apollo.config
Class RiceNameAdapter

java.lang.Object
  apollo.config.DefaultNameAdapter
      apollo.config.GmodNameAdapter
          apollo.config.RiceNameAdapter

All Implemented Interfaces:

ApolloNameAdapterI

public class RiceNameAdapter
extends GmodNameAdapter

Field Summary

Fields inherited from class apollo.config.GmodNameAdapter

annotNumber, logger

Constructor Summary

RiceNameAdapter()

Method Summary

protected java.lang.String

getDefaultIDPrefix() The prefix to use if idFormat is not specified in tiers file for a type

Methods inherited from class apollo.config.GmodNameAdapter

generateAnnotSplitName, generateId, generateName, generatePeptideIdFromTranscriptId, generatePeptideNameFromTranscriptName, generateTranscriptId, generateTranscriptSuffix, getIDPrefix, getNewChadoDbUniquename, getNewChadoDbUniquename, getNewIdFromTypeChange, getPeptideSuffixRoot, getPrefix, getTranscriptNamePattern, getTranscriptOrdinalPattern, getTranscriptSuffix, getTranscriptSuffixRoot, isAnnotId, match, nameIsId, needsSuffix, setAnnotName, setPeptideIdFromTranscript, setSeqNamesFromTranscript, setTranscriptId, setTranscriptName, setTranscriptNameFromAnnot, suffixInUse, transcriptCanHaveTempSuffix, transcriptOrdinalIsNumeric, typeChangeCausesIdChange

Methods inherited from class apollo.config.DefaultNameAdapter

addSynonym, checkFormat, checkName, generateChadoCdsIdFromTranscriptId, generateChadoCdsNameFromTranscriptName, generateExonId, generateName, generateNewExonId, generateNewId, getSuffixDelimiter, getTransactionManager, idAndNameHaveSameFormat, isTemp, isTemp, nextAnnotNumber, setAnnotId, setDataAdapter, setId, setName, setTransactionManager, skipUsedTempNum, updateExonId

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

RiceNameAdapter

public RiceNameAdapter()

Method Detail

getDefaultIDPrefix

protected java.lang.String getDefaultIDPrefix()

The prefix to use if idFormat is not specified in tiers file for a type

Overrides:

getDefaultIDPrefix in class GmodNameAdapter