RenderableVector

java.lang.Object
- org.forester.archaeopteryx.phylogeny.data.RenderableVector

All Implemented Interfaces:: RenderablePhylogenyData, PhylogenyData

public final class RenderableVector
extends java.lang.Object
implements RenderablePhylogenyData

Field Summary

Fields
Modifier and Type Field and Description

static int VECTOR_DEFAULT_WIDTH

Fields
Modifier and Type	Field and Description
`static int`	`VECTOR_DEFAULT_WIDTH`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`java.lang.StringBuffer`	`asSimpleText()`
`java.lang.StringBuffer`	`asText()`
`java.lang.Object`	`clone()`
`PhylogenyData`	`copy()` Creates a new PhylogenyData object with identical values as this PhylogenyData.
`static RenderableVector`	`createInstance(java.util.List<java.lang.Double> values, DescriptiveStatistics stats, Configuration configuration)`
`java.awt.Dimension`	`getOriginalSize()`
`java.lang.Object`	`getParameter()`
`double`	`getRenderingFactorWidth()`
`java.awt.Dimension`	`getRenderingSize()`
`int`	`getTotalLength()`
`boolean`	`isEqual(PhylogenyData data)` Compares this PhylogenyData to PhylogenyData data.
`void`	`render(float x1, float y1, java.awt.Graphics2D g, TreePanel tree_panel, boolean to_pdf)` This can be used to render phylogeny data as graphics (for example, display of the domain structure).
`void`	`setParameter(double parameter)`
`void`	`setRenderingFactorWidth(double rendering_factor_width)`
`void`	`setRenderingHeight(float height)`
`java.lang.StringBuffer`	`toNHX()`
`void`	`toPhyloXML(java.io.Writer writer, int level, java.lang.String indentation)` Writes a phyloXML representation of this phylogeny data.

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

- Field Detail
  - VECTOR_DEFAULT_WIDTH
```
public static final int VECTOR_DEFAULT_WIDTH
```
    See Also:
    
    Constant Field Values
- Method Detail
  - asSimpleText
```
public java.lang.StringBuffer asSimpleText()
```
    Specified by:
    
    asSimpleText in interface PhylogenyData
  - asText
```
public java.lang.StringBuffer asText()
```
    Specified by:
    
    asText in interface PhylogenyData
  - clone
```
public java.lang.Object clone()
```
    Overrides:
    
    clone in class java.lang.Object
  - copy
```
public PhylogenyData copy()
```
    Description copied from interface: PhylogenyData
    
    Creates a new PhylogenyData object with identical values as this PhylogenyData. This ~should~ return a deep copy, but not there yet.
    
    Specified by:
    
    copy in interface PhylogenyData
    
    Returns:
    
    a ~deep~ copy of this PhylogenyData
  - getOriginalSize
```
public java.awt.Dimension getOriginalSize()
```
    Specified by:
    
    getOriginalSize in interface RenderablePhylogenyData
  - getParameter
```
public java.lang.Object getParameter()
```
    Specified by:
    
    getParameter in interface RenderablePhylogenyData
  - getRenderingFactorWidth
```
public double getRenderingFactorWidth()
```
  - getRenderingSize
```
public java.awt.Dimension getRenderingSize()
```
    Specified by:
    
    getRenderingSize in interface RenderablePhylogenyData
  - getTotalLength
```
public int getTotalLength()
```
  - isEqual
```
public boolean isEqual(PhylogenyData data)
```
    Description copied from interface: PhylogenyData
    
    Compares this PhylogenyData to PhylogenyData data. In general, this should return true if and only if all fiels are exactly identical.
    
    Specified by:
    
    isEqual in interface PhylogenyData
    
    Returns:
    
    in general, true if and only if all fiels are exactly identical, false otherwise
  - render
```
public void render(float x1,
                   float y1,
                   java.awt.Graphics2D g,
                   TreePanel tree_panel,
                   boolean to_pdf)
```
    Description copied from interface: RenderablePhylogenyData
    
    This can be used to render phylogeny data as graphics (for example, display of the domain structure). In most Renderable implementations this will do nothing (i.e. just return).
    
    Specified by:
    
    render in interface RenderablePhylogenyData
    
    g - the Graphics to render to
  - setParameter
```
public void setParameter(double parameter)
```
    Specified by:
    
    setParameter in interface RenderablePhylogenyData
  - setRenderingFactorWidth
```
public void setRenderingFactorWidth(double rendering_factor_width)
```
  - setRenderingHeight
```
public void setRenderingHeight(float height)
```
    Specified by:
    
    setRenderingHeight in interface RenderablePhylogenyData
  - toNHX
```
public java.lang.StringBuffer toNHX()
```
    Specified by:
    
    toNHX in interface PhylogenyData
  - toPhyloXML
```
public void toPhyloXML(java.io.Writer writer,
                       int level,
                       java.lang.String indentation)
                throws java.io.IOException
```
    Description copied from interface: PhylogenyData
    
    Writes a phyloXML representation of this phylogeny data.
    
    Specified by:
    
    toPhyloXML in interface PhylogenyData
    
    Throws:
    
    java.io.IOException
  - createInstance
```
public static RenderableVector createInstance(java.util.List<java.lang.Double> values,
                                              DescriptiveStatistics stats,
                                              Configuration configuration)
```

Class RenderableVector

Field Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

VECTOR_DEFAULT_WIDTH

Method Detail

asSimpleText

asText

clone

copy

getOriginalSize

getParameter

getRenderingFactorWidth

getRenderingSize

getTotalLength

isEqual

render

setParameter

setRenderingFactorWidth

setRenderingHeight

toNHX

toPhyloXML

createInstance