net.maizegenetics.analysis.data

Class FindInversionsPlugin

java.lang.Object

net.maizegenetics.plugindef.AbstractPlugin

net.maizegenetics.analysis.data.FindInversionsPlugin

All Implemented Interfaces:

Runnable, Plugin, PluginListener, ProgressListener

public class FindInversionsPlugin
extends AbstractPlugin

Author:

Terry Casstevens

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	FindInversionsPlugin.WINDOW_UNIT

Field Summary

Fields inherited from class net.maizegenetics.plugindef.AbstractPlugin

DEFAULT_CITATION, POSITION_LIST_NONE, TAXA_LIST_NONE

Constructor Summary

Constructors

Constructor and Description
FindInversionsPlugin(Frame parentFrame, boolean isInteractive)

Method Summary

Modifier and Type	Method and Description
String	getButtonName() Button name for this plugin to be used in buttons, etc.
String	getCitation() Returns Citation for this plugin.
ImageIcon	getIcon() Icon for this plugin to be used in buttons, etc.
String	getToolTipText() Tool Tip Text for this plugin
Integer	numPCAs() Num PCAs
FindInversionsPlugin	numPCAs(Integer value) Set Num PCAs.
String	outputFile() Output File
FindInversionsPlugin	outputFile(String value) Set Output File.
DataSet	processData(DataSet input) For the new Generic Plugin Parameter design, performFunction() will automatically call this.
Integer	stepSize() Step Size
FindInversionsPlugin	stepSize(Integer value) Set Step Size.
Integer	windowSize() Window Size
FindInversionsPlugin	windowSize(Integer value) Set Window Size.
FindInversionsPlugin.WINDOW_UNIT	windowUnit() Window Unit
FindInversionsPlugin	windowUnit(FindInversionsPlugin.WINDOW_UNIT value) Set Window Unit.

Methods inherited from class net.maizegenetics.plugindef.AbstractPlugin

addListener, cancel, convert, dataSetReturned, 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

FindInversionsPlugin

public FindInversionsPlugin(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.

windowUnit

public FindInversionsPlugin.WINDOW_UNIT windowUnit()

Window Unit

Returns:

Window Unit

windowUnit

public FindInversionsPlugin windowUnit(FindInversionsPlugin.WINDOW_UNIT value)

Set Window Unit. Window Unit

Parameters:

value - Window Unit

Returns:

this plugin

stepSize

public Integer stepSize()

Step Size

Returns:

Step Size

stepSize

public FindInversionsPlugin stepSize(Integer value)

Set Step Size. Step Size

Parameters:

value - Step Size

Returns:

this plugin

windowSize

public Integer windowSize()

Window Size

Returns:

Window Size

windowSize

public FindInversionsPlugin windowSize(Integer value)

Set Window Size. Window Size

Parameters:

value - Window Size

Returns:

this plugin

numPCAs

public Integer numPCAs()

Num PCAs

Returns:

Num PCAs

numPCAs

public FindInversionsPlugin numPCAs(Integer value)

Set Num PCAs. Num PCAs

Parameters:

value - Num PCAs

Returns:

this plugin

outputFile

public String outputFile()

Output File

Returns:

Output File

outputFile

public FindInversionsPlugin outputFile(String value)

Set Output File. Output File

Parameters:

value - Output File

Returns:

this plugin

getToolTipText

public String getToolTipText()

Description copied from interface: Plugin

Tool Tip Text for this plugin

Returns:

String

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

getCitation

public String getCitation()

Description copied from interface: Plugin

Returns Citation for this plugin.

Specified by:

getCitation in interface Plugin

Overrides:

getCitation in class AbstractPlugin

Returns:

Citation