Package eu.isas.searchgui.processbuilders

Class MsConvertProcessBuilder

java.lang.Object

eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

eu.isas.searchgui.processbuilders.MsConvertProcessBuilder

All Implemented Interfaces:

Runnable

public class MsConvertProcessBuilder
extends SearchGUIProcessBuilder

Process builder to run msconvert.

Author:

Marc Vaudel, Harald Barsnes

Field Summary

Fields inherited from class eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

exceptionHandler, waitingHandler

Constructor Summary

Constructors

Constructor	Description
MsConvertProcessBuilder(File rawFile, File destinationFolder, com.compomics.util.experiment.mass_spectrometry.proteowizard.MsConvertParameters msConvertParameters, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.exceptions.ExceptionHandler exceptionHandler)	Constructor for the process builder.

Method Summary

Modifier and Type	Method	Description
String	getCurrentlyProcessedFileName()	Returns the file name of the currently processed file.
String	getType()	Returns the type of the process.
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 eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

endProcess, run

Methods inherited from class java.lang.Object

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

Constructor Details

MsConvertProcessBuilder

public MsConvertProcessBuilder(File rawFile,
 File destinationFolder,
 com.compomics.util.experiment.mass_spectrometry.proteowizard.MsConvertParameters msConvertParameters,
 com.compomics.util.waiting.WaitingHandler waitingHandler,
 com.compomics.util.exceptions.ExceptionHandler exceptionHandler)
                        throws IOException,
ClassNotFoundException

Constructor for the process builder.

Parameters:

rawFile - the raw file to convert

destinationFolder - the destination folder

msConvertParameters - the msconvert parameters

waitingHandler - the waiting handler

exceptionHandler - the handler of exceptions

Throws:

IOException - thrown if there are problems accessing the files

ClassNotFoundException - thrown if a class cannot be found

Method Details

startProcess

public void startProcess()
                  throws IOException

Description copied from class: SearchGUIProcessBuilder

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.

Overrides:

startProcess in class SearchGUIProcessBuilder

Throws:

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

getType

public String getType()

Description copied from class: SearchGUIProcessBuilder

Returns the type of the process.

Specified by:

getType in class SearchGUIProcessBuilder

Returns:

the type of the process

getCurrentlyProcessedFileName

public String getCurrentlyProcessedFileName()

Description copied from class: SearchGUIProcessBuilder

Returns the file name of the currently processed file.

Specified by:

getCurrentlyProcessedFileName in class SearchGUIProcessBuilder

Returns:

the file name of the currently processed file