- Base64BinaryTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- Base64BinaryTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- Base64BinaryTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.Base64BinaryTranslator
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- Base64BinaryTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.Base64BinaryTranslator
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- BasicEventReceiver<P extends WriterStreamDataProvider<? extends AbstractEventWriter<P>>> - Class in info.bioinfweb.jphyloio.dataadapters.implementations.receivers
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Most event receivers will be inherited from this class.
- BasicEventReceiver<P extends WriterStreamDataProvider<? extends AbstractEventWriter<P>>> - Class in info.bioinfweb.jphyloio.dataadapters.implementations.receivers
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Most event receivers will be inherited from this class.
- BasicEventReceiver(P, ReadWriteParameterMap) - Constructor for class info.bioinfweb.jphyloio.dataadapters.implementations.receivers.BasicEventReceiver
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Creates a new instance of this class.
- BasicEventReceiver(P, ReadWriteParameterMap) - Constructor for class info.bioinfweb.jphyloio.dataadapters.implementations.receivers.BasicEventReceiver
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Creates a new instance of this class.
- BasicTextCommentEventReceiver<P extends TextWriterStreamDataProvider<? extends AbstractTextEventWriter<P>>> - Class in info.bioinfweb.jphyloio.formats.text
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Basic event receiver implementation that writes comments to text formats that are delimited by a start and an end string.
- BasicTextCommentEventReceiver<P extends TextWriterStreamDataProvider<? extends AbstractTextEventWriter<P>>> - Class in info.bioinfweb.jphyloio.formats.text
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Basic event receiver implementation that writes comments to text formats that are delimited by a start and an end string.
- BasicTextCommentEventReceiver(P, ReadWriteParameterMap, String, String) - Constructor for class info.bioinfweb.jphyloio.formats.text.BasicTextCommentEventReceiver
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Creates a new instance of this class.
- BasicTextCommentEventReceiver(P, ReadWriteParameterMap, String, String) - Constructor for class info.bioinfweb.jphyloio.formats.text.BasicTextCommentEventReceiver
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Creates a new instance of this class.
- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in class info.bioinfweb.jphyloio.formats.nexus.blockhandlers.CharactersDataUnalignedBlockHandler
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- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in class info.bioinfweb.jphyloio.formats.nexus.blockhandlers.CharactersDataUnalignedBlockHandler
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- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in interface info.bioinfweb.jphyloio.formats.nexus.blockhandlers.NexusBlockHandler
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This method is called before a command found in a block handled by this handler is processed,
by calling the according command reader.
- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in interface info.bioinfweb.jphyloio.formats.nexus.blockhandlers.NexusBlockHandler
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This method is called before a command found in a block handled by this handler is processed,
by calling the according command reader.
- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in class info.bioinfweb.jphyloio.formats.nexus.blockhandlers.TaxaBlockHandler
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- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in class info.bioinfweb.jphyloio.formats.nexus.blockhandlers.TaxaBlockHandler
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- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in class info.bioinfweb.jphyloio.formats.nexus.blockhandlers.TreesBlockHandler
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- beforeCommand(NexusReaderStreamDataProvider, String, NexusCommandEventReader) - Method in class info.bioinfweb.jphyloio.formats.nexus.blockhandlers.TreesBlockHandler
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- BEGIN_COMMAND - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BEGIN_COMMAND - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BigDecimalTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- BigDecimalTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- BigDecimalTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.BigDecimalTranslator
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- BigDecimalTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.BigDecimalTranslator
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- BigIntegerTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- BigIntegerTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- BigIntegerTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.BigIntegerTranslator
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- BigIntegerTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.BigIntegerTranslator
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- BLOCK_COMMAND_CONNECTOR - Static variable in class info.bioinfweb.jphyloio.formats.nexus.commandreaders.NexusCommandReaderFactory
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- BLOCK_COMMAND_CONNECTOR - Static variable in class info.bioinfweb.jphyloio.formats.nexus.commandreaders.NexusCommandReaderFactory
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- BLOCK_NAME_CHARACTERS - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_CHARACTERS - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_DATA - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_DATA - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_SETS - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_SETS - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_TAXA - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_TAXA - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_TREES - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_TREES - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_UNALIGNED - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BLOCK_NAME_UNALIGNED - Static variable in interface info.bioinfweb.jphyloio.formats.nexus.NexusConstants
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- BlockTitleToIDMap - Class in info.bioinfweb.jphyloio.formats.nexus.commandreaders.all
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Used internally be
NexusEventReader
and related classes to map Nexus block titles to
JPhyloIO IDs.
- BlockTitleToIDMap - Class in info.bioinfweb.jphyloio.formats.nexus.commandreaders.all
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Used internally be
NexusEventReader
and related classes to map Nexus block titles to
JPhyloIO IDs.
- BlockTitleToIDMap() - Constructor for class info.bioinfweb.jphyloio.formats.nexus.commandreaders.all.BlockTitleToIDMap
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- BlockTitleToIDMap() - Constructor for class info.bioinfweb.jphyloio.formats.nexus.commandreaders.all.BlockTitleToIDMap
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- BooleanTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- BooleanTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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- BooleanTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.BooleanTranslator
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- BooleanTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.BooleanTranslator
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- BRANCH_LENGTH_UNITS - Static variable in interface info.bioinfweb.jphyloio.formats.xtg.XTGConstants
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- BRANCH_LENGTH_UNITS - Static variable in interface info.bioinfweb.jphyloio.formats.xtg.XTGConstants
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- BufferedEventInfo<E extends JPhyloIOEvent> - Class in info.bioinfweb.jphyloio.formats
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Used to buffer information on an event and its nested events.
- BufferedEventInfo<E extends JPhyloIOEvent> - Class in info.bioinfweb.jphyloio.formats
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Used to buffer information on an event and its nested events.
- BufferedEventInfo(E) - Constructor for class info.bioinfweb.jphyloio.formats.BufferedEventInfo
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- BufferedEventInfo(E) - Constructor for class info.bioinfweb.jphyloio.formats.BufferedEventInfo
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- ByteTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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An object translator from and to
Byte
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- ByteTranslator - Class in info.bioinfweb.jphyloio.objecttranslation.implementations
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An object translator from and to
Byte
.
- ByteTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.ByteTranslator
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- ByteTranslator() - Constructor for class info.bioinfweb.jphyloio.objecttranslation.implementations.ByteTranslator
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