Index (Apache Taverna Common Activities 2.1.0-incubating API)

A B C D E F G H I J L M N O P R S T U V W X

A

AbstractAsynchronousDependencyActivity - Class in org.apache.taverna.activities.dependencyactivity: A parent abstract class for activities that require dependency management, such as API Consumer and Beanshell.
AbstractAsynchronousDependencyActivity(ApplicationConfiguration) - Constructor for class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity
AbstractAsynchronousDependencyActivity.ClassLoaderSharing - Enum in org.apache.taverna.activities.dependencyactivity: Different ways to share a class loader among activities: workflow Same classloader for all activities using the workflow classloader sharing policy system System classloader
AbstractAsynchronousDependencyActivity.FileExtFilter - Class in org.apache.taverna.activities.dependencyactivity: File filter.
AbstractBodyBuilder - Class in org.apache.taverna.wsdl.soap
AbstractBodyBuilder(String, WSDLParser, String, List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
AbstractBodyBuilder.Style - Enum in org.apache.taverna.wsdl.soap
AbstractBodyBuilder.Use - Enum in org.apache.taverna.wsdl.soap
AbstractSOAPResponseParser - Class in org.apache.taverna.wsdl.soap
AbstractSOAPResponseParser() - Constructor for class org.apache.taverna.wsdl.soap.AbstractSOAPResponseParser
accept(File, String) - Method in class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity.FileExtFilter
acceptedRelation(String) - Static method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: Tests of a relation is supported
addElementToBody(String, SOAPElement, Element) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
addElementToBody(String, SOAPElement, Element) - Method in class org.apache.taverna.wsdl.soap.EncodedBodyBuilder
addElementToBody(String, SOAPElement, Element) - Method in class org.apache.taverna.wsdl.soap.LiteralBodyBuilder
addExclude(Range) - Method in class org.apache.taverna.activities.spreadsheet.Range: Adds a Range to be excluded from this Range.
addInvocationGroup(InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
addInvocationGroup(InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
addMechanism(InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
addMechanism(InvocationMechanism) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
addObserver(Observer<InvocationManagerEvent>) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
addObserver(Observer<InvocationManagerEvent>) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
addResource(String, String, String) - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
addSoapHeader(SOAPEnvelope) - Method in class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker
addSoapHeader(SOAPEnvelope) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
AddXMLSplitterEdit - Class in org.apache.taverna.activities.wsdl.xmlsplitter
AddXMLSplitterEdit(Dataflow, Activity<?>, String, boolean, Edits) - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.AddXMLSplitterEdit
ArrayTypeDescriptor - Class in org.apache.taverna.wsdl.parser: A TypeDescriptor that specifically describes an array type
ArrayTypeDescriptor() - Constructor for class org.apache.taverna.wsdl.parser.ArrayTypeDescriptor
AskUserForPw - Interface in org.apache.taverna.activities.externaltool.invocation
atLeastAsCapableAs(String) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: for those busy fellows who don't have the time to convert the String into a RuntimeEnvironment object.
atLeastAsCapableAs(RuntimeEnvironment) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Indicates if a runtime environment has the same name, and if so, if the given RE has the same or a later version.
atLeastAsCapableAsAnyOf(Iterable<RuntimeEnvironment>) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Indicates if this runtimeEnvironment is the same version or later as any in that list.
AtomUtils - Class in org.apache.taverna.activities.interaction.atom
AtomUtils() - Constructor for class org.apache.taverna.activities.interaction.atom.AtomUtils
attributeForName(String) - Method in class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
AttributeTypeDescriptor - Class in org.apache.taverna.wsdl.parser: A TypeDescriptor specifically for attributes.
AttributeTypeDescriptor() - Constructor for class org.apache.taverna.wsdl.parser.AttributeTypeDescriptor
authenticationSucceeded() - Method in interface org.apache.taverna.activities.externaltool.invocation.AskUserForPw
authenticationSucceeded() - Method in class org.apache.taverna.activities.externaltool.RetrieveLoginFromTaverna

B

BaseTypeDescriptor - Class in org.apache.taverna.wsdl.parser: A TypeDescriptor specifically for basic types (e.g.
BaseTypeDescriptor() - Constructor for class org.apache.taverna.wsdl.parser.BaseTypeDescriptor
baseUri - Variable in class org.apache.taverna.wsdl.parser.SchemaResolver
BeanshellActivity - Class in org.apache.taverna.activities.beanshell: An Activity providing Beanshell functionality.
BeanshellActivity(ApplicationConfiguration) - Constructor for class org.apache.taverna.activities.beanshell.BeanshellActivity
BeanshellActivityFactory - Class in org.apache.taverna.activities.beanshell: An ActivityFactory for creating BeanshellActivity.
BeanshellActivityFactory() - Constructor for class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
BeanshellActivityHealthChecker - Class in org.apache.taverna.activities.beanshell
BeanshellActivityHealthChecker() - Constructor for class org.apache.taverna.activities.beanshell.BeanshellActivityHealthChecker
BodyBuilder - Interface in org.apache.taverna.wsdl.soap: Interface to a class that is responsible for creating the SOAP body elements from the provided inputs for invoking a SOAP based Web-service.
BodyBuilderFactory - Class in org.apache.taverna.wsdl.soap: Factory that creates an appropriate BodyBuilder according to the provided WSDLProcessors style and use.
BodyBuilderFactory() - Constructor for class org.apache.taverna.wsdl.soap.BodyBuilderFactory
build(Map) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
build(Map) - Method in interface org.apache.taverna.wsdl.soap.BodyBuilder
build(Map) - Method in class org.apache.taverna.wsdl.soap.EncodedBodyBuilder
build(Map) - Method in class org.apache.taverna.wsdl.soap.LiteralBodyBuilder
buildBeanForInput(TypeDescriptor) - Static method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBeanBuilder
buildBeanForInput(Element) - Static method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBeanBuilder
buildBeanForOutput(TypeDescriptor) - Static method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBeanBuilder
buildBeanForOutput(Element) - Static method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBeanBuilder

C

call(SOAPMessage) - Method in class org.apache.taverna.wsdl.soap.JaxWSInvoker
call(SOAPMessage) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
canConvert(Object, ReferenceContext) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrlToSshReference
canHandle(String) - Method in interface org.apache.taverna.activities.externaltool.InvocationCreator
canHandle(String) - Method in class org.apache.taverna.activities.externaltool.local.LocalInvocationCreator
canHandle(String) - Method in class org.apache.taverna.activities.externaltool.local.LocalMechanismCreator
canHandle(String) - Method in class org.apache.taverna.activities.externaltool.manager.MechanismCreator
canHandle(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationCreator
canHandle(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshMechanismCreator
canVisit(Object) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityMimeTypeChecker
canVisit(Object) - Method in class org.apache.taverna.activities.interaction.InteractionActivityHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.rest.RESTActivityHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityDescriptorChecker
canVisit(Object) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterHealthChecker
canVisit(Object) - Method in class org.apache.taverna.activities.xpath.XPathActivityHealthChecker
carryOn() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
carryOn() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
checkClientTrusted(X509Certificate[], String) - Method in class org.apache.taverna.activities.wsdl.security.SSLUtilities.FakeX509TrustManager: Always trust for client SSL chain peer certificate chain with any authType authentication types.
checkForUnsafeCharacters(String) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: Check if the URL string contains "unsafe" characters, i.e.
checkGranularDepths() - Method in class org.apache.taverna.activities.beanshell.BeanshellActivity: As the Beanshell activity currently only can output values at the specified depth, the granular depths should always be equal to the actual depth.
checkServerTrusted(X509Certificate[], String) - Method in class org.apache.taverna.activities.wsdl.security.SSLUtilities.FakeX509TrustManager: Always trust for server SSL chain peer certificate chain with any authType exchange algorithm types.
checkStyleAndUse(String, String) - Static method in class org.apache.taverna.activities.wsdl.WSDLActivityHealthChecker
checkVelocity() - Method in class org.apache.taverna.activities.interaction.velocity.InteractionVelocity
classLoader - Variable in class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity: Classloader to be used for 'executing' this activity, depending on the activity's class loader sharing policy.
cleanup(String) - Static method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
cleanup(String, CredentialManager) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
clone() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
compareTo(Object) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Implementation of Comparable interface.
compareVersions(String, String) - Static method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: FIXME: For the sake of simplicity, this implementation makes an error in treating .
ComplexTypeDescriptor - Class in org.apache.taverna.wsdl.parser: A TypeDescriptor that specifically describes a complex type
ComplexTypeDescriptor() - Constructor for class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
configure(JsonNode) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivity
configure(ExternalToolActivityConfigurationBean) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivity
configure(JsonNode) - Method in class org.apache.taverna.activities.interaction.InteractionActivity
configure(JsonNode) - Method in class org.apache.taverna.activities.rest.RESTActivity
configure(JsonNode) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity
configure(JsonNode) - Method in class org.apache.taverna.activities.wsdl.WSDLActivity: Configures the activity according to the information passed by the configuration bean.
During this process the WSDL is parsed to determine the input and output ports.
configure(JsonNode) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
configure(JsonNode) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
configure(JsonNode) - Method in class org.apache.taverna.activities.xpath.XPathActivity
configurePorts() - Method in class org.apache.taverna.activities.rest.RESTActivity
configurePorts() - Method in class org.apache.taverna.activities.xpath.XPathActivity
considerEntry(Entry) - Method in class org.apache.taverna.activities.interaction.feed.ShowRequestFeedListener
considerEntry(Entry) - Method in class org.apache.taverna.activities.interaction.FeedReader
considerEntry(Entry) - Method in class org.apache.taverna.activities.interaction.ResponseFeedListener
contains(int) - Method in class org.apache.taverna.activities.spreadsheet.Range: Returns true if value is included in this Range.
containsGroup(InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
containsGroup(InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
containsMechanism(InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
containsMechanism(InvocationMechanism) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
containsSshNode(String, int, String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNodeFactory
convert(InvocationMechanism, ToolDescription, Map<String, T2Reference>, ReferenceService) - Method in interface org.apache.taverna.activities.externaltool.InvocationCreator
convert(InvocationMechanism, ToolDescription, Map<String, T2Reference>, ReferenceService) - Method in class org.apache.taverna.activities.externaltool.local.LocalInvocationCreator
convert(Element, String) - Method in class org.apache.taverna.activities.externaltool.local.LocalMechanismCreator
convert(String, String) - Method in class org.apache.taverna.activities.externaltool.manager.MechanismCreator
convert(Element, String) - Method in class org.apache.taverna.activities.externaltool.manager.MechanismCreator
convert(InvocationMechanism, ToolDescription, Map<String, T2Reference>, ReferenceService) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationCreator
convert(Element, String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshMechanismCreator
convert(Object, ReferenceContext) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrlToSshReference
convertDetailsToMechanism() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
convertDetailsToMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
convertMechanismToDetails() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
convertMechanismToDetails() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
convertObject(Object) - Static method in class org.apache.taverna.wsdl.soap.ObjectConverter: Converts an Object into an appropriate type, in particular recursively converting [] arrays to List's.
This method is a copy of convertObject in DataThingFactory from Taverna 1
copyFixedFile(String) - Method in class org.apache.taverna.activities.interaction.InteractionUtils
CORRECTLY_CONFIGURED - Static variable in class org.apache.taverna.activities.rest.RESTActivityHealthCheck
CORRECTLY_CONFIGURED - Static variable in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
create(WSDLParser, String, List<TypeDescriptor>) - Method in class org.apache.taverna.wsdl.soap.BodyBuilderFactory
create(List, String, String, List<TypeDescriptor>) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseParserFactory: returns an instance of the appropriate type of SOAPResponseParser
createActivity() - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
createActivity() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
createActivity() - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
createActivity() - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
createActivity() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
createActivity() - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
createActivity() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
createActivity() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
createActivity() - Method in class org.apache.taverna.activities.xpath.XPathActivityFactory
createBodyElementForData(String, Map<String, String>, String, SOAPElement, TypeDescriptor, String, Object) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
createElementForArrayType(Map<String, String>, String, Object, TypeDescriptor, String, String) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder: generates an XML DOM Element for an array
createElementForArrayType(Map<String, String>, String, Object, TypeDescriptor, String, String) - Method in class org.apache.taverna.wsdl.soap.EncodedBodyBuilder
createElementForArrayType(Map<String, String>, String, Object, TypeDescriptor, String, String) - Method in class org.apache.taverna.wsdl.soap.LiteralBodyBuilder
createElementNS(String, String) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
createServiceURI(String) - Static method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
createSkeletonElementForSingleItem(Map<String, String>, TypeDescriptor, String, String) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
createSkeletonElementForSingleItem(Map<String, String>, TypeDescriptor, String, String) - Method in class org.apache.taverna.wsdl.soap.EncodedBodyBuilder
createSkeletonElementForSingleItem(Map<String, String>, TypeDescriptor, String, String) - Method in class org.apache.taverna.wsdl.soap.LiteralBodyBuilder
createSocket(Socket, String, int, boolean) - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
createSocket() - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
createSocket(String, int) - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
createSocket(InetAddress, int) - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
createSocket(String, int, InetAddress, int) - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
createSocket(InetAddress, int, InetAddress, int) - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
CSVSpreadsheetReader - Class in org.apache.taverna.activities.spreadsheet: Reads CSV files.
CSVSpreadsheetReader() - Constructor for class org.apache.taverna.activities.spreadsheet.CSVSpreadsheetReader
CyclicReferenceException - Exception in org.apache.taverna.wsdl.soap: Exception thrown when a MultiRef based xml document is found to have cyclic references when transforming into a flat XML document, therefore meaning the xml cannot be transformed.
CyclicReferenceException() - Constructor for exception org.apache.taverna.wsdl.soap.CyclicReferenceException

D

DEFAULT - Static variable in enum org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity.ClassLoaderSharing
DEFAULT_DIRECTORY - Static variable in class org.apache.taverna.activities.externaltool.ssh.SshNode
DEFAULT_HOST - Static variable in class org.apache.taverna.activities.externaltool.ssh.SshNode
DEFAULT_PORT - Static variable in class org.apache.taverna.activities.externaltool.ssh.SshNode
deleteEntry(RequestContext) - Method in class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter
deleteInteraction(String, String) - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
deleteRun(String) - Method in class org.apache.taverna.activities.externaltool.ExternalToolRunDeletionListener
deleteRun(String) - Method in class org.apache.taverna.activities.externaltool.local.LocalInvocationPersister
deleteRun(String) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
deleteRun(String) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
deleteRun(String) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationPersister
deleteRun(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationPersister
deleteRun(String) - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
deleteRun(String) - Method in class org.apache.taverna.activities.interaction.InteractionRunDeletionListener
doEdit() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.AddXMLSplitterEdit

E

elementForName(String) - Method in class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
EMPTY_XPATH_EXPRESSION - Static variable in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
EncodedBodyBuilder - Class in org.apache.taverna.wsdl.soap
EncodedBodyBuilder(String, WSDLParser, String, List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.EncodedBodyBuilder
ENDPOINT_REFERENCE - Static variable in class org.apache.taverna.activities.wsdl.WSDLActivity
equals(Object) - Method in class org.apache.taverna.activities.externaltool.local.LocalInvocationCreator
equals(Object) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
equals(Object) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
equals(Object) - Method in class org.apache.taverna.activities.spreadsheet.Range
equals(Object) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration
ExcelSpreadsheetReader - Class in org.apache.taverna.activities.spreadsheet: Reads Excel '97 (.xls) or Excel '07 (.xlsx) spreadsheet files.
ExcelSpreadsheetReader() - Constructor for class org.apache.taverna.activities.spreadsheet.ExcelSpreadsheetReader
execute(Map<String, Object>) - Method in class org.apache.taverna.wsdl.xmlsplitter.XMLInputSplitter
execute(Map<String, String>) - Method in class org.apache.taverna.wsdl.xmlsplitter.XMLOutputSplitter
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.interaction.InteractionActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.rest.RESTActivity: This method executes pre-configured instance of REST activity.
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
executeAsynch(Map<String, T2Reference>, AsynchronousActivityCallback) - Method in class org.apache.taverna.activities.xpath.XPathActivity: This method executes pre-configured instance of XPath activity.
extensionXMLToTypeDescriptor(Element) - Static method in class org.apache.taverna.wsdl.xmlsplitter.XMLSplitterSerialisationHelper: Generates the TypeDescriptor structurefrom the extensions XML element provided.
ExternalToolActivity - Class in org.apache.taverna.activities.externaltool: This is the main class of the use case activity plugin.
ExternalToolActivity() - Constructor for class org.apache.taverna.activities.externaltool.ExternalToolActivity
ExternalToolActivityConfigurationBean - Class in org.apache.taverna.activities.externaltool
ExternalToolActivityConfigurationBean() - Constructor for class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
ExternalToolActivityFactory - Class in org.apache.taverna.activities.externaltool: An ActivityFactory for creating ExternalToolActivity.
ExternalToolActivityFactory() - Constructor for class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
ExternalToolActivityHealthChecker - Class in org.apache.taverna.activities.externaltool
ExternalToolActivityHealthChecker() - Constructor for class org.apache.taverna.activities.externaltool.ExternalToolActivityHealthChecker
ExternalToolActivityMimeTypeChecker - Class in org.apache.taverna.activities.externaltool
ExternalToolActivityMimeTypeChecker() - Constructor for class org.apache.taverna.activities.externaltool.ExternalToolActivityMimeTypeChecker
externaltoolid - Variable in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
ExternalToolLocalInvocationMechanism - Class in org.apache.taverna.activities.externaltool.local
ExternalToolLocalInvocationMechanism() - Constructor for class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
ExternalToolRepositoryUtil - Class in org.apache.taverna.activities.externaltool.repository
ExternalToolRepositoryUtil() - Constructor for class org.apache.taverna.activities.externaltool.repository.ExternalToolRepositoryUtil
ExternalToolRunDeletionListener - Class in org.apache.taverna.activities.externaltool
ExternalToolRunDeletionListener() - Constructor for class org.apache.taverna.activities.externaltool.ExternalToolRunDeletionListener
ExternalToolSshInvocationMechanism - Class in org.apache.taverna.activities.externaltool.ssh
ExternalToolSshInvocationMechanism() - Constructor for class org.apache.taverna.activities.externaltool.ssh.ExternalToolSshInvocationMechanism
extractAttachments(SOAPMessage) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker: Exctracts any attachments that result from invoking the service, and returns them as a List wrapped within a DataThing
extractPlaceholders(String) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: Works identical to URISignatureHandler.extractPlaceholdersWithPositions(String) except for returning only the list of placeholder titles - without positions.
extractPlaceholdersWithPositions(String) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: Extracts placeholders of the given URI signature with their positions in the signature in the order of their occurrence.

F

fail(String) - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
fail(String) - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
FakeHostnameVerifier() - Constructor for class org.apache.taverna.activities.wsdl.security.SSLUtilities.FakeHostnameVerifier
FakeX509TrustManager() - Constructor for class org.apache.taverna.activities.wsdl.security.SSLUtilities.FakeX509TrustManager
FeedReader - Class in org.apache.taverna.activities.interaction
FeedReader(String) - Constructor for class org.apache.taverna.activities.interaction.FeedReader
FileExtFilter(String) - Constructor for class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity.FileExtFilter
findClassLoader(JsonNode, String) - Method in class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity: Finds or constructs the classloader.
flushCache(String) - Static method in class org.apache.taverna.wsdl.parser.WSDLParser: flushes all the caches of entries associated with provided wsdl location
fromString(String) - Static method in enum org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity.ClassLoaderSharing

G

GENERAL_CONFIG_PROBLEM - Static variable in class org.apache.taverna.activities.rest.RESTActivityHealthCheck
GENERAL_CONFIG_PROBLEM - Static variable in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
generateCompleteURI(String, Map<String, String>, boolean) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: Substitutes real values for all placeholders encountered in the URI signature and produces a complete URI that can be used directly.
generateId() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
generateId() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
generateNamespaceMappings(List) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder: Generates a map of all the namespaces for the operation and all of the types required to call the operation.
GenericWSDLParser - Interface in org.apache.taverna.wsdl.parser
getAbsoluteURITemplate() - Method in class org.apache.taverna.activities.rest.HTTPRequest
getAcceptedIssuers() - Method in class org.apache.taverna.activities.wsdl.security.SSLUtilities.FakeX509TrustManager: Return an empty array of certificate authority certificates which are trusted for authenticating peers.
getAcceptedRelations() - Static method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint
getAcceptsHeaderValue() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
getActivityConfigurationSchema() - Method in class org.apache.taverna.activities.xpath.XPathActivityFactory
getActivityInputs() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getActivityType() - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
getActivityType() - Method in class org.apache.taverna.activities.xpath.XPathActivityFactory
getActualOsCommand(String, String, String, String) - Static method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getAddedGroup() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroupAddedEvent
getAddedMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanismAddedEvent
getApproximateSizeInBytes() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getAsSshReference(ReferenceService, T2Reference, SshNode) - Method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
getAsStream(ReferenceService, T2Reference) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getAttributes() - Method in class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
getBaseURI() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getBaseUrl() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getByteStream() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getCertifiedText() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getChangedGroup() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroupChangedEvent
getChangedMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanismChangedEvent
getCharacterStream() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getCharset() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getCharset() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getCharsetName() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
getClassLoader() - Method in class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity
getColumn() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration.Mapping
getColumnIndex(String) - Static method in class org.apache.taverna.activities.spreadsheet.SpreadsheetUtils: Converts a column label to a (0 based) column index.
getColumnLabel(int) - Static method in class org.apache.taverna.activities.spreadsheet.SpreadsheetUtils: Converts a (0 based) column index to a column label.
getColumnNames() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the columnNames.
getColumnRange() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the columnRange.
getCommand() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription: Accessor function of command
getConfiguration() - Method in class org.apache.taverna.activities.beanshell.BeanshellActivity
getConfiguration() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivity
getConfiguration() - Method in class org.apache.taverna.activities.interaction.InteractionActivity
getConfiguration() - Method in class org.apache.taverna.activities.rest.RESTActivity
getConfiguration() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity
getConfiguration() - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
getConfiguration() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
getConfiguration() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
getConfiguration() - Method in class org.apache.taverna.activities.xpath.XPathActivity
getConfigurationBean() - Method in class org.apache.taverna.activities.rest.RESTActivity
getConfigurationNoConversion() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivity
getContent() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputStatic
getContentTypeForUpdates() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getContext() - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getCopyCommand() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
getCountQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getCredentialManager() - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
getCredentials(AuthScope) - Method in class org.apache.taverna.activities.rest.RESTActivityCredentialsProvider
getCsvDelimiter() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the delimiter for CSV formatted output.
getDataFormat() - Method in enum org.apache.taverna.activities.rest.RESTActivity.DATA_FORMAT
getDataNature() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getDataNature() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getDataNatureInteger() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getDefaultCipherSuites() - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
getDefaultFeedPath() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getDefaultGroup() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getDefaultGroup() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getDefaultHost() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getDefaultInstance() - Static method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getDefaultInstance() - Static method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
getDefaultMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getDefaultMechanism() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getDefaultNode() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNodeFactory
getDefaultRelation() - Static method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint
getDefaultWebDavPath() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getDepth() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getDescription() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getDescriptor(XmlSchemaElement) - Static method in class org.apache.taverna.wsdl.parser.TypeDescriptors
getDescriptor(XmlSchemaType) - Static method in class org.apache.taverna.wsdl.parser.TypeDescriptors
getDescriptors(LinkedHashMap<String, XmlSchemaObject>) - Static method in class org.apache.taverna.wsdl.parser.TypeDescriptors
getDirectory() - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
getDirectory() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
getDirectory() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getDirectory() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getDocumentation() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getDocumentBaseURI() - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getDocumentBaseURI() - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getDocumentBaseURI() - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getElementDescriptor(QName) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptors: Builds a type descriptor for a "Literal" parameter.
getElements() - Method in class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
getElementType() - Method in class org.apache.taverna.wsdl.parser.ArrayTypeDescriptor
getEmptyCellPolicy() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the emptyCellPolicy.
getEmptyCellValue() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the emptyCellValue.
getEncoding() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getEnd() - Method in class org.apache.taverna.activities.spreadsheet.Range: Returns the end of the Range.
getEntry(RequestContext) - Method in class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter
getEscapeParameters() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getException() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getExcludes() - Method in class org.apache.taverna.activities.spreadsheet.Range: Returns the exclusions for this range.
getExecutionTimeoutInSeconds() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getExternaltoolid() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getFeed(RequestContext) - Method in class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter
getFeedDirectory() - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
getFeedPath() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getFeedUrl() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getFeedUrlString() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getFieldName() - Method in class org.apache.taverna.activities.rest.HTTPRequestHeader
getFieldValue() - Method in class org.apache.taverna.activities.rest.HTTPRequestHeader
getFileName() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getFileName() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getFilePrefix() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getFullPath() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getGroup() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getGroupReplacement(InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getGroupReplacement(InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getHeader(String) - Method in class org.apache.taverna.activities.rest.HTTPRequest
getHeaders() - Method in class org.apache.taverna.activities.rest.HTTPRequest
getHeaders() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getHeadersAsStrings() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getHost() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
getHost() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getHost() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getHost() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getHttpMethod() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getIcon_url() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getID() - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Accessor function for the complete identifier of the runtime environment
getIdQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getImageIcon() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription: returns icon that is referenced in use case description
getImportedGroup(String) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getImportedGroup(String) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getImportedMechanism(String) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getImportedMechanism(String) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getInput() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.InputMap
getInputData() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getInputData() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getInputDataQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getInputDataUrlString(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getInputParameters(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getInputParameters(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getInputParameters(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getInputPort(String) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivity
getInputPort(String) - Method in class org.apache.taverna.activities.interaction.InteractionActivity
getInputPort(String) - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
getInputPorts(JsonNode) - Method in class org.apache.taverna.activities.xpath.XPathActivityFactory
getInputs() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getInputs() - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getInputSource(Element) - Method in class org.apache.taverna.wsdl.parser.SchemaResolver
getInReplyToQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getInstance() - Static method in class org.apache.taverna.activities.externaltool.ssh.SshNodeFactory
getInstance() - Static method in class org.apache.taverna.activities.rest.RESTActivityHealthCheck
getInstance() - Static method in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
getInteractionDirectory() - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
getInteractionPreference() - Method in class org.apache.taverna.activities.interaction.feed.ShowRequestFeedListener
getInteractionPreference() - Method in class org.apache.taverna.activities.interaction.FeedReader
getInteractionPreference() - Method in class org.apache.taverna.activities.interaction.ResponseFeedListener
getInteractionServiceDirectory() - Method in class org.apache.taverna.activities.interaction.InteractionUtils
getInteractionTemplate() - Method in class org.apache.taverna.activities.interaction.velocity.InteractionVelocity
getInteractionType() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getInteractionType() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getInteractionUrlString(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getInteractionUtils() - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
getInvocationCount() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getInvocationCount() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getInvocationGroup() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getInvocationGroups() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getInvocationGroups() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getInvocationManagerDirectory() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl: Get the directory where the invocation information will be/is saved to.
getInvocationManagerDirectory() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager: Get the directory where the invocation information will be/is saved to.
getInvocationMechanism(String) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getInvocationMechanism(String) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getJettySubdirectory(String) - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
getKeyfile() - Method in interface org.apache.taverna.activities.externaltool.invocation.AskUserForPw
getKeyfile() - Method in class org.apache.taverna.activities.externaltool.RetrieveLoginFromTaverna
getLinkCommand() - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
getLinkCommand() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
getLocationUrl() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getMechanism() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
getMechanismName() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getMechanismName() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
getMechanismReplacement(String) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getMechanismReplacement(String) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getMechanisms() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getMechanisms() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getMechanismType() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getMechanismType() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
getMechanismXML() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getMechanismXML() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
getMethod() - Method in class org.apache.taverna.activities.rest.HTTPRequest
getMime() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
getMime() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
getMimeType() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getMimeTypeForInputName(String) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder: Provides the mime type for a given input
getName() - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Accessor function for the RE's name
getName() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
getName() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
getName() - Method in class org.apache.taverna.activities.interaction.velocity.NotifyDirective
getName() - Method in class org.apache.taverna.activities.interaction.velocity.ProduceDirective
getName() - Method in class org.apache.taverna.activities.interaction.velocity.RequireDirective
getName() - Method in class org.apache.taverna.wsdl.parser.ArrayTypeDescriptor
getName() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getNamespaceURI() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getNodes() - Method in class org.apache.taverna.activities.externaltool.ssh.ExternalToolSshInvocationMechanism
getObservers() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
getObservers() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
getOperation() - Method in class org.apache.taverna.activities.wsdl.WSDLActivityConfigurationBean
getOperationDocumentation(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getOperationDocumentation(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getOperationDocumentation(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getOperationDocumentation(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Provides the documentation for the given operation name, or returns an empty string if no documentation is provided by the WSDL.
getOperationEndpointLocation(String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getOperationEndpointLocation(String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser: Deprecated.
getOperationEndpointLocation(String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getOperationEndpointLocation(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getOperationEndpointLocations(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getOperationInputParameters(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Returns a List of the TypeDescriptors representing the parameters for the inputs to the service
getOperationName() - Method in class org.apache.taverna.activities.wsdl.WSDLOperationConfigurationBean
getOperationName() - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
getOperationNamespaceURI(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser: returns the namespace uri for the given operation name, throws UnknownOperationException if the operationName is not matched to one described by the WSDL.
getOperationOutputParameters(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Returns a List of the TypeDescriptors representing the parameters for the outputs of the service
getOperationQname(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getOperations(String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getOperations(String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getOperations(String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getOperations(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getOperations() - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getOperationStyle(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getOperationStyle(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getOperationStyle(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getOtherHTTPHeaders() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getOutgoingDataFormat() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getOutput() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.OutputMap
getOutputDataUrlString(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getOutputFormat() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the outputFormat.
getOutputName() - Method in class org.apache.taverna.wsdl.soap.SOAPResponseLiteralParser
getOutputNames() - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
getOutputNode(Element, String) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser
getOutputParameters(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getOutputParameters(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getOutputParameters(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
getOutputPorts(JsonNode) - Method in class org.apache.taverna.activities.xpath.XPathActivityFactory
getOutputs() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getParser() - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
getPassphrase() - Method in interface org.apache.taverna.activities.externaltool.invocation.AskUserForPw
getPassphrase() - Method in class org.apache.taverna.activities.externaltool.RetrieveLoginFromTaverna
getPassword() - Method in interface org.apache.taverna.activities.externaltool.invocation.AskUserForPw
getPassword() - Method in class org.apache.taverna.activities.externaltool.RetrieveLoginFromTaverna
getPassword() - Method in class org.apache.taverna.activities.rest.RESTActivityCredentialsProvider.RESTActivityCredentials
getPath() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
getPath() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getPath() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getPathIdQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getPort() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.InputMap
getPort() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.OutputMap
getPort() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
getPort() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getPort() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getPort() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getPort() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration.Mapping
getPortName(String, JsonNode) - Static method in class org.apache.taverna.activities.spreadsheet.SpreadsheetUtils: Returns the port name for the column label.
getPortName(int, JsonNode) - Static method in class org.apache.taverna.activities.spreadsheet.SpreadsheetUtils: Returns the port name for the column index.
getPorts(QName) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getPorts(QName) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getPorts(QName) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getPorts(QName) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getPrefix() - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean.NamespaceMapping
getPreparingTimeoutInSeconds() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getPresentationOrigin() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getPresentationOrigin() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getPresentationType() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getPresentationType() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getPresentationUrlString(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getProgressQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getPublicationUrlString(String, String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getPublicId() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getQname() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getQueue_deny() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getQueue_preferred() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getRange(JsonNode) - Static method in class org.apache.taverna.activities.spreadsheet.SpreadsheetUtils
getRangeValues() - Method in class org.apache.taverna.activities.spreadsheet.Range: Returns an array of the values contained in this Range.
getReasonPhrase() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getRedirectionHTTPMethod() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getRedirectionURL() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getRelation() - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: Accessor function for relation
getRemovedGroup() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroupRemovedEvent
getRemovedMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanismRemovedEvent
getReplacementGroup() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroupRemovedEvent
getReplacementMechanism() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanismRemovedEvent
getRepositoryUrl() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getRequest() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getREs() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getResponseBody() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getResponseContentTypes() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getResultDataQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getResultStatusQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getReturnCodesAsText() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getRowRange() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the rowRange.
getRPCRequestMethodName(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getRPCRequestMethodName(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser: Returns a qualified name for a RPC method that is a root element for a SOAPBody.
getRPCRequestMethodName(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getRPCResponseMethodName(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getRPCResponseMethodName(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser: Returns a qualified name for a RPC method that is a root element for a SOAPBody.
getRPCResponseMethodName(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getRunId() - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getRunId() - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
getRunId() - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
getRunIdQName() - Static method in class org.apache.taverna.activities.interaction.atom.AtomUtils
getSecurityProfile() - Method in class org.apache.taverna.activities.wsdl.WSDLActivityConfigurationBean
getSendHTTPExpectRequestHeader() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getServices() - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getServices() - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getServices() - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getServices() - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getSftpGetChannel(SshNode, AskUserForPw) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshPool
getSftpPutChannel(SshNode, AskUserForPw) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshPool
getShellPrefix() - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
getShowActualUrlPort() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getShowRedirectionOutputPort() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getShowResponseHeadersPort() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getSOAPActionURI(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getSOAPActionURI(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getSOAPActionURI(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getSOAPActionURI(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Returns the actionURI for the given operation
getSoapAddress(String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getSoapAddress(String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getSoapAddress(String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getSoapInputUse(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getSoapInputUse(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getSoapInputUse(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getSoapOutputUse(String, String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
getSoapOutputUse(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getSoapOutputUse(String, String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getSshNode(String, int, String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNodeFactory
getSshNode() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getSshSession(SshUrl, AskUserForPw) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshPool
getSshSession(SshNode, AskUserForPw) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshPool
getStart() - Method in class org.apache.taverna.activities.spreadsheet.Range: Returns the start of the Range.
getStatic_inputs() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getStatusCode() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
getStringData() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getStripAttributes() - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser
getStyle() - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Deprecated.
getStyle(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getStyle() - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
getStyle() - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
getSubDirectory() - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
getSubDirectory() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
getSubject() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.AddXMLSplitterEdit
getSubmissionID() - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getSupportedCipherSuites() - Method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory
getSystemId() - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
getTag() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
getTags() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getTemplateNames() - Method in class org.apache.taverna.activities.interaction.velocity.InteractionVelocity
getTimeout() - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker: Reads the property taverna.wsdl.timeout, default to 5 minutes if missing.
getType(String) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
getType() - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
getType() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
getType() - Method in class org.apache.taverna.activities.externaltool.ssh.ExternalToolSshInvocationMechanism
getType() - Method in class org.apache.taverna.activities.interaction.velocity.NotifyDirective
getType() - Method in class org.apache.taverna.activities.interaction.velocity.ProduceDirective
getType() - Method in class org.apache.taverna.activities.interaction.velocity.RequireDirective
getType() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
getTypeDescriptor(QName) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptors: Builds a type descriptor for a "RPC" parameter.
getTypeDescriptorForInputPort(String) - Method in interface org.apache.taverna.activities.wsdl.InputPortTypeDescriptorActivity: Provides access to the TypeDescriptor for a given input port name.
getTypeDescriptorForInputPort(String) - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
getTypeDescriptorForInputPort(String) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity: Returns a TypeDescriptor for the given port name.
getTypeDescriptorForOutputPort(String) - Method in interface org.apache.taverna.activities.wsdl.OutputPortTypeDescriptorActivity: Provides access to the TypeDescriptor for a given output port name.
getTypeDescriptorForOutputPort(String) - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
getTypeDescriptorForOutputPort(String) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
getTypeDescriptorsForInputPorts() - Method in interface org.apache.taverna.activities.wsdl.InputPortTypeDescriptorActivity: Return TypeDescriptor for a all input ports.
getTypeDescriptorsForInputPorts() - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
getTypeDescriptorsForInputPorts() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity: Return TypeDescriptor for a all input ports.
getTypeDescriptorsForOutputPorts() - Method in interface org.apache.taverna.activities.wsdl.OutputPortTypeDescriptorActivity: Return TypeDescriptor for a all output ports.
getTypeDescriptorsForOutputPorts() - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
getTypeDescriptorsForOutputPorts() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity: Return TypeDescriptor for a all output ports.
getUri() - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean.NamespaceMapping
getUrl() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputStatic
getUrlSignature() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
getUse(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Returns either literal or encoded, describing the 'use' for this operation
getUse() - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
getUse() - Method in class org.apache.taverna.wsdl.soap.EncodedBodyBuilder
getUse() - Method in class org.apache.taverna.wsdl.soap.LiteralBodyBuilder
getUse() - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
getUseCaseDescription() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
getUsecaseid() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getUsedRunId(String) - Static method in class org.apache.taverna.activities.interaction.InteractionUtils
getUseJetty() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getUsername() - Method in interface org.apache.taverna.activities.externaltool.invocation.AskUserForPw
getUsername() - Method in class org.apache.taverna.activities.externaltool.RetrieveLoginFromTaverna
getUsernameAndPasswordForService(JsonNode, boolean) - Method in class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker: Get username and password from Credential Manager or ask user to supply one.
getUserPrincipal() - Method in class org.apache.taverna.activities.rest.RESTActivityCredentialsProvider.RESTActivityCredentials
getUseUsername() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getUUID() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getValidReturnCodes() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
getVersion() - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Accessfor function for the version
getVisitorClass() - Method in class org.apache.taverna.activities.rest.RESTActivityHealthCheck
getVisitorClass() - Method in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
getWebDavPath() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
getWrappedTypeXML() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean
getWsdl() - Method in class org.apache.taverna.activities.wsdl.WSDLOperationConfigurationBean
getWSDL11Parser(String) - Static method in class org.apache.taverna.wsdl.parser.WSDL11Parser
getWSDL20Parser(String) - Static method in class org.apache.taverna.wsdl.parser.WSDL20Parser
getWSDLLocation() - Method in class org.apache.taverna.wsdl.parser.WSDLParser
getXML() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
getXmlDocument() - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
getXMLElement() - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
getXMLElement() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
getXMLElement() - Method in class org.apache.taverna.activities.externaltool.ssh.ExternalToolSshInvocationMechanism
getXpathExpression() - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
getXpathNamespaceMap() - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
groupChanged(InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
groupChanged(InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager

H

HackedFilesystemAdapter - Class in org.apache.taverna.activities.interaction.jetty: Simple Filesystem Adapter that uses a local directory to store Atompub collection entries.
HackedFilesystemAdapter(Abdera, FeedConfiguration) - Constructor for class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter
hasException() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
hashCode() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
hashCode() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
hashCode() - Method in class org.apache.taverna.activities.spreadsheet.Range
hashCode() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration
hasMessageBodyInputPort() - Method in class org.apache.taverna.activities.rest.RESTActivity: Uses HTTP method value of the config bean of the current instance of RESTActivity.
hasMessageBodyInputPort(RESTActivity.HTTP_METHOD) - Static method in class org.apache.taverna.activities.rest.RESTActivity: Return value of this method has a number of implications - various input ports and configuration options for this activity are applied based on the selected HTTP method.
hasServerError() - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
HTTP_BASIC_AUTHN - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: Security profile for Web services that require HTTP Basic Authentication.
HTTP_DIGEST_AUTHN - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: Security profile for Web services that require HTTP Digest Authentication.
HTTPRequest - Class in org.apache.taverna.activities.rest: HTTP Request configuration bean.
HTTPRequest() - Constructor for class org.apache.taverna.activities.rest.HTTPRequest
HTTPRequestHandler - Class in org.apache.taverna.activities.rest: This class deals with the actual remote REST service invocation.
HTTPRequestHandler() - Constructor for class org.apache.taverna.activities.rest.HTTPRequestHandler
HTTPRequestHandler.HTTPRequestResponse - Class in org.apache.taverna.activities.rest: All fields have public accessor, but private mutators.
HTTPRequestHeader - Class in org.apache.taverna.activities.rest: HTTP Request Header configuration bean
HTTPRequestHeader() - Constructor for class org.apache.taverna.activities.rest.HTTPRequestHeader
HTTPRequestResponse(int, String, String, String, Header[], String) - Constructor for class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse: Standard public constructor for a regular case, where all values are known and the request has succeeded.
HTTPRequestResponse(Exception) - Constructor for class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse: Standard public constructor for an error case, where an error has occurred and request couldn't be executed because of an internal exception (rather than an error received from the remote server).

I

id - Variable in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Unique identification of the runtime environment - the full name
importInvocationGroup(String, InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
importInvocationGroup(String, InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
importMechanism(String, InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
importMechanism(String, InvocationMechanism) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
IN_BODY - Static variable in class org.apache.taverna.activities.rest.RESTActivity
IN_XML - Static variable in class org.apache.taverna.activities.xpath.XPathActivity
initiateHTTPRequest(String, RESTActivityConfigurationBean, Object, Map<String, String>, CredentialsProvider) - Static method in class org.apache.taverna.activities.rest.HTTPRequestHandler: This method is the entry point to the invocation of a remote REST service.
inlineByteArrayReferenceBuilder - Static variable in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
inlineStringReferenceBuilder - Static variable in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
INPUT_PORT_NAME - Static variable in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity
inputDescriptors - Variable in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
InputMap() - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescription.InputMap
InputPortTypeDescriptorActivity - Interface in org.apache.taverna.activities.wsdl: Interface for an activity such as WSDLActivity and XMLInputSplitterActivity that can provide TypeDescriptors for its inputs.
install() - Static method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory: Set this as the default global socket factory for HTTPS connections
instance() - Static method in class org.apache.taverna.wsdl.soap.BodyBuilderFactory
instance() - Static method in class org.apache.taverna.wsdl.soap.SOAPResponseParserFactory
InteractionActivity - Class in org.apache.taverna.activities.interaction
InteractionActivity(CredentialManager, InteractionRecorder, InteractionUtils, InteractionJetty, InteractionPreference, ResponseFeedListener, InteractionVelocity) - Constructor for class org.apache.taverna.activities.interaction.InteractionActivity
InteractionActivityFactory - Class in org.apache.taverna.activities.interaction
InteractionActivityFactory() - Constructor for class org.apache.taverna.activities.interaction.InteractionActivityFactory
InteractionActivityHealthChecker - Class in org.apache.taverna.activities.interaction: Example health checker
InteractionActivityHealthChecker() - Constructor for class org.apache.taverna.activities.interaction.InteractionActivityHealthChecker
InteractionActivityRunnable - Class in org.apache.taverna.activities.interaction
InteractionActivityRunnable(InteractionRequestor, Template, CredentialManager, InteractionRecorder, InteractionUtils, InteractionJetty, InteractionPreference, ResponseFeedListener, InteractionVelocity) - Constructor for class org.apache.taverna.activities.interaction.InteractionActivityRunnable
InteractionActivityType - Enum in org.apache.taverna.activities.interaction
InteractionCallbackRequestor - Class in org.apache.taverna.activities.interaction
InteractionCallbackRequestor(InteractionActivity, AsynchronousActivityCallback, Map<String, T2Reference>) - Constructor for class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
InteractionJetty - Class in org.apache.taverna.activities.interaction.jetty
InteractionJetty() - Constructor for class org.apache.taverna.activities.interaction.jetty.InteractionJetty
InteractionPreference - Class in org.apache.taverna.activities.interaction.preference
InteractionRecorder - Class in org.apache.taverna.activities.interaction: This class is used to remember and forget interactions and their associated ATOM entries and files
InteractionRequestor - Interface in org.apache.taverna.activities.interaction
InteractionRunDeletionListener - Class in org.apache.taverna.activities.interaction
InteractionRunDeletionListener() - Constructor for class org.apache.taverna.activities.interaction.InteractionRunDeletionListener
InteractionType - Enum in org.apache.taverna.activities.interaction
InteractionUtils - Class in org.apache.taverna.activities.interaction
InteractionVelocity - Class in org.apache.taverna.activities.interaction.velocity
InteractionVelocity() - Constructor for class org.apache.taverna.activities.interaction.velocity.InteractionVelocity
INVALID_XPATH_EXPRESSION - Static variable in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
InvocationCreator - Interface in org.apache.taverna.activities.externaltool
InvocationException - Exception in org.apache.taverna.activities.externaltool.invocation
InvocationException(String) - Constructor for exception org.apache.taverna.activities.externaltool.invocation.InvocationException
InvocationException(Exception) - Constructor for exception org.apache.taverna.activities.externaltool.invocation.InvocationException
InvocationGroup - Class in org.apache.taverna.activities.externaltool.manager
InvocationGroup(List<MechanismCreator>) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationGroup
InvocationGroupAddedEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationGroupAddedEvent(InvocationGroup) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationGroupAddedEvent
InvocationGroupChangedEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationGroupChangedEvent(InvocationGroup) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationGroupChangedEvent
InvocationGroupManager - Interface in org.apache.taverna.activities.externaltool.manager
InvocationGroupManagerImpl - Class in org.apache.taverna.activities.externaltool.manager.impl
InvocationGroupManagerImpl(ApplicationConfiguration, List<MechanismCreator>, List<InvocationPersister>) - Constructor for class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
InvocationGroupRemovedEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationGroupRemovedEvent(InvocationGroup, InvocationGroup) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationGroupRemovedEvent
InvocationManagerEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationManagerEvent() - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationManagerEvent
InvocationMechanism - Class in org.apache.taverna.activities.externaltool.manager
InvocationMechanism() - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
InvocationMechanismAddedEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationMechanismAddedEvent(InvocationMechanism) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationMechanismAddedEvent
InvocationMechanismChangedEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationMechanismChangedEvent(InvocationMechanism) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationMechanismChangedEvent
InvocationMechanismRemovedEvent - Class in org.apache.taverna.activities.externaltool.manager
InvocationMechanismRemovedEvent(InvocationMechanism, InvocationMechanism) - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationMechanismRemovedEvent
InvocationPersister - Class in org.apache.taverna.activities.externaltool.manager
InvocationPersister() - Constructor for class org.apache.taverna.activities.externaltool.manager.InvocationPersister
invoke(SOAPMessage) - Method in class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker
invoke(Map<String, Object>, JsonNode) - Method in class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker
invoke(Map) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker: Invokes the webservice with the supplied input Map, and returns a Map containing the outputs, mapped against their output names.
invoke(SOAPMessage) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker: Invokes the webservice with the supplied input Map and preconfigured axis call, and returns a Map containing the outputs, mapped against their output names.
isAllRows() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the allRows property.
isApplied() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.AddXMLSplitterEdit
isBinary() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
isBinary() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
isConcatenate() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
isCyclic(TypeDescriptor) - Static method in class org.apache.taverna.wsdl.parser.TypeDescriptor: Determines whether the descriptor describes a data structure that is cyclic, i.e.
isEdited() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
isExcludeFirstRow() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the excludeFirstRow property.
isFile() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
isForceCopy() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
isFulfilledBy(RuntimeEnvironment) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: Perfoms test if the RuntimeEnvironment (RE) passed as argument fulfills the requirements set by the constraint.
isFulfilledByAtLeastOneIn(Collection<RuntimeEnvironment>) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: Iterates over all the RuntimeEnvironments passed as argument.
isIgnoreBlankRows() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Returns the ignoreBlankRows property.
isIncludeStdErr() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
isIncludeStdIn() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
isIncludeStdOut() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
isInferiorToAtLeastOneIn(Iterable<RuntimeEnvironment>) - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Indicates if any of the runtime environments listed is the same version as this or later.
isList() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
isNillable() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
isOptional() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
isProgressNotification() - Method in class org.apache.taverna.activities.interaction.InteractionActivity
isRetrieveData() - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
isRetrieveData() - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
isRetrieveData() - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
isTempFile() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
isTimeConsuming() - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityHealthChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityHealthChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityMimeTypeChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.interaction.InteractionActivityHealthChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.rest.RESTActivityHealthChecker: Health check for the REST activity only involves verifying details in the configuration bean - that is quick.
isTimeConsuming() - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportHealthChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.wsdl.WSDLActivityDescriptorChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterHealthChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterHealthChecker
isTimeConsuming() - Method in class org.apache.taverna.activities.xpath.XPathActivityHealthChecker: Health check for the XPath activity only involves verifying details in the configuration bean - that is quick.
isTrustingEverything() - Static method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory: Determine whether the current thread will trust unsigned certificates
isUnbounded() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
isUse100Continue() - Method in class org.apache.taverna.activities.rest.HTTPRequestHeader
isValid() - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean: Tests validity of the configuration held in this bean.
isValid(String) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: Tests whether the provided URI signature is valid or not.
isValid() - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean: Tests validity of the configuration held in this bean.
isValid(JsonNode) - Static method in class org.apache.taverna.activities.xpath.XPathUtils: Tests validity of the configuration held.
isWrapped() - Method in class org.apache.taverna.wsdl.parser.ArrayTypeDescriptor
isWSRFPort(String) - Method in interface org.apache.taverna.wsdl.parser.GenericWSDLParser
isWSRFPort(String) - Method in class org.apache.taverna.wsdl.parser.WSDL11Parser
isWSRFPort(String) - Method in class org.apache.taverna.wsdl.parser.WSDL20Parser
isWSRFPort(String) - Method in class org.apache.taverna.wsdl.parser.WSDLParser
isWsrfService() - Method in class org.apache.taverna.activities.wsdl.WSDLActivity
isWsrfService() - Method in class org.apache.taverna.wsdl.parser.WSDLParser: Checks whether ANY of defined ports is an WSRF one.

J

JaxWSInvoker - Class in org.apache.taverna.wsdl.soap: JAX-WS based invoker.
JaxWSInvoker(WSDLParser, String, String) - Constructor for class org.apache.taverna.wsdl.soap.JaxWSInvoker

L

libDir - Variable in class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity: The location of the lib directory in TAVERNA_HOME, where local JAR files the activity depends on should be located.
LiteralBodyBuilder - Class in org.apache.taverna.wsdl.soap: An implementation of BodyBuilder that supports creating the SOAP body for Webservices based upon a WSDL with Literal style.
LiteralBodyBuilder(String, WSDLParser, String, List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.LiteralBodyBuilder
load(File) - Method in class org.apache.taverna.activities.externaltool.local.LocalInvocationPersister
load(File) - Static method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
load(File) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationPersister
load(File) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationPersister
load(File) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
load() - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
loadInvocations() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
loadInvocations() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
LOCAL_USE_CASE_INVOCATION_TYPE - Static variable in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
LocalInvocationCreator - Class in org.apache.taverna.activities.externaltool.local
LocalInvocationCreator() - Constructor for class org.apache.taverna.activities.externaltool.local.LocalInvocationCreator
LocalInvocationPersister - Class in org.apache.taverna.activities.externaltool.local
LocalInvocationPersister() - Constructor for class org.apache.taverna.activities.externaltool.local.LocalInvocationPersister
LocalMechanismCreator - Class in org.apache.taverna.activities.externaltool.local
LocalMechanismCreator() - Constructor for class org.apache.taverna.activities.externaltool.local.LocalMechanismCreator
LocalToolInvocation - Class in org.apache.taverna.activities.externaltool.local: The job is executed locally, i.e.
LocalToolInvocation(ToolDescription, boolean, String, String, String) - Constructor for class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
logger - Static variable in class org.apache.taverna.activities.interaction.velocity.InteractionVelocity
LSInputImpl - Class in org.apache.taverna.wsdl.parser
LSInputImpl(InputSource) - Constructor for class org.apache.taverna.wsdl.parser.LSInputImpl

M

main(String[]) - Static method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: For testing purposes
main(String[]) - Static method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: For testing purposes
main(String[]) - Static method in class org.apache.taverna.activities.externaltool.desc.ToolDescription: hajo's test just pass an url or file url to an xml file
makeRequestEnvelope(Map) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
makeSoapBody(Map) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
makeUrl(String, int, String) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshNodeFactory
mapNamespace(TypeDescriptor, List<TypeDescriptor>, Map<String, String>, int) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder: creates a namespace prefix and adds the namespace to the namespaceMap for a TypeDescriptor.
Mapping() - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration.Mapping
mechanismChanged(InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
mechanismChanged(InvocationMechanism) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
MechanismCreator - Class in org.apache.taverna.activities.externaltool.manager
MechanismCreator() - Constructor for class org.apache.taverna.activities.externaltool.manager.MechanismCreator
MISSING_NAMESPACE_MAPPINGS - Static variable in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck

N

name - Variable in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment
NamespaceMapping() - Constructor for class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean.NamespaceMapping
namespaceMappings - Variable in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder
NO_EXAMPLE_DOCUMENT - Static variable in class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
NotifyChecker - Class in org.apache.taverna.activities.interaction.velocity
NotifyChecker() - Constructor for class org.apache.taverna.activities.interaction.velocity.NotifyChecker
NotifyDirective - Class in org.apache.taverna.activities.interaction.velocity
NotifyDirective() - Constructor for class org.apache.taverna.activities.interaction.velocity.NotifyDirective
nTempFiles - Variable in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation

O

ObjectConverter - Class in org.apache.taverna.wsdl.soap: This class replicates the behaviour of data conversion when using DataThingFactory.bake in Taverna 1.
ObjectConverter() - Constructor for class org.apache.taverna.wsdl.soap.ObjectConverter
objectToJson(Object) - Static method in class org.apache.taverna.activities.interaction.InteractionUtils
observers - Variable in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
ODFSpreadsheetReader - Class in org.apache.taverna.activities.spreadsheet: Reads Open Document Format (ODF) spreadsheet files.
ODFSpreadsheetReader() - Constructor for class org.apache.taverna.activities.spreadsheet.ODFSpreadsheetReader
openExecChannel(SshNode, AskUserForPw) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshPool
openStream(ReferenceContext) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
org.apache.taverna.activities.beanshell - package org.apache.taverna.activities.beanshell
org.apache.taverna.activities.dependencyactivity - package org.apache.taverna.activities.dependencyactivity
org.apache.taverna.activities.externaltool - package org.apache.taverna.activities.externaltool: Contains the activity classes required to interact with use cases.
org.apache.taverna.activities.externaltool.desc - package org.apache.taverna.activities.externaltool.desc
org.apache.taverna.activities.externaltool.invocation - package org.apache.taverna.activities.externaltool.invocation
org.apache.taverna.activities.externaltool.local - package org.apache.taverna.activities.externaltool.local
org.apache.taverna.activities.externaltool.manager - package org.apache.taverna.activities.externaltool.manager
org.apache.taverna.activities.externaltool.manager.impl - package org.apache.taverna.activities.externaltool.manager.impl
org.apache.taverna.activities.externaltool.repository - package org.apache.taverna.activities.externaltool.repository
org.apache.taverna.activities.externaltool.ssh - package org.apache.taverna.activities.externaltool.ssh
org.apache.taverna.activities.interaction - package org.apache.taverna.activities.interaction
org.apache.taverna.activities.interaction.atom - package org.apache.taverna.activities.interaction.atom
org.apache.taverna.activities.interaction.feed - package org.apache.taverna.activities.interaction.feed
org.apache.taverna.activities.interaction.jetty - package org.apache.taverna.activities.interaction.jetty
org.apache.taverna.activities.interaction.preference - package org.apache.taverna.activities.interaction.preference
org.apache.taverna.activities.interaction.velocity - package org.apache.taverna.activities.interaction.velocity
org.apache.taverna.activities.rest - package org.apache.taverna.activities.rest
org.apache.taverna.activities.spreadsheet - package org.apache.taverna.activities.spreadsheet: Contains the activity classes required to include spreadsheet files within a DataFlow.
org.apache.taverna.activities.wsdl - package org.apache.taverna.activities.wsdl: Contains the activity classes required to interact with a WSDL based web-service.
org.apache.taverna.activities.wsdl.security - package org.apache.taverna.activities.wsdl.security
org.apache.taverna.activities.wsdl.wss4j - package org.apache.taverna.activities.wsdl.wss4j
org.apache.taverna.activities.wsdl.xmlsplitter - package org.apache.taverna.activities.wsdl.xmlsplitter
org.apache.taverna.activities.xpath - package org.apache.taverna.activities.xpath
org.apache.taverna.wsdl.parser - package org.apache.taverna.wsdl.parser: Contains classes required to parse a WSDL to discover and describe the operations and their input and output data structures.
These classes are derived heavily from the original parsing classes from the Taverna 1 WSDLBasedProcessor and have been refactored
to remove references to to Taverna 1
org.apache.taverna.wsdl.soap - package org.apache.taverna.wsdl.soap: Contains classes required to invoke an endpoint for a SOAP based web-service described by a WSDL.
These classes are derived heavily from the original parsing classes from the Taverna 1 WSDLBasedProcessor and have been refactored
to remove references to to Taverna 1
org.apache.taverna.wsdl.xmlsplitter - package org.apache.taverna.wsdl.xmlsplitter
OUT_COMPLETE_URL - Static variable in class org.apache.taverna.activities.rest.RESTActivity
OUT_REDIRECTION - Static variable in class org.apache.taverna.activities.rest.RESTActivity
OUT_RESPONSE_BODY - Static variable in class org.apache.taverna.activities.rest.RESTActivity
OUT_RESPONSE_HEADERS - Static variable in class org.apache.taverna.activities.rest.RESTActivity
OUT_STATUS - Static variable in class org.apache.taverna.activities.rest.RESTActivity
OUT_TEXT - Static variable in class org.apache.taverna.activities.xpath.XPathActivity
OUT_XML - Static variable in class org.apache.taverna.activities.xpath.XPathActivity
OUTPUT_PORT_NAME - Static variable in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity
outputDescriptors - Variable in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser
OutputMap() - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescription.OutputMap
OutputPortTypeDescriptorActivity - Interface in org.apache.taverna.activities.wsdl: Interface for an activity such as WSDLActivity and XMLOutputSplitterActivity that can provide TypeDescriptors for it's outputs.
outputter - Static variable in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism

P

parse(List<SOAPElement>) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedMultiRefParser: Expects a list of XML SOAPBodyElement fragements, with the first being the root, and transforms this into a single XML document.
parse(List<SOAPElement>) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser: Parses the response into a single XML document, which is placed in the outputMap together with the given output name.
parse(List) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseLiteralParser: Expects a list containing a single SOAPBodyElement, the contents of which are transferred directly to the output, converted to a String, and placed into the outputMaP which is returned
parse(List<SOAPElement>) - Method in interface org.apache.taverna.wsdl.soap.SOAPResponseParser: All SOAPResponseParsers take a list of SOAPBodyElement's, resulting from invoking the service, and convert these into a suitable map of output DataThings.
parse(List) - Method in class org.apache.taverna.wsdl.soap.SOAPResponsePrimitiveLiteralParser
parse(List<SOAPElement>) - Method in class org.apache.taverna.wsdl.soap.SOAPResponsePrimitiveParser: Parses each SOAPBodyElement for the primitive type, and places it in the output Map
parseWsrfEndpointReference(String) - Method in class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker
persist(File) - Method in class org.apache.taverna.activities.externaltool.local.LocalInvocationPersister
persist(File) - Static method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
persist(File) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationPersister
persist(File) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationPersister
persist(File) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
persist() - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
persistInvocations() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
persistInvocations() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
PLACEHOLDER_END_SYMBOL - Static variable in class org.apache.taverna.activities.rest.URISignatureHandler
PLACEHOLDER_START_SYMBOL - Static variable in class org.apache.taverna.activities.rest.URISignatureHandler
populateElementWithList(String, Element, List, TypeDescriptor) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder: Populates a DOM XML Element with the contents of a List of dataValues
populateElementWithObjectData(String, Element, Object, TypeDescriptor) - Method in class org.apache.taverna.wsdl.soap.AbstractBodyBuilder: Populates a DOM XML Element with dataValue according to its mimetype
postEntry(RequestContext) - Method in class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter
processRow(int, SortedMap<Integer, String>) - Method in interface org.apache.taverna.activities.spreadsheet.SpreadsheetRowProcessor: Called by a SpreadsheetReader when all the cells of a row have been read.
ProduceChecker - Class in org.apache.taverna.activities.interaction.velocity
ProduceChecker() - Constructor for class org.apache.taverna.activities.interaction.velocity.ProduceChecker
ProduceDirective - Class in org.apache.taverna.activities.interaction.velocity
ProduceDirective() - Constructor for class org.apache.taverna.activities.interaction.velocity.ProduceDirective
PROXY_HOST - Static variable in class org.apache.taverna.activities.rest.HTTPRequestHandler
PROXY_PASSWORD - Static variable in class org.apache.taverna.activities.rest.HTTPRequestHandler
PROXY_PORT - Static variable in class org.apache.taverna.activities.rest.HTTPRequestHandler
PROXY_USERNAME - Static variable in class org.apache.taverna.activities.rest.HTTPRequestHandler
publishFile(String, String, String, String) - Method in class org.apache.taverna.activities.interaction.InteractionUtils
putEntry(RequestContext) - Method in class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter

R

Range - Class in org.apache.taverna.activities.spreadsheet: A range of integer values.
Range() - Constructor for class org.apache.taverna.activities.spreadsheet.Range: Constructs a Range.
Range(int, int) - Constructor for class org.apache.taverna.activities.spreadsheet.Range: Constructs a Range with the specified start and end values.
Range(int, int, Range) - Constructor for class org.apache.taverna.activities.spreadsheet.Range: Constructs a Range with the specified start and end values and a Range of excluded values.
Range(int, int, List<Range>) - Constructor for class org.apache.taverna.activities.spreadsheet.Range: Constructs a Range with the specified start and end values and Ranges of excluded values.
Range(Range) - Constructor for class org.apache.taverna.activities.spreadsheet.Range: Constructs a Range that is a deep copy of the specified range.
read(InputStream, Range, Range, boolean, SpreadsheetRowProcessor) - Method in class org.apache.taverna.activities.spreadsheet.CSVSpreadsheetReader
read(InputStream, Range, Range, boolean, SpreadsheetRowProcessor) - Method in class org.apache.taverna.activities.spreadsheet.ExcelSpreadsheetReader
read(InputStream, Range, Range, boolean, SpreadsheetRowProcessor) - Method in class org.apache.taverna.activities.spreadsheet.ODFSpreadsheetReader
read(InputStream, Range, Range, boolean, SpreadsheetRowProcessor) - Method in interface org.apache.taverna.activities.spreadsheet.SpreadsheetReader: Reads an InputStream and passes spreadsheet cell data values, row by row, to the rowProcessor.
readDescriptionFromUrl(String, String) - Static method in class org.apache.taverna.activities.externaltool.desc.ToolDescriptionParser
readDescriptionsFromStream(InputStream) - Static method in class org.apache.taverna.activities.externaltool.desc.ToolDescriptionParser
readDescriptionsFromUrl(String) - Static method in class org.apache.taverna.activities.externaltool.desc.ToolDescriptionParser
readFromInputStreamAsBinary(InputStream) - Static method in class org.apache.taverna.activities.rest.HTTPRequestHandler: Worker method that extracts the content of the input stream as binary data.
receiveResult(Map<String, Object>) - Method in class org.apache.taverna.activities.interaction.InteractionCallbackRequestor
receiveResult(Map<String, Object>) - Method in interface org.apache.taverna.activities.interaction.InteractionRequestor
recreateMechanism() - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivity
registerInteraction(Entry, InteractionRequestor) - Method in class org.apache.taverna.activities.interaction.ResponseFeedListener
relation - Variable in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: Identifies the relation between runtime environments to be tested
rememberRun(String) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
rememberRun(String) - Method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
rememberRun(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
removeExclude(Range) - Method in class org.apache.taverna.activities.spreadsheet.Range: Removes a Range from the exclusions for this range.
removeInvocationGroup(InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
removeInvocationGroup(InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
removeMechanism(InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
removeMechanism(InvocationMechanism) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
removeNamespace(String, Element) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser: Removes the namespace from the surrounding element that represents the outputName.
removeObserver(Observer<InvocationManagerEvent>) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
removeObserver(Observer<InvocationManagerEvent>) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
render(InternalContextAdapter, Writer, Node) - Method in class org.apache.taverna.activities.interaction.velocity.NotifyDirective
render(InternalContextAdapter, Writer, Node) - Method in class org.apache.taverna.activities.interaction.velocity.ProduceDirective
render(InternalContextAdapter, Writer, Node) - Method in class org.apache.taverna.activities.interaction.velocity.RequireDirective
replaceInvocationGroup(InvocationGroup, InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
replaceInvocationGroup(InvocationGroup, InvocationGroup) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
replaceInvocationMechanism(InvocationMechanism, InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
replaceInvocationMechanism(InvocationMechanism, InvocationMechanism) - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
repositoryUrl - Variable in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
RequireChecker - Class in org.apache.taverna.activities.interaction.velocity
RequireChecker() - Constructor for class org.apache.taverna.activities.interaction.velocity.RequireChecker
RequireDirective - Class in org.apache.taverna.activities.interaction.velocity
RequireDirective() - Constructor for class org.apache.taverna.activities.interaction.velocity.RequireDirective
resolveEntity(String, String) - Method in class org.apache.taverna.wsdl.parser.SchemaResolver
resolveEntity(String, String, String) - Method in class org.apache.taverna.wsdl.parser.SchemaResolver
resolveResource(String, String, String, String, String) - Method in class org.apache.taverna.wsdl.parser.SchemaResolver
ResponseFeedListener - Class in org.apache.taverna.activities.interaction
RESTActivity - Class in org.apache.taverna.activities.rest: Generic REST activity that is capable to perform all four HTTP methods.
RESTActivity(CredentialsProvider) - Constructor for class org.apache.taverna.activities.rest.RESTActivity
RESTActivity.DATA_FORMAT - Enum in org.apache.taverna.activities.rest
RESTActivity.HTTP_METHOD - Enum in org.apache.taverna.activities.rest
RESTActivityConfigurationBean - Class in org.apache.taverna.activities.rest: Beans of this class store configuration information for REST activities.
RESTActivityConfigurationBean() - Constructor for class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
RESTActivityConfigurationBean(JsonNode) - Constructor for class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
RESTActivityCredentials(String, String) - Constructor for class org.apache.taverna.activities.rest.RESTActivityCredentialsProvider.RESTActivityCredentials
RESTActivityCredentialsProvider - Class in org.apache.taverna.activities.rest: This CredentialsProvider acts as a mediator between the Apache HttpClient and Taverna's CredentialManager that stores all user's credentials.
RESTActivityCredentialsProvider(CredentialManager) - Constructor for class org.apache.taverna.activities.rest.RESTActivityCredentialsProvider
RESTActivityCredentialsProvider.RESTActivityCredentials - Class in org.apache.taverna.activities.rest: This class encapsulates user's credentials that this CredentialsProvider can pass to Apache HttpClient.
RESTActivityFactory - Class in org.apache.taverna.activities.rest: An ActivityFactory for creating RESTActivity.
RESTActivityFactory() - Constructor for class org.apache.taverna.activities.rest.RESTActivityFactory
RESTActivityHealthCheck - Class in org.apache.taverna.activities.rest: A RESTActivityHealthCheck is a kind of visit that determines if the corresponding REST activity in a workflow will work during a workflow run.
RESTActivityHealthCheck() - Constructor for class org.apache.taverna.activities.rest.RESTActivityHealthCheck
RESTActivityHealthChecker - Class in org.apache.taverna.activities.rest: A HealthChecker for a RESTActivity.
RESTActivityHealthChecker() - Constructor for class org.apache.taverna.activities.rest.RESTActivityHealthChecker
RetrieveLoginFromTaverna - Class in org.apache.taverna.activities.externaltool
RetrieveLoginFromTaverna(String, CredentialManager) - Constructor for class org.apache.taverna.activities.externaltool.RetrieveLoginFromTaverna
retrieveSignature(List<TypeDescriptor>, String[], Class<?>[]) - Static method in class org.apache.taverna.wsdl.parser.TypeDescriptor
run() - Method in class org.apache.taverna.activities.interaction.FeedReader
run() - Method in class org.apache.taverna.activities.interaction.InteractionActivityRunnable
RuntimeEnvironment - Class in org.apache.taverna.activities.externaltool.desc: Representation of information about a single runtime environment.
RuntimeEnvironment(String) - Constructor for class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: Parses a string as commonly presented by the infosystem
RuntimeEnvironmentConstraint - Class in org.apache.taverna.activities.externaltool.desc: When use cases present a runtime environment, then they don't want to express that these would provide such, but that these request such, i.e.
RuntimeEnvironmentConstraint(String, String) - Constructor for class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironmentConstraint: Constructor

S

saveConfiguration() - Method in class org.apache.taverna.activities.externaltool.manager.impl.InvocationGroupManagerImpl
saveConfiguration() - Method in interface org.apache.taverna.activities.externaltool.manager.InvocationGroupManager
SchemaResolver - Class in org.apache.taverna.wsdl.parser: Schema Resolver that resolves schemas for various APIs at a time (SAX, DOM and Apache XML Schema 2.0) It also used for keeping a List of DOM Elements defined in WSDL Types.
SchemaResolver(String) - Constructor for class org.apache.taverna.wsdl.parser.SchemaResolver
ScriptInput - Class in org.apache.taverna.activities.externaltool.desc: Integrates inputs to the grid that come from the use case descriptions with those that are fed through the workflow.
ScriptInput() - Constructor for class org.apache.taverna.activities.externaltool.desc.ScriptInput
ScriptInputStatic - Class in org.apache.taverna.activities.externaltool.desc: This subclass of script input is used to manage static content which is embedded into the use case description.
ScriptInputStatic() - Constructor for class org.apache.taverna.activities.externaltool.desc.ScriptInputStatic
ScriptInputUser - Class in org.apache.taverna.activities.externaltool.desc: Internal description of output
ScriptInputUser() - Constructor for class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
ScriptOutput - Class in org.apache.taverna.activities.externaltool.desc: Internal description of input
ScriptOutput() - Constructor for class org.apache.taverna.activities.externaltool.desc.ScriptOutput
SECURITY - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles
SecurityProfiles - Class in org.apache.taverna.activities.wsdl.security: Various security profiles for Web services.
SecurityProfiles() - Constructor for class org.apache.taverna.activities.wsdl.security.SecurityProfiles
setAbsoluteURITemplate(String) - Method in class org.apache.taverna.activities.rest.HTTPRequest
setAcceptsHeaderValue(String) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setActivityInputs(Map<String, Class<?>>) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setAllRows(boolean) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the allRows property.
setAppConfig(ApplicationConfiguration) - Method in class org.apache.taverna.activities.interaction.InteractionUtils
setAppConfig(ApplicationConfiguration) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setApplicationConfiguration(ApplicationConfiguration) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityFactory
setAttributes(List<TypeDescriptor>) - Method in class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
setBaseURI(String) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setBinary(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
setBinary(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
setByteStream(InputStream) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setCertifiedText(boolean) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setCharacterStream(Reader) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setCharset(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setCharset(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setCharsetName(String) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
setClassLoader(ClassLoader) - Method in class org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity
setColumn(String) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration.Mapping
setColumnNames(Map<String, String>) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the columnNames.
setColumnNames(Set<SpreadsheetImportConfiguration.Mapping>) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the columnNames.
setColumnRange(Range) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the columnRange.
setCommand(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setConcatenate(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
setContent(String) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputStatic
setContentTypeForUpdates(String) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setContext(InvocationContext) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
setCopyCommand(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationCreator
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.externaltool.ssh.SshInvocationPersister
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrlToSshReference
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
setCredentialManager(CredentialManager) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
setCredentials(String, String) - Method in class org.apache.taverna.wsdl.soap.JaxWSInvoker: Sets user credentials.
setCredentials(String, String) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
setCsvDelimiter(String) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the delimiter for CSV formatted output.
setDataNature(ReferencedDataNature) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setDataNature(ReferencedDataNature) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setDataNatureInteger(int) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setDescription(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setDirectory(String) - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
setDirectory(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
setDirectory(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setDirectory(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setDocumentation(String) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setEdited(boolean) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setEdits(Edits) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
setEdits(Edits) - Method in class org.apache.taverna.activities.rest.RESTActivityFactory
setEdits(Edits) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
setEdits(Edits) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityFactory
setEdits(Edits) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
setEdits(Edits) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
setEdits(Edits) - Method in class org.apache.taverna.activities.xpath.XPathActivityFactory
setElements(List<TypeDescriptor>) - Method in class org.apache.taverna.wsdl.parser.ComplexTypeDescriptor
setElementType(TypeDescriptor) - Method in class org.apache.taverna.wsdl.parser.ArrayTypeDescriptor
setEmptyCellPolicy(SpreadsheetEmptyCellPolicy) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the emptyCellPolicy.
setEmptyCellValue(String) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the emptyCellValue.
setEncoding(String) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setEnd(int) - Method in class org.apache.taverna.activities.spreadsheet.Range: Sets the end of the range.
setEscapeParameters(boolean) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setExcludeFirstRow(boolean) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the excludeFirstRow property.
setExcludes(List<Range>) - Method in class org.apache.taverna.activities.spreadsheet.Range: Sets the exclusions for this range.
setExecutionTimeoutInSeconds(int) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setExternaltoolid(String) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setFeedPath(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setFieldName(String) - Method in class org.apache.taverna.activities.rest.HTTPRequestHeader
setFieldValue(String) - Method in class org.apache.taverna.activities.rest.HTTPRequestHeader
setFile(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
setFileName(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setFileName(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setForceCopy(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
setGroup(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setHeader(String, String) - Method in class org.apache.taverna.activities.rest.HTTPRequest
setHeader(String, boolean) - Method in class org.apache.taverna.activities.rest.HTTPRequest
setHeaders(List<HTTPRequestHeader>) - Method in class org.apache.taverna.activities.rest.HTTPRequest
setHeaders(Header[]) - Method in class org.apache.taverna.activities.rest.HTTPRequestHandler.HTTPRequestResponse
setHost(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
setHost(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setHost(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setHost(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setHttpMethod(RESTActivity.HTTP_METHOD) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setIgnoreBlankRows(boolean) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the ignoreBlankRows property.
setIncludeStdErr(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setIncludeStdIn(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setIncludeStdOut(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setInput(ScriptInputUser) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.InputMap
setInput(String, ReferenceService, T2Reference) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
setInputs(Map<String, ScriptInput>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setInputs(Set<ToolDescription.InputMap>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setInteractionJetty(InteractionJetty) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setInteractionJetty(InteractionJetty) - Method in class org.apache.taverna.activities.interaction.jetty.HackedFilesystemAdapter
setInteractionPreference(InteractionPreference) - Method in class org.apache.taverna.activities.interaction.feed.ShowRequestFeedListener
setInteractionPreference(InteractionPreference) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setInteractionPreference(InteractionPreference) - Method in class org.apache.taverna.activities.interaction.InteractionUtils
setInteractionPreference(InteractionPreference) - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
setInteractionPreference(InteractionPreference) - Method in class org.apache.taverna.activities.interaction.ResponseFeedListener
setInteractionRecorder(InteractionRecorder) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setInteractionRecorder(InteractionRecorder) - Method in class org.apache.taverna.activities.interaction.InteractionRunDeletionListener
setInteractionRecorder(InteractionRecorder) - Method in class org.apache.taverna.activities.interaction.InteractionUtils
setInteractionRecorder(InteractionRecorder) - Method in class org.apache.taverna.activities.interaction.ResponseFeedListener
setInteractionUtils(InteractionUtils) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setInteractionUtils(InteractionUtils) - Method in class org.apache.taverna.activities.interaction.InteractionRecorder
setInteractionUtils(InteractionUtils) - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
setInteractionVelocity(InteractionVelocity) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setInvocationCreators(List<InvocationCreator>) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivity
setInvocationCreators(List<InvocationCreator>) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
setInvocationGroup(InvocationGroup) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setInvocationGroupManager(InvocationGroupManager) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityHealthChecker: Sets the invocationGroupManager.
setInvocationGroupManager(InvocationGroupManager) - Method in class org.apache.taverna.activities.externaltool.ExternalToolRunDeletionListener: Sets the invocationGroupManager.
setLinkCommand(String) - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
setLinkCommand(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
setList(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
setMechanism(InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean: Note this also sets the details
setMechanism(InvocationMechanism) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup: Note this also sets the corresponding details
setMechanismCreators(List<MechanismCreator>) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setMechanismCreators(List<MechanismCreator>) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityFactory
setMechanismCreators(List<MechanismCreator>) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
setMechanismName(String) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setMechanismName(String) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
setMechanismType(String) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setMechanismType(String) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
setMechanismXML(String) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setMechanismXML(String) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
setMethod(URI) - Method in class org.apache.taverna.activities.rest.HTTPRequest
setMethod(RESTActivity.HTTP_METHOD) - Method in class org.apache.taverna.activities.rest.HTTPRequest
setMime(ArrayList<String>) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
setMime(ArrayList<String>) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
setName(String) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
setName(String) - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
setName(String) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setNillable(boolean) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setNodes(List<SshNode>) - Method in class org.apache.taverna.activities.externaltool.ssh.ExternalToolSshInvocationMechanism
setOneInput(ReferenceService, T2Reference, ScriptInput) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
setOneInput(ReferenceService, T2Reference, ScriptInput) - Method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
setOneInput(ReferenceService, T2Reference, ScriptInput) - Method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
setOperation(WSDLOperationConfigurationBean) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityConfigurationBean
setOperationName(String) - Method in class org.apache.taverna.activities.wsdl.WSDLOperationConfigurationBean
setOptional(boolean) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setOtherHTTPHeaders(ArrayList<ArrayList<String>>) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setOutgoingDataFormat(RESTActivity.DATA_FORMAT) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setOutput(ScriptOutput) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.OutputMap
setOutputFormat(SpreadsheetOutputFormat) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the outputFormat.
setOutputs(Map<String, ScriptOutput>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setOutputs(Set<ToolDescription.OutputMap>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setPath(String) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
setPort(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.InputMap
setPort(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription.OutputMap
setPort(int) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
setPort(int) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setPort(int) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setPort(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setPort(String) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration.Mapping
setPrefix(String) - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean.NamespaceMapping
setPreparingTimeoutInSeconds(int) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setPublicId(String) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setQname(QName) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setQnameFromString(String) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setQueue_deny(ArrayList<String>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setQueue_preferred(ArrayList<String>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setRepositoryUrl(String) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setRequest(HTTPRequest) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setREs(List<RuntimeEnvironmentConstraint>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setResponseFeedListener(ResponseFeedListener) - Method in class org.apache.taverna.activities.interaction.InteractionActivityFactory
setResponseFeedListener(ResponseFeedListener) - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
setRetrieveData(boolean) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
setRetrieveData(boolean) - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
setRetrieveData(boolean) - Method in class org.apache.taverna.activities.externaltool.ssh.SshNode
setReturnCodesAsText(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setRowRange(Range) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Sets the rowRange.
setRunId(String) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
setSecurityProfile(URI) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityConfigurationBean
setSendHTTPExpectRequestHeader(boolean) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setShellPrefix(String) - Method in class org.apache.taverna.activities.externaltool.local.ExternalToolLocalInvocationMechanism
setShowActualUrlPort(boolean) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setShowRedirectionOutputPort(boolean) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setShowRequestFeedListener(ShowRequestFeedListener) - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
setShowResponseHeadersPort(boolean) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setSshNode(SshNode) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setStart(int) - Method in class org.apache.taverna.activities.spreadsheet.Range: Sets the start of the Range.
setStatic_inputs(List<ScriptInputStatic>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setStdIn(ReferenceService, T2Reference) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
setStdIn(ReferenceService, T2Reference) - Method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
setStdIn(ReferenceService, T2Reference) - Method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
setStringData(String) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setStripAttributes(boolean) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser: determines whether attributes in the resulting XML should be stripped out, including namespace definitions, leading to XML that is much easier to read.
setSubDirectory(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshReference
setSubDirectory(String) - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
setSystemId(String) - Method in class org.apache.taverna.wsdl.parser.LSInputImpl
setTag(String) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
setTags(List<String>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setTempFile(boolean) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInput
setTimeout(int) - Method in class org.apache.taverna.wsdl.soap.JaxWSInvoker: Sets up an http timeout.
setType(String) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setUnbounded(boolean) - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
setUri(URI) - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean.NamespaceMapping
setUrl(String) - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputStatic
setUrlSignature(String) - Method in class org.apache.taverna.activities.rest.RESTActivityConfigurationBean
setUse100Continue(boolean) - Method in class org.apache.taverna.activities.rest.HTTPRequestHeader
setUseCaseDescription(ToolDescription) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean
setUsecaseid(String) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setUseJetty(boolean) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setUseUsername(boolean) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setValidReturnCodes(List<Integer>) - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription
setWebDavPath(String) - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
setWrapped(boolean) - Method in class org.apache.taverna.wsdl.parser.ArrayTypeDescriptor
setWrappedTypeXML(Element) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean
setWsdl(URI) - Method in class org.apache.taverna.activities.wsdl.WSDLOperationConfigurationBean
setWSSSecurity(WSSTokenProfile) - Method in class org.apache.taverna.wsdl.soap.JaxWSInvoker: Specifies a token profile for WSS security
setWSSSecurity(WSSTokenProfile) - Method in class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
setXmlDocument(String) - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
setXpathExpression(String) - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
setXpathNamespaceMap(Map<String, String>) - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
setXpathNamespaceMap(Set<XPathActivityConfigurationBean.NamespaceMapping>) - Method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
ShowRequestFeedListener - Class in org.apache.taverna.activities.interaction.feed
SOAP_ACTION - Variable in enum org.apache.taverna.wsdl.parser.WSRF_RLOperation
SOAP_ACTION - Variable in enum org.apache.taverna.wsdl.parser.WSRF_RPOperation
SOAPResponseEncodedMultiRefParser - Class in org.apache.taverna.wsdl.soap: A SOAPResponseParser responsible for responses that are fragmented into seperate referenced blocks of XML - Multiref format.
SOAPResponseEncodedMultiRefParser(List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.SOAPResponseEncodedMultiRefParser
SOAPResponseEncodedParser - Class in org.apache.taverna.wsdl.soap: SOAPResponseParser responsible for parsing SOAP responses from RPC/encoded based service, but that are not fragmented to multiref documents.
SOAPResponseEncodedParser(List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser
SOAPResponseLiteralParser - Class in org.apache.taverna.wsdl.soap: Responsible for parsing the SOAP response from calling a Literal based service.
SOAPResponseLiteralParser(List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.SOAPResponseLiteralParser
SOAPResponseParser - Interface in org.apache.taverna.wsdl.soap: Inteface that defines all parsers responsible for parsing SOAP responses from calling SOAP based webservices.
SOAPResponseParserFactory - Class in org.apache.taverna.wsdl.soap: A factory class that selects the correct type of SOAPResponseParser according to the service type , the types output of that service, and the response from invoking that service.
SOAPResponseParserFactory() - Constructor for class org.apache.taverna.wsdl.soap.SOAPResponseParserFactory
SOAPResponsePrimitiveLiteralParser - Class in org.apache.taverna.wsdl.soap: A response parser specifically for literal use services that return primative types.
SOAPResponsePrimitiveLiteralParser(List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.SOAPResponsePrimitiveLiteralParser
SOAPResponsePrimitiveParser - Class in org.apache.taverna.wsdl.soap: SOAPResponseParser responsible for parsing soap responses that map to outputs that can be directly represented with Primitive types (i.e.
SOAPResponsePrimitiveParser(List<TypeDescriptor>) - Constructor for class org.apache.taverna.wsdl.soap.SOAPResponsePrimitiveParser
SpreadsheetEmptyCellPolicy - Enum in org.apache.taverna.activities.spreadsheet: Enumeration of the policies for handling empty/missing cells in a spreadsheet.
SpreadsheetImportActivity - Class in org.apache.taverna.activities.spreadsheet: An net.sf.taverna.t2.workflowmodel.processor.activity.Activity that reads spreadsheet files.
SpreadsheetImportActivity() - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity: Constructs a SpreadsheetImport activity.
SpreadsheetImportActivityFactory - Class in org.apache.taverna.activities.spreadsheet: An ActivityFactory for creating SpreadsheetImportActivity.
SpreadsheetImportActivityFactory() - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivityFactory
SpreadsheetImportConfiguration - Class in org.apache.taverna.activities.spreadsheet: Configuration for the SpreadsheetImport activity.
SpreadsheetImportConfiguration() - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Constructs a new SpreadsheetImportConfiguration.
SpreadsheetImportConfiguration(SpreadsheetImportConfiguration) - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetImportConfiguration: Constructs a new SpreadsheetImportConfiguration that copies the values from the given configuration.
SpreadsheetImportConfiguration.Mapping - Class in org.apache.taverna.activities.spreadsheet
SpreadsheetImportHealthChecker - Class in org.apache.taverna.activities.spreadsheet: Health checker for SpreadsheetImport activities.
SpreadsheetImportHealthChecker() - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetImportHealthChecker
SpreadsheetOutputFormat - Enum in org.apache.taverna.activities.spreadsheet: Enumeration of the formats for output of spreadsheet cell values.
SpreadsheetReader - Interface in org.apache.taverna.activities.spreadsheet: Interface for reading a spreadsheet from an input stream.
SpreadsheetReadException - Exception in org.apache.taverna.activities.spreadsheet: Exception thrown when a spreadsheet cannot be read due to an IO error or when the file format is not supported.
SpreadsheetReadException() - Constructor for exception org.apache.taverna.activities.spreadsheet.SpreadsheetReadException: Constructs a new SpreadsheetReadException with null as its detail message.
SpreadsheetReadException(String) - Constructor for exception org.apache.taverna.activities.spreadsheet.SpreadsheetReadException: Constructs a new SpreadsheetReadException with the specified detail message.
SpreadsheetReadException(Throwable) - Constructor for exception org.apache.taverna.activities.spreadsheet.SpreadsheetReadException: Constructs a new SpreadsheetReadException with the specified cause and a detail message of (cause==null ? null : cause.toString()) (which typically contains the class and detail message of cause).
SpreadsheetReadException(String, Throwable) - Constructor for exception org.apache.taverna.activities.spreadsheet.SpreadsheetReadException: Constructs a new SpreadsheetReadException with the specified detail message and cause.
SpreadsheetRowProcessor - Interface in org.apache.taverna.activities.spreadsheet: Interface for processing a row of data from a ExcelSpreadsheetReader.
SpreadsheetUtils - Class in org.apache.taverna.activities.spreadsheet: Utility functions for handling spreadsheet column labels and indexes.
SpreadsheetUtils() - Constructor for class org.apache.taverna.activities.spreadsheet.SpreadsheetUtils
SSH_USE_CASE_INVOCATION_TYPE - Static variable in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
SshInvocationCreator - Class in org.apache.taverna.activities.externaltool.ssh
SshInvocationCreator() - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshInvocationCreator
SshInvocationPersister - Class in org.apache.taverna.activities.externaltool.ssh
SshInvocationPersister() - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshInvocationPersister
SshMechanismCreator - Class in org.apache.taverna.activities.externaltool.ssh
SshMechanismCreator() - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshMechanismCreator
SshNode - Class in org.apache.taverna.activities.externaltool.ssh
SshNodeFactory - Class in org.apache.taverna.activities.externaltool.ssh
SshPool - Class in org.apache.taverna.activities.externaltool.ssh
SshPool() - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshPool
SshReference - Class in org.apache.taverna.activities.externaltool.ssh
SshReference() - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshReference
SshReference(SshUrl) - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshReference
SshToolInvocation - Class in org.apache.taverna.activities.externaltool.ssh: The job is executed by connecting to a worker pc using ssh, i.e.
SshToolInvocation(ToolDescription, SshNode, AskUserForPw, CredentialManager) - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
SshUrl - Class in org.apache.taverna.activities.externaltool.ssh
SshUrl(SshNode) - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshUrl
SshUrlToSshReference - Class in org.apache.taverna.activities.externaltool.ssh
SshUrlToSshReference() - Constructor for class org.apache.taverna.activities.externaltool.ssh.SshUrlToSshReference
SSLUtilities - Class in org.apache.taverna.activities.wsdl.security: This class provide various static methods that relax X509 certificate and hostname verification while using the SSL over the HTTP protocol.
SSLUtilities() - Constructor for class org.apache.taverna.activities.wsdl.security.SSLUtilities
SSLUtilities.FakeHostnameVerifier - Class in org.apache.taverna.activities.wsdl.security: This class implements a fake hostname verificator, trusting any host name.
SSLUtilities.FakeX509TrustManager - Class in org.apache.taverna.activities.wsdl.security: This class allow any X509 certificates to be used to authenticate the remote side of a secure socket, including self-signed certificates.
startJettyIfNecessary(CredentialManager) - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
startListenersIfNecessary() - Method in class org.apache.taverna.activities.interaction.jetty.InteractionJetty
startTrustingEverything() - Static method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory: Calls to open HTTPS connections will trust unsigned certificates afer this call is made, this is scoped to the current thread only.
stopTrustingAllHttpsCertificates() - Static method in class org.apache.taverna.activities.wsdl.security.SSLUtilities: Stop trusting all certificates and go back to the default settings.
stopTrustingEverything() - Static method in class org.apache.taverna.activities.wsdl.security.ThreadLocalSSLSocketFactory: Stop trusting unsigned certificates, reverting to the default behaviour for the current thread.
store() - Method in class org.apache.taverna.activities.interaction.preference.InteractionPreference
stripAttributes(Node) - Method in class org.apache.taverna.wsdl.soap.SOAPResponseEncodedParser
Submit(ReferenceService) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
submit_generate_job(ReferenceService) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
submit_generate_job_inner() - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
submit_generate_job_inner() - Method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
submit_generate_job_inner() - Method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
submit_wait_fetch_results(ReferenceService) - Method in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
submit_wait_fetch_results(ReferenceService) - Method in class org.apache.taverna.activities.externaltool.local.LocalToolInvocation
submit_wait_fetch_results(ReferenceService) - Method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation

T

T2WSDLSOAPInvoker - Class in org.apache.taverna.activities.wsdl: Invokes SOAP based Web Services from T2.
T2WSDLSOAPInvoker(WSDLParser, String, List<String>, CredentialManager) - Constructor for class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker
T2WSDLSOAPInvoker(WSDLParser, String, List<String>, String, CredentialManager) - Constructor for class org.apache.taverna.activities.wsdl.T2WSDLSOAPInvoker
T2WSDoAllSender - Class in org.apache.taverna.activities.wsdl.wss4j
T2WSDoAllSender() - Constructor for class org.apache.taverna.activities.wsdl.wss4j.T2WSDoAllSender
tags - Variable in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
TavernaAxisCustomSSLSocketFactory - Class in org.apache.taverna.activities.wsdl.security
TavernaAxisCustomSSLSocketFactory() - Constructor for class org.apache.taverna.activities.wsdl.security.TavernaAxisCustomSSLSocketFactory
test(SshNode, AskUserForPw) - Static method in class org.apache.taverna.activities.externaltool.ssh.SshToolInvocation
ThreadLocalSSLSocketFactory - Class in org.apache.taverna.activities.wsdl.security: An implementation of SSLSocketFactory which delegates to one of two internal SSLSocketFactory implementations.
TOKEN - Variable in enum org.apache.taverna.wsdl.soap.WSSTokenProfile
ToolDescription - Class in org.apache.taverna.activities.externaltool.desc: Class representation of XML-description of UseCases
ToolDescription() - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescription: Default constructor to make xstream happy
ToolDescription(String) - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescription: Constructor, for special purpose usecases.
ToolDescription(InputStream) - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescription: Constructor, expects an input stream containing the xml.
ToolDescription(Element) - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescription: Constructor, expects an XML-root to dissect.
ToolDescription.InputMap - Class in org.apache.taverna.activities.externaltool.desc
ToolDescription.OutputMap - Class in org.apache.taverna.activities.externaltool.desc
ToolDescriptionParser - Class in org.apache.taverna.activities.externaltool.desc
ToolDescriptionParser() - Constructor for class org.apache.taverna.activities.externaltool.desc.ToolDescriptionParser
ToolInvocation - Class in org.apache.taverna.activities.externaltool.invocation: An abstraction of various forms to bring job using the software that is referenced as a use case towards their execution.
ToolInvocation() - Constructor for class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
toString() - Method in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment: to make it behave like a string at time, as it was originally implemented
toString() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputStatic
toString() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptInputUser
toString() - Method in class org.apache.taverna.activities.externaltool.desc.ScriptOutput
toString() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription: String representation of the use case.
toString() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationGroup
toString() - Method in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
toString() - Method in class org.apache.taverna.activities.externaltool.ssh.SshUrl
toString() - Method in class org.apache.taverna.activities.spreadsheet.Range
toString() - Method in class org.apache.taverna.wsdl.parser.TypeDescriptor
toString(Node) - Method in class org.apache.taverna.wsdl.soap.AbstractSOAPResponseParser
translateJavaType(Class<?>) - Static method in class org.apache.taverna.wsdl.parser.TypeDescriptor: Translate a java type into a taverna type string
trustAllHostnames() - Static method in class org.apache.taverna.activities.wsdl.security.SSLUtilities: Set the default Hostname Verifier to an instance of a fake class that trust all hostnames.
trustAllHttpsCertificates() - Static method in class org.apache.taverna.activities.wsdl.security.SSLUtilities: Set the default X509 Trust Manager to an instance of a fake class that trust all certificates, even the self-signed ones.
TypeDescriptor - Class in org.apache.taverna.wsdl.parser: Base class for all descriptors for type
TypeDescriptor() - Constructor for class org.apache.taverna.wsdl.parser.TypeDescriptor
TypeDescriptors - Class in org.apache.taverna.wsdl.parser: An utility class to construct WSDL type descriptors based on XML Schema.
TypeDescriptors(XmlSchemaCollection) - Constructor for class org.apache.taverna.wsdl.parser.TypeDescriptors: Constructor that takes a collection of XML Schemas.
typeDescriptorToExtensionXML(TypeDescriptor) - Static method in class org.apache.taverna.wsdl.xmlsplitter.XMLSplitterSerialisationHelper: Generates the extensions XML that describes the TypeDescriptor to allow an XMLInputSplitter or XMLOutputSplitter to be reconstructed using consumeXML.

U

undo() - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.AddXMLSplitterEdit
UNIX_COPY - Static variable in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
UNIX_LINK - Static variable in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
UNIX_SHELL - Static variable in class org.apache.taverna.activities.externaltool.manager.InvocationMechanism
UnknownOperationException - Exception in org.apache.taverna.wsdl.parser: Exception thrown when a given service operation name cannot be found for that WSDL
updateLocation(ExternalToolActivityConfigurationBean) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityHealthChecker
URI - Static variable in class org.apache.taverna.activities.beanshell.BeanshellActivity
URI - Static variable in class org.apache.taverna.activities.externaltool.ExternalToolActivity
URI - Static variable in class org.apache.taverna.activities.interaction.InteractionActivity
URI - Static variable in class org.apache.taverna.activities.rest.RESTActivity
URI - Static variable in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportActivity
URI - Static variable in class org.apache.taverna.activities.wsdl.WSDLActivity
URI - Static variable in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
URI - Static variable in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
URI - Static variable in class org.apache.taverna.activities.xpath.XPathActivity
URIGenerationFromSignatureException() - Constructor for exception org.apache.taverna.activities.rest.URISignatureHandler.URIGenerationFromSignatureException
URIGenerationFromSignatureException(String) - Constructor for exception org.apache.taverna.activities.rest.URISignatureHandler.URIGenerationFromSignatureException
URISignatureHandler - Class in org.apache.taverna.activities.rest: This class deals with URI signatures - essentially, strings that represent some resource's URI with zero or more placeholders.
URISignatureHandler() - Constructor for class org.apache.taverna.activities.rest.URISignatureHandler
URISignatureHandler.URIGenerationFromSignatureException - Exception in org.apache.taverna.activities.rest: Exceptions of this type may be thrown during generation of a complete URI from the provided signature and parameter hash.
URISignatureHandler.URISignatureParsingException - Exception in org.apache.taverna.activities.rest: Exceptions of this type may be thrown when errors occur during URI signature parsing - these will often indicate the reason for failure (e.g.
URISignatureParsingException() - Constructor for exception org.apache.taverna.activities.rest.URISignatureHandler.URISignatureParsingException
URISignatureParsingException(String) - Constructor for exception org.apache.taverna.activities.rest.URISignatureHandler.URISignatureParsingException
urlEncodeQuery(String) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: Prepares the string to serve as a part of url query to the server.
usecase - Variable in class org.apache.taverna.activities.externaltool.invocation.ToolInvocation
useCaseDescription - Variable in class org.apache.taverna.activities.externaltool.ExternalToolActivityConfigurationBean

V

validate(String) - Static method in class org.apache.taverna.activities.rest.URISignatureHandler: This method performs explicit validation of the URI signature.
validateXPath(String) - Static method in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean: Validates an XPath expression.
validateXPath(String) - Static method in class org.apache.taverna.activities.xpath.XPathUtils: Validates an XPath expression.
valueOf(String) - Static method in enum org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity.ClassLoaderSharing: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.activities.interaction.InteractionActivityType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.activities.interaction.InteractionType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.activities.rest.RESTActivity.DATA_FORMAT: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.activities.rest.RESTActivity.HTTP_METHOD: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.activities.spreadsheet.SpreadsheetEmptyCellPolicy: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.activities.spreadsheet.SpreadsheetOutputFormat: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.wsdl.parser.WSRF_RLOperation: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.wsdl.parser.WSRF_RPOperation: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.wsdl.parser.WSRF_Version: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.wsdl.soap.AbstractBodyBuilder.Style: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.wsdl.soap.AbstractBodyBuilder.Use: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.apache.taverna.wsdl.soap.WSSTokenProfile: Returns the enum constant of this type with the specified name.
values() - Static method in enum org.apache.taverna.activities.dependencyactivity.AbstractAsynchronousDependencyActivity.ClassLoaderSharing: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.activities.interaction.InteractionActivityType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.activities.interaction.InteractionType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.activities.rest.RESTActivity.DATA_FORMAT: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.activities.rest.RESTActivity.HTTP_METHOD: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.activities.spreadsheet.SpreadsheetEmptyCellPolicy: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.activities.spreadsheet.SpreadsheetOutputFormat: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.wsdl.parser.WSRF_RLOperation: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.wsdl.parser.WSRF_RPOperation: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.wsdl.parser.WSRF_Version: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.wsdl.soap.AbstractBodyBuilder.Style: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.wsdl.soap.AbstractBodyBuilder.Use: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.apache.taverna.wsdl.soap.WSSTokenProfile: Returns an array containing the constants of this enum type, in the order they are declared.
verify(String, SSLSession) - Method in class org.apache.taverna.activities.wsdl.security.SSLUtilities.FakeHostnameVerifier: Always return true, indicating that the host name is an acceptable match with the server's authentication scheme.
version - Variable in class org.apache.taverna.activities.externaltool.desc.RuntimeEnvironment
visit(BeanshellActivity, List<Object>) - Method in class org.apache.taverna.activities.beanshell.BeanshellActivityHealthChecker
visit(ExternalToolActivity, List<Object>) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityHealthChecker
visit(ExternalToolActivity, List<Object>) - Method in class org.apache.taverna.activities.externaltool.ExternalToolActivityMimeTypeChecker
visit(InteractionActivity, List<Object>) - Method in class org.apache.taverna.activities.interaction.InteractionActivityHealthChecker
visit(ASTDirective, Object) - Method in class org.apache.taverna.activities.interaction.velocity.NotifyChecker
visit(ASTDirective, Object) - Method in class org.apache.taverna.activities.interaction.velocity.ProduceChecker
visit(ASTDirective, Object) - Method in class org.apache.taverna.activities.interaction.velocity.RequireChecker
visit(RESTActivity, List<Object>) - Method in class org.apache.taverna.activities.rest.RESTActivityHealthChecker
visit(SpreadsheetImportActivity, List<Object>) - Method in class org.apache.taverna.activities.spreadsheet.SpreadsheetImportHealthChecker
visit(InputPortTypeDescriptorActivity, List<Object>) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityDescriptorChecker
visit(Object, List<Object>) - Method in class org.apache.taverna.activities.wsdl.WSDLActivityHealthChecker
visit(XMLInputSplitterActivity, List<Object>) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterHealthChecker
visit(XMLOutputSplitterActivity, List<Object>) - Method in class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterHealthChecker
visit(XPathActivity, List<Object>) - Method in class org.apache.taverna.activities.xpath.XPathActivityHealthChecker

W

writeToXMLElement() - Method in class org.apache.taverna.activities.externaltool.desc.ToolDescription: Produce an XML description of the ToolDescription
WSA - Variable in enum org.apache.taverna.wsdl.parser.WSRF_Version
WSDL11Parser - Class in org.apache.taverna.wsdl.parser: This is an WSDL 1.1 / Xml Schema 1.0 parser based on WSDL4j and Apache XML Schema 2.0 libraries
WSDL20Parser - Class in org.apache.taverna.wsdl.parser
WSDLActivity - Class in org.apache.taverna.activities.wsdl: An asynchronous Activity that is concerned with WSDL based web-services.
WSDLActivity(CredentialManager) - Constructor for class org.apache.taverna.activities.wsdl.WSDLActivity
WSDLActivityConfigurationBean - Class in org.apache.taverna.activities.wsdl: A standard Java Bean that provides the details required to configure a WSDLActivity.
WSDLActivityConfigurationBean() - Constructor for class org.apache.taverna.activities.wsdl.WSDLActivityConfigurationBean: Creates a new instance of WSDLActivityConfigurationBean
WSDLActivityDescriptorChecker - Class in org.apache.taverna.activities.wsdl
WSDLActivityDescriptorChecker() - Constructor for class org.apache.taverna.activities.wsdl.WSDLActivityDescriptorChecker
WSDLActivityFactory - Class in org.apache.taverna.activities.wsdl: An ActivityFactory for creating WSDLActivity.
WSDLActivityFactory() - Constructor for class org.apache.taverna.activities.wsdl.WSDLActivityFactory
WSDLActivityHealthChecker - Class in org.apache.taverna.activities.wsdl
WSDLActivityHealthChecker() - Constructor for class org.apache.taverna.activities.wsdl.WSDLActivityHealthChecker
WSDLOperationConfigurationBean - Class in org.apache.taverna.activities.wsdl: Configuration for a WSDL operation.
WSDLOperationConfigurationBean() - Constructor for class org.apache.taverna.activities.wsdl.WSDLOperationConfigurationBean
WSDLParser - Class in org.apache.taverna.wsdl.parser: A Parser for processing WSDL files to determine information about available services and the required types needed to invoke that particular service.
WSDLParser(String) - Constructor for class org.apache.taverna.wsdl.parser.WSDLParser: Constructor which takes the location of the base wsdl file, and begins to process it
WSDLSOAPInvoker - Class in org.apache.taverna.wsdl.soap: Invoke SOAP based webservices
WSDLSOAPInvoker(WSDLParser, String, List<String>) - Constructor for class org.apache.taverna.wsdl.soap.WSDLSOAPInvoker
WSRF_RL - Variable in enum org.apache.taverna.wsdl.parser.WSRF_Version
WSRF_RLOperation - Enum in org.apache.taverna.wsdl.parser
WSRF_RP - Variable in enum org.apache.taverna.wsdl.parser.WSRF_Version
WSRF_RPOperation - Enum in org.apache.taverna.wsdl.parser
WSRF_Version - Enum in org.apache.taverna.wsdl.parser
WSSECURITY_TIMESTAMP_USERNAMETOKEN_DIGESTPASSWORD - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: Security profile for Web services that require a timestamp SOAP header to be sent in addition to UsernameToken authentication with digest password.
WSSECURITY_TIMESTAMP_USERNAMETOKEN_DIGESTPASSWORD_CONFIG - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: XML string for configuring Axis engine with wss4j handlers to handle setting security headers on the SOAP message for profile WSSECURITY_TIMESTAMP_USERNAMETOKEN_DIGESTPASSWORD.
WSSECURITY_TIMESTAMP_USERNAMETOKEN_PLAINTETPASSWORD_CONFIG - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: XML string for configuring Axis engine with wss4j handlers to handle setting security headers on the SOAP message for profile WSSECURITY_TIMESTAMP_USERNAMETOKEN_DIGESTPASSWORD.
WSSECURITY_TIMESTAMP_USERNAMETOKEN_PLAINTEXTPASSWORD - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: Security profile for Web services that require a timestamp SOAP header to be sent in addition to UsernameToken authentication with plaintext password.
WSSECURITY_USERNAMETOKEN_DIGESTPASSWORD - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: Security profile for Web services that require UsernameToken authentication with digest password.
WSSECURITY_USERNAMETOKEN_DIGESTPASSWORD_CONFIG - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: XML string for configuring Axis engine with wss4j handlers to handle setting security headers on the SOAP message for profile WSSECURITY_USERNAMETOKEN_DIGESTPASSWORD.
WSSECURITY_USERNAMETOKEN_PLAINTEXTPASSWORD - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: Security profile for Web services that require UsernameToken authentication with plaintext password.
WSSECURITY_USERNAMETOKEN_PLAINTEXTPASSWORD_CONFIG - Static variable in class org.apache.taverna.activities.wsdl.security.SecurityProfiles: XML string for configuring Axis engine with wss4j handlers to handle setting security headers on the SOAP message for profile WSSECURITY_USERNAMETOKEN_PLAINTEXTPASSWORD.
WSSTokenProfile - Enum in org.apache.taverna.wsdl.soap

X

XMLInputSplitter - Class in org.apache.taverna.wsdl.xmlsplitter
XMLInputSplitter(TypeDescriptor, String[], String[], String[]) - Constructor for class org.apache.taverna.wsdl.xmlsplitter.XMLInputSplitter
XMLInputSplitterActivity - Class in org.apache.taverna.activities.wsdl.xmlsplitter: An activity that replicates the behaviour of the Taverna 1 XMLInputSplitters.
XMLInputSplitterActivity() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
XMLInputSplitterActivityFactory - Class in org.apache.taverna.activities.wsdl.xmlsplitter: An ActivityFactory for creating XMLInputSplitterActivity.
XMLInputSplitterActivityFactory() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterActivityFactory
XMLInputSplitterHealthChecker - Class in org.apache.taverna.activities.wsdl.xmlsplitter
XMLInputSplitterHealthChecker() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLInputSplitterHealthChecker
XMLOutputSplitter - Class in org.apache.taverna.wsdl.xmlsplitter
XMLOutputSplitter(TypeDescriptor, String[], String[], String[]) - Constructor for class org.apache.taverna.wsdl.xmlsplitter.XMLOutputSplitter
XMLOutputSplitterActivity - Class in org.apache.taverna.activities.wsdl.xmlsplitter: An activity that replicates the behaviour of the Taverna 1 XMLOutputSplitter.
XMLOutputSplitterActivity() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
XMLOutputSplitterActivityFactory - Class in org.apache.taverna.activities.wsdl.xmlsplitter: An ActivityFactory for creating XMLOutputSplitterActivity.
XMLOutputSplitterActivityFactory() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterActivityFactory
XMLOutputSplitterHealthChecker - Class in org.apache.taverna.activities.wsdl.xmlsplitter
XMLOutputSplitterHealthChecker() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLOutputSplitterHealthChecker
XMLSplitterConfigurationBean - Class in org.apache.taverna.activities.wsdl.xmlsplitter
XMLSplitterConfigurationBean() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBean
XMLSplitterConfigurationBeanBuilder - Class in org.apache.taverna.activities.wsdl.xmlsplitter: A helper class to facilitate in building an XMLSplitter configuration bean from the type descriptor XML, including setting up the ports.
XMLSplitterConfigurationBeanBuilder() - Constructor for class org.apache.taverna.activities.wsdl.xmlsplitter.XMLSplitterConfigurationBeanBuilder
XMLSplitterExecutionException - Exception in org.apache.taverna.wsdl.xmlsplitter
XMLSplitterExecutionException(String, Throwable) - Constructor for exception org.apache.taverna.wsdl.xmlsplitter.XMLSplitterExecutionException
XMLSplitterExecutionException(String) - Constructor for exception org.apache.taverna.wsdl.xmlsplitter.XMLSplitterExecutionException
XMLSplitterSerialisationHelper - Class in org.apache.taverna.wsdl.xmlsplitter: A helper class that supports the XMLOutputSplitter and XMLInputSplitter, providing the ability for each to be serialised/deserialised to and from the extensions XML for the ScuflModel XML when storing a workflow.
XMLSplitterSerialisationHelper() - Constructor for class org.apache.taverna.wsdl.xmlsplitter.XMLSplitterSerialisationHelper
XPATH_EMPTY - Static variable in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
XPATH_EMPTY - Static variable in class org.apache.taverna.activities.xpath.XPathUtils
XPATH_INVALID - Static variable in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
XPATH_INVALID - Static variable in class org.apache.taverna.activities.xpath.XPathUtils
XPATH_VALID - Static variable in class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
XPATH_VALID - Static variable in class org.apache.taverna.activities.xpath.XPathUtils
XPathActivity - Class in org.apache.taverna.activities.xpath: Enhanced XPath activity.
XPathActivity() - Constructor for class org.apache.taverna.activities.xpath.XPathActivity
XPathActivityConfigurationBean - Class in org.apache.taverna.activities.xpath
XPathActivityConfigurationBean() - Constructor for class org.apache.taverna.activities.xpath.XPathActivityConfigurationBean
XPathActivityConfigurationBean.NamespaceMapping - Class in org.apache.taverna.activities.xpath
XPathActivityFactory - Class in org.apache.taverna.activities.xpath: An ActivityFactory for creating XPathActivity.
XPathActivityFactory() - Constructor for class org.apache.taverna.activities.xpath.XPathActivityFactory
XPathActivityHealthCheck - Class in org.apache.taverna.activities.xpath: A XPathActivityHealthCheck is a kind of visit that determines if the corresponding XPath activity in a workflow (normally an Activity) will work during a workflow run.
XPathActivityHealthCheck() - Constructor for class org.apache.taverna.activities.xpath.XPathActivityHealthCheck
XPathActivityHealthChecker - Class in org.apache.taverna.activities.xpath: A HealthChecker for a XPathActivity.
XPathActivityHealthChecker() - Constructor for class org.apache.taverna.activities.xpath.XPathActivityHealthChecker
XPathUtils - Class in org.apache.taverna.activities.xpath: Utility methods for validating xpath expressions.
XPathUtils() - Constructor for class org.apache.taverna.activities.xpath.XPathUtils
XScuflNS - Static variable in class org.apache.taverna.wsdl.xmlsplitter.XMLSplitterSerialisationHelper

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