net.maizegenetics.analysis.data

Class ConvertAlignmentCoordinatesPlugin

java.lang.Object

net.maizegenetics.plugindef.AbstractPlugin

net.maizegenetics.analysis.data.ConvertAlignmentCoordinatesPlugin

All Implemented Interfaces:

Runnable, Plugin, PluginListener, ProgressListener

public class ConvertAlignmentCoordinatesPlugin
extends AbstractPlugin

Author:

Terry Casstevens

Field Summary

Fields inherited from class net.maizegenetics.plugindef.AbstractPlugin

DEFAULT_CITATION, POSITION_LIST_NONE, TAXA_LIST_NONE

Constructor Summary

Constructors

Constructor and Description
ConvertAlignmentCoordinatesPlugin(Frame parentFrame, boolean isInteractive)

Method Summary

Modifier and Type	Method and Description
String	genomeVersion() Genome Version
ConvertAlignmentCoordinatesPlugin	genomeVersion(String value) Set Genome Version.
String	getButtonName() Button name for this plugin to be used in buttons, etc.
ImageIcon	getIcon() Icon for this plugin to be used in buttons, etc.
String	getToolTipText() Tool Tip Text for this plugin
String	mapFilename() Map File
ConvertAlignmentCoordinatesPlugin	mapFilename(String value) Set Map File.
DataSet	processData(DataSet input) For the new Generic Plugin Parameter design, performFunction() will automatically call this.

Methods inherited from class net.maizegenetics.plugindef.AbstractPlugin

addListener, cancel, convert, dataSetReturned, getCitation, getInputs, getMenu, getPanel, getParameter, getParameter, getParentFrame, getUsage, getUsageHTML, isInteractive, performFunction, pluginDescription, pluginUserManualURL, progress, progress, receiveInput, reverseTrace, run, setConfigParameters, setParameter, setParameter, setParameter, setParameters, setParametersToDefault, setThreaded, trace, wasCancelled

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.maizegenetics.plugindef.Plugin

getPluginInstance, getPluginInstance, isPlugin

Constructor Detail

ConvertAlignmentCoordinatesPlugin

public ConvertAlignmentCoordinatesPlugin(Frame parentFrame,
                                         boolean isInteractive)

Method Detail

processData

public DataSet processData(DataSet input)

Description copied from interface: Plugin

For the new Generic Plugin Parameter design, performFunction() will automatically call this. Therefore, coders of Plugins should override this instead of performFunction().

Specified by:

processData in interface Plugin

Overrides:

processData in class AbstractPlugin

Parameters:

input - input

Returns:

resulting data set or null.

mapFilename

public String mapFilename()

Map File

Returns:

Map File

mapFilename

public ConvertAlignmentCoordinatesPlugin mapFilename(String value)

Set Map File. Map File

Parameters:

value - Map File

Returns:

this plugin

genomeVersion

public String genomeVersion()

Genome Version

Returns:

Genome Version

genomeVersion

public ConvertAlignmentCoordinatesPlugin genomeVersion(String value)

Set Genome Version. Genome Version

Parameters:

value - Genome Version

Returns:

this plugin

getIcon

public ImageIcon getIcon()

Description copied from interface: Plugin

Icon for this plugin to be used in buttons, etc.

Returns:

ImageIcon

getButtonName

public String getButtonName()

Description copied from interface: Plugin

Button name for this plugin to be used in buttons, etc.

Returns:

String

getToolTipText

public String getToolTipText()

Description copied from interface: Plugin

Tool Tip Text for this plugin

Returns:

String