Package org.biojavax.bio.phylo.io.nexus
Interface CharactersBlockListener
- All Superinterfaces:
NexusBlockListener
- All Known Subinterfaces:
DataBlockListener
- All Known Implementing Classes:
CharactersBlockBuilder
,DataBlockBuilder
Listens to events that represent Nexus characters blocks.
- Since:
- 1.6
- Author:
- Richard Holland, Tobias Thierer, Jim Balhoff
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Method Summary
Modifier and TypeMethodDescriptionvoid
addCharLabel
(String charLabel) void
addCharState
(String charState) void
addCharStateKeyword
(String charState, String keyword) void
void
void
addMatrixEntry
(String taxa) void
void
addStateLabel
(String state, String label) void
void
addTaxLabel
(String taxLabel) Add a TAXLABEL.void
appendMatrixData
(String taxa, Object data) void
setCharStateLabel
(String charState, String label) void
setDataType
(String dataType) void
setDimensionsNChar
(int dimensionsNChar) Set the NCHAR value.void
setDimensionsNTax
(int dimensionsNTax) Set the NTAX value.void
setEliminateEnd
(int eliminateEnd) void
setEliminateStart
(int eliminateStart) void
void
setInterleaved
(boolean interleaved) void
setLabels
(boolean labels) void
setMatchChar
(String matchChar) void
setMissing
(String missing) void
setRespectCase
(boolean respectCase) void
setStatesFormat
(String statesFormat) void
setTokens
(boolean tokens) void
setTransposed
(boolean transposed) Methods inherited from interface org.biojavax.bio.phylo.io.nexus.NexusBlockListener
beginComment, commentText, endBlock, endComment, endTokenGroup, startBlock
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Method Details
-
setDimensionsNTax
Set the NTAX value.- Parameters:
dimensionsNTax
- the NTAX value.
-
setDimensionsNChar
Set the NCHAR value.- Parameters:
dimensionsNChar
- the NCHAR value.
-
setDataType
-
setRespectCase
-
setMissing
-
setGap
-
addSymbol
-
addEquate
-
setMatchChar
-
setLabels
-
setTransposed
-
setInterleaved
-
addItem
-
setStatesFormat
-
setTokens
-
setEliminateStart
-
setEliminateEnd
-
addTaxLabel
Add a TAXLABEL. If it already exists, or is a number that refers to an index position that already exists, an exception is thrown.- Parameters:
taxLabel
- the label to add.- Throws:
ParseException
- if the label cannot be added.
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addCharState
-
setCharStateLabel
-
addCharStateKeyword
-
addCharLabel
-
addState
-
addStateLabel
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addMatrixEntry
-
appendMatrixData
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