org.biomoby.client.taverna.plugin
Class BiomobyProcessor

java.lang.Object
  org.embl.ebi.escience.scufl.Processor
      org.biomoby.client.taverna.plugin.BiomobyProcessor

All Implemented Interfaces:

java.io.Serializable, IProcessor, HTMLSummarisableProcessor

public class BiomobyProcessor
extends Processor
implements java.io.Serializable, HTMLSummarisableProcessor

A processor based on the Biomoby compliant web services. This processor implementation will contact Biomoby registry in order to find the list of extant ports at creation time.

Version:

$Id: BiomobyProcessor.java,v 1.5 2008/09/05 14:34:39 edwardkawas Exp $

Author:

Martin Senger

See Also:

Serialized Form

Field Summary

Fields inherited from interface org.embl.ebi.escience.scufl.IProcessor

ENACTOR

Constructor Summary

BiomobyProcessor(ScuflModel model, java.lang.String processorName, org.biomoby.shared.MobyService service, java.lang.String mobyEndpoint)
Construct a new processor with the given model and name, delegates to the superclass.

BiomobyProcessor(ScuflModel model, java.lang.String processorName, java.lang.String authorityName, java.lang.String serviceName, java.lang.String mobyEndpoint)
Construct a new processor with the given model and name, delegates to the superclass.

Method Summary

boolean	containsSecondaries()
void	generatePorts() Use the endpoint data to create new ports and attach them to the processor.
java.lang.String	getAuthorityName() Get the authority of this Moby-compliant service
org.biomoby.shared.Central	getCentralWorker()
void	getDescriptionText() Set the description field
java.net.URL	getEndpoint() Get the URL for this endpoint.
java.lang.String	getHTMLSummary(java.util.List<HTMLSummarisableProcessor> processors, java.util.Map<java.lang.String,Processor> names) Generates the html tables for a list of processors, creating a table grouped by resource host.
int	getMaximumWorkers() Return the maximum number of task implementations that should be launched for this processor.
java.lang.String	getMobyEndpoint() Get the moby central endpoint used to locate this processor
org.biomoby.shared.MobyService	getMobyService()
org.biomoby.service.dashboard.data.ParametersTable	getParameterTable()
java.util.Properties	getProperties() Get the properties for this processor for display purposes
java.lang.String	getResourceHost() Get the host for this service
java.lang.String	getServiceName() Get the name of this Moby-compliant service
int	htmlTablePlacement() int indicating the placement for this type of processor in the order of tables displayed
void	setParameterTable(org.biomoby.service.dashboard.data.ParametersTable table)

Methods inherited from class org.embl.ebi.escience.scufl.Processor

addAlternate, addAnnotationTemplate, addBreakpoint, addPort, defaultAnnotationTemplates, fireModelEvent, getAlternatesArray, getAlternatesList, getAnnotationTemplates, getBackoff, getBoundInputPorts, getBoundOutputPorts, getCritical, getDefaultWorkers, getDescription, getInputPorts, getIterationStrategy, getLogLevel, getModel, getName, getOutputPorts, getPorts, getRealLogLevel, getRetries, getRetryDelay, getTimeout, getWorkers, hasBreakpoint, isBoring, isOffline, locatePort, locatePort, removeAlternate, removeAnnotationTemplate, removePort, rmvBreakpoint, setBackoff, setBoring, setCritical, setDescription, setIterationStrategy, setLogLevel, setName, setOffline, setOnline, setRetries, setRetryDelay, setTimeout, setWorkers, toString

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

BiomobyProcessor

public BiomobyProcessor(ScuflModel model,
                        java.lang.String processorName,
                        java.lang.String authorityName,
                        java.lang.String serviceName,
                        java.lang.String mobyEndpoint)
                 throws ProcessorCreationException,
                        DuplicateProcessorNameException

Construct a new processor with the given model and name, delegates to the superclass.

Throws:

ProcessorCreationException

DuplicateProcessorNameException

BiomobyProcessor

public BiomobyProcessor(ScuflModel model,
                        java.lang.String processorName,
                        org.biomoby.shared.MobyService service,
                        java.lang.String mobyEndpoint)
                 throws ProcessorCreationException,
                        DuplicateProcessorNameException

Construct a new processor with the given model and name, delegates to the superclass.

Throws:

ProcessorCreationException

DuplicateProcessorNameException

Method Detail

getMaximumWorkers

public int getMaximumWorkers()

Description copied from class: Processor

Return the maximum number of task implementations that should be launched for this processor. This is ignored unless the processor is being iterated over in which case a number of threads up to the value specified are created to process the information. You must be particularly careful that the task implementation is thread safe before changing this from the default specified here, at the current time the web service processor is not thread safe!

Specified by:

getMaximumWorkers in interface IProcessor

Overrides:

getMaximumWorkers in class Processor

getResourceHost

public java.lang.String getResourceHost()

Get the host for this service

Specified by:

getResourceHost in interface IProcessor

Overrides:

getResourceHost in class Processor

getProperties

public java.util.Properties getProperties()

Get the properties for this processor for display purposes

Specified by:

getProperties in interface IProcessor

Specified by:

getProperties in class Processor

Returns:

a Properties instance containing all processor-specific properties, or optinally null if there are none

getMobyEndpoint

public java.lang.String getMobyEndpoint()

Get the moby central endpoint used to locate this processor

getDescriptionText

public void getDescriptionText()
                        throws ProcessorCreationException

Set the description field

Throws:

ProcessorCreationException

generatePorts

public void generatePorts()
                   throws ProcessorCreationException,
                          PortCreationException,
                          DuplicatePortNameException

Use the endpoint data to create new ports and attach them to the processor.

Throws:

ProcessorCreationException

PortCreationException

DuplicatePortNameException

getEndpoint

public java.net.URL getEndpoint()

Get the URL for this endpoint. This is the service endpoint NOT the BioMoby registry one!

getServiceName

public java.lang.String getServiceName()

Get the name of this Moby-compliant service

getMobyService

public org.biomoby.shared.MobyService getMobyService()

getAuthorityName

public java.lang.String getAuthorityName()

Get the authority of this Moby-compliant service

getCentralWorker

public org.biomoby.shared.Central getCentralWorker()

Returns:

the instance of org.biomoby.shared.Central

containsSecondaries

public boolean containsSecondaries()

getParameterTable

public org.biomoby.service.dashboard.data.ParametersTable getParameterTable()

setParameterTable

public void setParameterTable(org.biomoby.service.dashboard.data.ParametersTable table)

getHTMLSummary

public java.lang.String getHTMLSummary(java.util.List<HTMLSummarisableProcessor> processors,
                                       java.util.Map<java.lang.String,Processor> names)

Description copied from interface: HTMLSummarisableProcessor

Generates the html tables for a list of processors, creating a table grouped by resource host.

Specified by:

getHTMLSummary in interface HTMLSummarisableProcessor

Returns:

htmlTablePlacement

public int htmlTablePlacement()

Description copied from interface: HTMLSummarisableProcessor

int indicating the placement for this type of processor in the order of tables displayed

Specified by:

htmlTablePlacement in interface HTMLSummarisableProcessor

Returns: