Package eu.isas.searchgui.processbuilders

Class SearchGUIProcessBuilder

java.lang.Object

eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

All Implemented Interfaces:

Runnable

Direct Known Subclasses:

AndromedaProcessBuilder, CometProcessBuilder, DirecTagProcessBuilder, MakeblastdbProcessBuilder, MetaMorpheusProcessBuilder, MsAmandaProcessBuilder, MsConvertProcessBuilder, MsgfProcessBuilder, MyriMatchProcessBuilder, NovorProcessBuilder, OmssaclProcessBuilder, PeptideShakerProcessBuilder, SageProcessBuilder, TandemProcessBuilder, ThermoRawFileParserProcessBuilder, TideIndexProcessBuilder, TideSearchProcessBuilder

public abstract class SearchGUIProcessBuilder
extends Object
implements Runnable

A simple ancestor class to reduce code duplication in formatdb, omssacl and tandem process builders.

Author:

Lennart Martens, Marc Vaudel, Harald Barsnes

Field Summary

Fields

Modifier and Type	Field	Description
protected com.compomics.util.exceptions.ExceptionHandler	exceptionHandler	The exception handler to manage exception.
protected com.compomics.util.waiting.WaitingHandler	waitingHandler	The waiting handler to display the feedback.

Constructor Summary

Constructors

Constructor	Description
SearchGUIProcessBuilder()	Empty constructor.

Method Summary

Modifier and Type	Method	Description
void	endProcess()	Ends the process.
abstract String	getCurrentlyProcessedFileName()	Returns the file name of the currently processed file.
abstract String	getType()	Returns the type of the process.
void	run()
void	startProcess()	Starts the process of a process builder, gets the input stream from the process and shows it in a JEditorPane supporting HTML.

Methods inherited from class java.lang.Object

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

Field Details

waitingHandler

protected com.compomics.util.waiting.WaitingHandler waitingHandler

The waiting handler to display the feedback.

exceptionHandler

protected com.compomics.util.exceptions.ExceptionHandler exceptionHandler

The exception handler to manage exception.

Constructor Details

SearchGUIProcessBuilder

public SearchGUIProcessBuilder()

Empty constructor.

Method Details

run

public void run()

Specified by:

run in interface Runnable

startProcess

public void startProcess()
                  throws IOException

Starts the process of a process builder, gets the input stream from the process and shows it in a JEditorPane supporting HTML. Does not close until the process is completed.

Throws:

IOException - Exception thrown whenever an error occurred while reading the progress stream

endProcess

public void endProcess()

Ends the process.

getType

public abstract String getType()

Returns the type of the process.

Returns:

the type of the process

getCurrentlyProcessedFileName

public abstract String getCurrentlyProcessedFileName()

Returns the file name of the currently processed file.

Returns:

the file name of the currently processed file