## org.biojavax.bio.phylo.io.nexus
Class DistancesBlockBuilder

    java.lang.Object
      org.biojavax.bio.phylo.io.nexus.NexusBlockBuilder.Abstract
          org.biojavax.bio.phylo.io.nexus.DistancesBlockBuilder

All Implemented Interfaces:
  DistancesBlockListener, NexusBlockBuilder, NexusBlockListener

    public class DistancesBlockBuilder

extends NexusBlockBuilder.Abstract
implements DistancesBlockListener

Builds Nexus distances blocks.

Since:
  1.6
Author:
  Richard Holland, Tobias Thierer, Jim Balhoff

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojavax.bio.phylo.io.nexus.NexusBlockBuilder
`NexusBlockBuilder.Abstract`

Constructor Summary
`DistancesBlockBuilder()`

Method Summary
`protected void` `addComment(NexusComment comment)` Tell the builder to add the given comment at the current location.
`void` `addMatrixEntry(String taxa)`
`void` `addTaxLabel(String taxLabel)` Add a TAXLABEL.
`void` `appendMatrixData(String taxa, Object data)`
`void` `endBlock()` Notifies the parser that a block is ending.
`void` `endTokenGroup()` Closing a line (semi-colon encountered).
`void` `setDiagonal(boolean diagonal)`
`void` `setDimensionsNChar(int dimensionsNChar)` Set the NCHAR value.
`void` `setDimensionsNTax(int dimensionsNTax)` Set the NTAX value.
`void` `setInterleaved(boolean interleaved)`
`void` `setLabels(boolean labels)`
`void` `setMissing(String missing)`
`void` `setTriangle(String triangle)`
`protected NexusBlock` `startBlockObject()` Tell the builder to start a new block object.

Methods inherited from class org.biojavax.bio.phylo.io.nexus.NexusBlockBuilder.Abstract
`beginComment, commentText, endComment, getBlockName, getNexusBlock, startBlock`

Methods inherited from class java.lang.Object
`clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait`

Methods inherited from interface org.biojavax.bio.phylo.io.nexus.NexusBlockListener
`beginComment, commentText, endComment, startBlock`

Constructor Detail

### DistancesBlockBuilder

    public DistancesBlockBuilder()

Method Detail

### addComment

    protected void addComment(NexusComment comment)

  Description copied from class: `NexusBlockBuilder.Abstract`
  Tell the builder to add the given comment at the current location.

  Specified by:
    `addComment` in class `NexusBlockBuilder.Abstract`
  Parameters:
    `comment` - the comment to add.

### startBlockObject

    protected NexusBlock startBlockObject()

  Description copied from class: `NexusBlockBuilder.Abstract`
  Tell the builder to start a new block object.

  Specified by:
    `startBlockObject` in class `NexusBlockBuilder.Abstract`

### endBlock

    public void endBlock()

  Description copied from interface: `NexusBlockListener`
  Notifies the parser that a block is ending.

  Specified by:
    `endBlock` in interface `NexusBlockListener`

### endTokenGroup

    public void endTokenGroup()

  Description copied from interface: `NexusBlockListener`
  Closing a line (semi-colon encountered). This indicates that anything received after it is on the next logical line of the block.

  Specified by:
    `endTokenGroup` in interface `NexusBlockListener`

### addMatrixEntry

    public void addMatrixEntry(String taxa)

  Specified by:
    `addMatrixEntry` in interface `DistancesBlockListener`

### addTaxLabel

    public void addTaxLabel(String taxLabel)
                     throws ParseException

  Description copied from interface: `DistancesBlockListener`
  Add a TAXLABEL. If it already exists, or is a number that refers to an index position that already exists, an exception is thrown.

  Specified by:
    `addTaxLabel` in interface `DistancesBlockListener`
  Parameters:
    `taxLabel` - the label to add.
  Throws:
    `ParseException` - if the label cannot be added.

### appendMatrixData

    public void appendMatrixData(String taxa,
                                 Object data)

  Specified by:
    `appendMatrixData` in interface `DistancesBlockListener`

### setDimensionsNChar

    public void setDimensionsNChar(int dimensionsNChar)

  Description copied from interface: `DistancesBlockListener`
  Set the NCHAR value.

  Specified by:
    `setDimensionsNChar` in interface `DistancesBlockListener`
  Parameters:
    `dimensionsNChar` - the NCHAR value.

### setDimensionsNTax

    public void setDimensionsNTax(int dimensionsNTax)

  Description copied from interface: `DistancesBlockListener`
  Set the NTAX value.

  Specified by:
    `setDimensionsNTax` in interface `DistancesBlockListener`
  Parameters:
    `dimensionsNTax` - the NTAX value.

### setInterleaved

    public void setInterleaved(boolean interleaved)

  Specified by:
    `setInterleaved` in interface `DistancesBlockListener`

### setLabels

    public void setLabels(boolean labels)

  Specified by:
    `setLabels` in interface `DistancesBlockListener`

### setMissing

    public void setMissing(String missing)

  Specified by:
    `setMissing` in interface `DistancesBlockListener`

### setDiagonal

    public void setDiagonal(boolean diagonal)

  Specified by:
    `setDiagonal` in interface `DistancesBlockListener`

### setTriangle

    public void setTriangle(String triangle)

  Specified by:
    `setTriangle` in interface `DistancesBlockListener`