A B C E G I O R S T V

A

accept(File, String) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest.NoHiddenFileFilter

assertFileExists(File) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

assertFileSizesEqual(File, File) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

assertMD5ChecksumsEqual(File, File) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

assertMD5DigestsEqual(File, File) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

assertMD5DigestsNotEqual(File, File) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

B

before() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

C

clearDir(String) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

ClideAbstractBaseTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

An abstract base class to put in the common methods and fields used in testing our I/O operations

ClideAbstractBaseTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideAbstractBaseTest

ClideCompositeThroughputSlowTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test class for the clide composite throughput monitor

ClideCompositeThroughputSlowTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideCompositeThroughputSlowTest

ClideEncryptionFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Tests the secure components of CLIDE including key generation, file encryption and decryption.

ClideEncryptionFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

ClideFileWatcherSlowTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test class for the clide File watcher on the archive server directory feature

ClideFileWatcherSlowTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideFileWatcherSlowTest

ClideGetServerLogFileSlowTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test class for the getServerLogFile command.

ClideGetServerLogFileSlowTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideGetServerLogFileSlowTest

ClideManagerFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test class used to test ClideManager

ClideManagerFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

ClideProtocolFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test clide protocol

ClideProtocolFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

ClideServerClientIndependanceFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test class for checking independance of the client and the server runtimes

ClideServerClientIndependanceFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideServerClientIndependanceFastTest

ClideServerSetUp(ClideServer, String) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideCompositeThroughputSlowTest

ClideUtilsFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test of the ClideUtils class

ClideUtilsFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

ClideUtilsFastTest.NoHiddenFileFilter - Class in gov.nih.nci.ncicb.tcga.dcc.clide

ClideUtilsFastTest.NoHiddenFileFilter() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest.NoHiddenFileFilter

ClientManagerProtocolHandlerFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Test class used to test ClientManagerProtocolHandler

ClientManagerProtocolHandlerFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

ClientServerOutcomesSlowTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Run the server and client and test that the two can transfer files over HTTP

ClientServerOutcomesSlowTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

CommandLineArgumentsFastTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Exercise the public static void main()s of the application

CommandLineArgumentsFastTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.CommandLineArgumentsFastTest

E

ensureAllFilesWereTransferred() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

G

getFileInKeyDir(String) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

gov.nih.nci.ncicb.tcga.dcc.clide - package gov.nih.nci.ncicb.tcga.dcc.clide

I

isNioFaster() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

O

oldCopyFile(String, String) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

onlyContainsArchivesAndMD5s(String) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.RunSoundcheckSlowTest

Run the validator on an incomplete set of files to ensure failure

R

report(long, File) - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

RunSoundcheckSlowTest - Class in gov.nih.nci.ncicb.tcga.dcc.clide

Exercise the wrapper around Soundcheck and see if it's working

RunSoundcheckSlowTest() - Constructor for class gov.nih.nci.ncicb.tcga.dcc.clide.RunSoundcheckSlowTest

S

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideCompositeThroughputSlowTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideFileWatcherSlowTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideGetServerLogFileSlowTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideServerClientIndependanceFastTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

setUp() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.RunSoundcheckSlowTest

T

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideCompositeThroughputSlowTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideFileWatcherSlowTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideGetServerLogFileSlowTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideServerClientIndependanceFastTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.CommandLineArgumentsFastTest

tearDown() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.RunSoundcheckSlowTest

testBadCommandToServer() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testBadResponseToClient() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testCheckClientFreeSpace() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCheckClientNOFreeSpaceForDownloadDir() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCheckClientNOFreeSpaceForProcessedDir() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCheckDiskSpace() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCheckDiskSpaceBadThreshold() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCheckDiskSpaceNoSpace() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCheckFileSizeWayTooBig() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testCleanUpDownloadDirectory() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCleanUpDownloadDirectoryBadDirectoryName() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCleanUpDownloadDirectoryNullDirectoryName() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testClideCompositeThroughput() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideCompositeThroughputSlowTest

testClideKeyGenBadPrivateKeyPath() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.CommandLineArgumentsFastTest

testClideKeyGenBadPublicKeyPath() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.CommandLineArgumentsFastTest

testClideKeyGenGoodArguments() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.CommandLineArgumentsFastTest

testClient() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideServerClientIndependanceFastTest

testClientAgainstBadAddress() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

testClientAgainstGoogleDotCom() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

testClientCommandAfterANoSuchResponse() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testClientHelloMessage() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testClientManagerStartStartedServer() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

testClientManagerState() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

testClientManagerStopStoppedServer() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

testClientMessageAfterServerHasFilesResponse() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testClientsReactionToFailure() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testClientWhenServerIsNotRunning() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

testCopyFile() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testCopyFilesFromTo() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testEmptyServerDirectoryTransferNoTampering() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

This test runs the client and server even though there are no files to transfer

testFindNullCommand() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testFindNullResponse() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testGetAvailableCenters() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

testGetAvailableCentersBadCase() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

testGetFormattedAsSeconds() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testGetFormattedThroughput() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testGetServerLogFile() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideGetServerLogFileSlowTest

testGetServerLogFile() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testGoodFileRequest() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testKeyGeneration() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

testMessageReceived() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

testMessageReceivedBadCenterNameBadCommand() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

testMessageReceivedBadUrl() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

testNIOCopySpeed() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

Test file copying multiple times and assert that NIO is faster more than half the time

testNonexistentFileRequest() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testReactionWhenServerIsStoppedMidRun() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

testServer() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideServerClientIndependanceFastTest

testServerFileWatcher() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideFileWatcherSlowTest

testServerHelloResponse() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testServerPathsMessage() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testServerResponseAfterAUnableToFindNextCommand() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testServersResponseToTerminate() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

testShutDownClientThread() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

testShutDownNonExistingThread() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

testStartClient() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientManagerProtocolHandlerFastTest

testStartNewClientThread() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideManagerFastTest

testThatFilesEncryptedWithDifferentKeysAreDifferent() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

testThatKeysWork() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

testThatOnlyOurPrivateKeyDecrypts() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

testThatPublicKeyCanNotDecrypt() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideEncryptionFastTest

testValidateClientDownloadedDirectory() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateClientDownloadedDirectoryBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateClientInternalLogging() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateClientProcessedDirectory() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateClientProcessedDirectoryBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateClientProcessedDirectoryEmpty() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateEncryption() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateEncryptionBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateEncryptionEmpty() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidatePrivateKeyBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidatePrivateKeyBad2() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidatePublicKeyBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidatePublicKeyBad2() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerArchiveDirectory() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerArchiveDirectoryBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerInternalLogging() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerSentDirectory() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerSentDirectoryBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerSentDirectoryEmpty() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerWorkingDirectory() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerWorkingDirectoryBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateServerWorkingDirectoryEmpty() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateTimeout() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateTimeoutBad() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testValidateTimeoutNull() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideUtilsFastTest

testWholeDirectoryTransferNoTampering() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

This test will expect that the exact number of files in one is matched in the other.

testWholeDirTransferDeleteLastServerFileAfterClientKnowsAboutIt() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

This test will wait until the client knows about all the files on the server and then delete one of those files to see how it handles the error.

testWholeDirTransferDeleteSecondToLastServerFileAfterClientKnowsAboutIt() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

This test will wait until the client knows about all the files on the server and then delete the last one of those files to see that it shuts down clean.

testWithoutMageTabAndFailValidation() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.RunSoundcheckSlowTest

Run the validator on an incomplete set of files to ensure failure

transferFiles() - Method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClientServerOutcomesSlowTest

V

verifyFilesToSendMessage(ArrayList, String) - Static method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

verifyHereAreTheFilesPathsMessage(ArrayList, String) - Static method in class gov.nih.nci.ncicb.tcga.dcc.clide.ClideProtocolFastTest

A B C E G I O R S T V