org.fhcrc.cpl.toolbox.test.commandline
Class BaseCommandLineTest

java.lang.Object
  junit.framework.Assert
      junit.framework.TestCase
          org.fhcrc.cpl.toolbox.test.BaseCommandTest
              org.fhcrc.cpl.toolbox.test.commandline.BaseCommandLineTest

All Implemented Interfaces:

junit.framework.Test

Direct Known Subclasses:

FilterFeaturesTest, FindPeptidesTest, PeptideArrayTest

public abstract class BaseCommandLineTest
extends BaseCommandTest

Abstract base class for all msInspect commandline tests. Provides convenient ways to invoke command line modules

Field Summary

protected CommandLineModule

commandLineModule

Constructor Summary

BaseCommandLineTest()

Method Summary

protected void	clearArgumentValues() Blow away all argument values
protected abstract CommandLineModule	createCommandLineModule() Each subclass should implement a method to return an instance of the commandlinemodule it needs to invoke
protected boolean	executeCommandLineModule(junit.framework.TestResult result) Execute the commandline module and add any exceptions to the test result (convenience method)
protected CommandLineModule	getCommandLineModule() Get a reference to the commandline module, creating if necessary
protected void	renewCommandLineModule() Create a new instance of the commandline module
protected void	setArgumentValue(java.lang.String argumentName, java.lang.String value) Set an argument value in the argumentValues map, overriding what's there
protected void	setUnnamedArgumentValue(java.lang.String value) Set the value of the unnamed argument
protected void	setUnnamedSeriesArgumentValue(java.lang.String value) Set the value of the unnamed argument
protected void	unsetArgumentValue(java.lang.String argumentName) Unet an argument value in the argumentValues map
protected void	unsetUnnamedArgumentValue() Unet the unnamed argument value in the argumentValues map

Methods inherited from class org.fhcrc.cpl.toolbox.test.BaseCommandTest

cleanup, constructTempFilePath, doCleanup, doRun, getTempDirName, log, run

Methods inherited from class junit.framework.TestCase

countTestCases, createResult, getName, run, runBare, runTest, setName, setUp, tearDown, toString

Methods inherited from class junit.framework.Assert

assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertEquals, assertFalse, assertFalse, assertNotNull, assertNotNull, assertNotSame, assertNotSame, assertNull, assertNull, assertSame, assertSame, assertTrue, assertTrue, fail, fail, failNotEquals, failNotSame, failSame, format

Methods inherited from class java.lang.Object

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

Field Detail

commandLineModule

protected CommandLineModule commandLineModule

Constructor Detail

BaseCommandLineTest

public BaseCommandLineTest()

Method Detail

createCommandLineModule

protected abstract CommandLineModule createCommandLineModule()

Each subclass should implement a method to return an instance of the commandlinemodule it needs to invoke

Returns:

setArgumentValue

protected void setArgumentValue(java.lang.String argumentName,
                                java.lang.String value)

Set an argument value in the argumentValues map, overriding what's there

Parameters:

argumentName -

value -

unsetArgumentValue

protected void unsetArgumentValue(java.lang.String argumentName)

Unet an argument value in the argumentValues map

Parameters:

argumentName -

setUnnamedArgumentValue

protected void setUnnamedArgumentValue(java.lang.String value)

Set the value of the unnamed argument

Parameters:

value -

setUnnamedSeriesArgumentValue

protected void setUnnamedSeriesArgumentValue(java.lang.String value)

Set the value of the unnamed argument

Parameters:

value -

unsetUnnamedArgumentValue

protected void unsetUnnamedArgumentValue()

Unet the unnamed argument value in the argumentValues map

clearArgumentValues

protected void clearArgumentValues()

Blow away all argument values

getCommandLineModule

protected CommandLineModule getCommandLineModule()

Get a reference to the commandline module, creating if necessary

Returns:

renewCommandLineModule

protected void renewCommandLineModule()

Create a new instance of the commandline module

executeCommandLineModule

protected boolean executeCommandLineModule(junit.framework.TestResult result)

Execute the commandline module and add any exceptions to the test result (convenience method)

Parameters:

result -

Returns:

true iff there were no exceptions