- generateSummaryReport(Map<File, List<Tuple>>, PrintStream, String) - Static method in class uk.ac.ebi.ddi.xml.validator.cli.ValidatorCLI
-
- getAcc() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the acc property.
- getAdditionalFields() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the additionalFields property.
- getAdditionalFieldValue(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
- getAdditionalFieldValues(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Return of a key all the values in the Entry fot the given key
- getAllEntries() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getAuthors() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the authors property.
- getBoost() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry.Name
-
Gets the value of the boost property.
- getBoost() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
Gets the value of the boost property.
- getBoost() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Reference
-
Gets the value of the boost property.
- getClassType() - Method in enum uk.ac.ebi.ddi.xml.validator.parser.model.DataElement
-
- getCrossReferenceFieldValue(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Return a list of values for specific cross-reference database
- getCrossReferences() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the crossReferences property.
- getDatabaseName() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getDate() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.DatesType
-
Gets the value of the date property.
- getDateByKey(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.DatesType
-
- getDates() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the dates property.
- getDbkey() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Reference
-
Gets the value of the dbkey property.
- getDbname() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Reference
-
Gets the value of the dbname property.
- getDescription() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Gets the value of the description property.
- getDescription() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the description property.
- getDescription() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- getDescription() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getDescription() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
- getEntries() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Gets the value of the entries property.
- getEntry() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entries
-
Gets the value of the entry property.
- getEntryById(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
This function return the information of an element using the the id in the XML, for example PXD00001
- getEntryByIndex(Integer) - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
THis function return an entry using the index element in the file for example first element (index = 0),
second element (index = 1)
- getEntryCount() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Gets the value of the entryCount property.
- getEntryCount() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- getEntryCount() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getEntryIds() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
Return all the entry Ids from the XML
- getField() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.AdditionalFields
-
Gets the value of the field property.
- getFullName() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.BiologicalDatabases
-
- getFullName() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- getHid() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.DataObject
-
- getId() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the id property.
- getInstance() - Static method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.MarshallerFactory
-
- getInstance() - Static method in class uk.ac.ebi.ddi.xml.validator.parser.unmarshaller.OmicsUnmarshallerFactory
-
- getKey() - Method in class uk.ac.ebi.ddi.xml.validator.utils.Tuple
-
- getKeywords() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the keywords property.
- getName() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Gets the value of the name property.
- getName() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Gets the value of the name property.
- getName() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
Gets the value of the name property.
- getName() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- getName() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getName() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.BiologicalDatabases
-
- getName() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
- getName() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- getNamespaceContext() - Method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLStreamWriter
-
- getOmicsType(String) - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- getParentType() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
- getParentType() - Method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- getPrefix(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLStreamWriter
-
- getProperty(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLStreamWriter
-
- getQNameForClass(Class<? extends IDataObject>) - Static method in class uk.ac.ebi.ddi.xml.validator.parser.model.ModelConstants
-
- getRef() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.CrossReferences
-
Gets the value of the ref property.
- getRelease() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Gets the value of the release property.
- getRelease() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- getRelease() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getReleaseDate() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Gets the value of the releaseDate property.
- getReleaseDate() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- getReleaseDate() - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- getRepository() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
- getType() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Date
-
Gets the value of the type property.
- getValue() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Date
-
Gets the value of the value property.
- getValue() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry.Name
-
Gets the value of the value property.
- getValue() - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
Gets the value of the value property.
- getValue() - Method in class uk.ac.ebi.ddi.xml.validator.utils.Tuple
-
- getXpath() - Method in enum uk.ac.ebi.ddi.xml.validator.parser.model.DataElement
-
- getXpaths() - Static method in enum uk.ac.ebi.ddi.xml.validator.parser.model.DataElement
-
- setAcc(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the acc property.
- setAdditionalFields(AdditionalFields) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the additionalFields property.
- setAuthors(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the authors property.
- setBoost(Float) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry.Name
-
Sets the value of the boost property.
- setBoost(Float) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
Sets the value of the boost property.
- setBoost(Float) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Reference
-
Sets the value of the boost property.
- setCrossReferences(CrossReferences) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the crossReferences property.
- setCrossReferences(List<Reference>) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
- setDatabaseName(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- setDates(DatesType) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the dates property.
- setDbkey(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Reference
-
Sets the value of the dbkey property.
- setDbname(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Reference
-
Sets the value of the dbname property.
- setDefaultNamespace(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLStreamWriter
-
- setDescription(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Sets the value of the description property.
- setDescription(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the description property.
- setDescription(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- setDescription(String) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
- setEntries(Entries) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Sets the value of the entries property.
- setEntries(List<Entry>) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
- setEntryCount(Integer) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Sets the value of the entryCount property.
- setEntryCount(Integer) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- setField(List<Field>) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.AdditionalFields
-
- setFullName(String) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.BiologicalDatabases
-
- setFullName(String) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- setId(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the id property.
- setKey(K) - Method in class uk.ac.ebi.ddi.xml.validator.utils.Tuple
-
- setKeywords(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the keywords property.
- setName(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Sets the value of the name property.
- setName(Entry.Name) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
Sets the value of the name property.
- setName(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry
-
- setName(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
Sets the value of the name property.
- setName(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- setName(String) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.BiologicalDatabases
-
- setName(String) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
- setName(String) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- setNamespaceContext(NamespaceContext) - Method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLStreamWriter
-
- setParentType(DatasetType) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
- setParentType(OmicsType[]) - Method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
- setPrefix(String, String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLStreamWriter
-
- setRef(List<Reference>) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.CrossReferences
-
- setRelease(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Sets the value of the release property.
- setRelease(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- setReleaseDate(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Database
-
Sets the value of the releaseDate property.
- setReleaseDate(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- setType(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Date
-
Sets the value of the type property.
- setValue(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Date
-
Sets the value of the value property.
- setValue(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry.Name
-
Sets the value of the value property.
- setValue(String) - Method in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
Sets the value of the value property.
- setValue(V) - Method in class uk.ac.ebi.ddi.xml.validator.utils.Tuple
-
- SUBSTITUTE - Static variable in class uk.ac.ebi.ddi.xml.validator.parser.marshaller.EscapingXMLUtilities
-
- SummaryDatabase - Class in uk.ac.ebi.ddi.xml.validator.parser.model
-
- SummaryDatabase() - Constructor for class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- SummaryDatabase(String, String, String, String, Integer) - Constructor for class uk.ac.ebi.ddi.xml.validator.parser.model.SummaryDatabase
-
- validateDate(String) - Static method in class uk.ac.ebi.ddi.xml.validator.utils.Utils
-
- validateSchema(File) - Static method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
Return Error as a Tuple with the Code of the Error and the message.
- validateSemantic(File) - Static method in class uk.ac.ebi.ddi.xml.validator.parser.OmicsXMLFile
-
- validateSemantic(Entry) - Static method in class uk.ac.ebi.ddi.xml.validator.utils.Utils
-
- ValidatorCLI - Class in uk.ac.ebi.ddi.xml.validator.cli
-
This class allow the user to interact with the library:
- Validate files.
- ValidatorCLI() - Constructor for class uk.ac.ebi.ddi.xml.validator.cli.ValidatorCLI
-
- value - Variable in class uk.ac.ebi.ddi.xml.validator.parser.model.Date
-
- value - Variable in class uk.ac.ebi.ddi.xml.validator.parser.model.Entry.Name
-
- value - Variable in class uk.ac.ebi.ddi.xml.validator.parser.model.Field
-
- valueOf(String) - Static method in enum uk.ac.ebi.ddi.xml.validator.parser.model.DataElement
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.BiologicalDatabases
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
Returns the enum constant of this type with the specified name.
- values() - Static method in enum uk.ac.ebi.ddi.xml.validator.parser.model.DataElement
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.BiologicalDatabases
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.DatasetType
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum uk.ac.ebi.ddi.xml.validator.utils.OmicsType
-
Returns an array containing the constants of this enum type, in
the order they are declared.