class representing suggested annotation fragment |
| SuggestionManager | Class provides offerining of suggestions with usage of local knowledge repository |
| ConfidenceComparator | The object implements comparator of Alternative objects that are compared by confidence (from highest to lowest confidence) |
| SuggestionFragmentComp | Class which implements Comparator to sort arrayList of SuggestionFragment alphabetically |
| SuggestionSource | Source of suggestions |
| SuggestionManagerModule | Class implements module for suggestiong of annotations |
| SugPersister | Static class which persists suggestion data to the database |
| CoreFuncModule | Document, annotations and types manipulation functionality |
| PersonsModule | Operations with persons (users of this server) and with user groups |
| textModifications | Classes for providing TextModification differences between two versions of document |
| TextModificationsXMLUnitProvider | TextModification provider |
| web | Administration interface backbeans |
| AttrO | Backbean for page with attributes from ontology |
| ATypes | Backbean for page with types of annotations |
| CloneServerMain | Backbean for page with administration of document cloner approved servers |
| Documents | Backbean for page with administration of uploaded documents |
| DrupAuthServerMain | Backbean for page with administration of drupal authorization servers |
| EditAT | Backbean for adding, editing and deleting of types of annotations |
| EditATA | Backbean for managing attributes of types of annotations |
| EditDocumentCloneServer | Backbean of pages for managing document clonner approved servers |
| EditDrupAuthServer | Backbean of pages for managing drupal authorization approved servers |
| EditServerSetting | Backbean for pages for editing of server settings |
| EditStoryScope | Backbean for pages for adding, editing and deleting of StoryScopes |
| EditSubscriptions | Backbean for pages for adding, editing and deleting of StoryScope's subscriptions |
| EditTAO | Backbean for managing attributes from ontology |
| EditUG | Backbean for adding, editing and deleting of user group |
| EditUser | Backbean for adding, editing and deleting of users |
| EditUserASSetting | Backbean for pages for adding, editing and deleting of user annotation style settings |
| EditUserDefaultASSetting | Backbean for pages for adding, editing and deleting of default annotation style settings for new users |
| EditUserDefaultSetting | Backbean for pages for adding, editing and deleting of simple user settings |
| EditUserSetting | Backbean for pages for adding, editing and deleting of simple user settings |
| GetDocumentServlet | Servlet which makes available uploaded documents |
| Index | Backbean for index page |
| Login | Backbean for login page |
| Menu | Backbean for template.xhtml, class for menu handling |
| MessageProvider | Class for getting localized messages from message bundle |
| OWLVisitorForRestrictionData | Class collect information about restrictions |
| CardinalityData | Data class for cardinality restriction |
| HasValueData | Data class for hasValue restriction |
| ValueData | Data class for someValueFrom and allValueFrom restriction |
| RenameTypes | Backbean for page for batch renaming of types of annotations |
| SelectAT | Backbean for page with selection of type of annotation |
| ServerSettings | Backbean for page with list of server settings |
| SessionManager | Class for manipulating with session |
| SetServerURI | Backbean for administration of users |
| StoryscopesMain | Backbean for page with administration of StoryScopes |
| Subscriptions | Backbean for page with administration of subscriptions |
| TextsFromOWLConstants | Class with constants for ontology import |
| TypeSelect | Backbean for page with selection of annotation type |
| UploadDocument | Backbean for for page for uploading documents |
| UploadOntology | Backbean for for page for uploading ontology |
| AnnotTypeInfo | Class for additional information about AnnotType |
| BooleanHolder | Class for boolean reference pass |
| PropertyReference | Class with reference to OWLObjectProperty or OWLDataProperty |
| UserDefaultSettings | Backbean for page with list of default settings for new user |
| UserGroups | Backbean for administration of user groups |
| UserGroupSelectionForUser | Backbean for administration of user groups |
| Users | Backbean for administration of users |
| UserSelectionForGroup | Backbean for page with selection of user |
| UserSettings | Backbean for page with list of user settings |
| WebSession | Class for handling session variables in the web |
1.8.6 
