net.sourceforge.taverna.scuflworkers.ncbi
Class ProteinFastaWorker

java.lang.Object
  net.sourceforge.taverna.scuflworkers.ncbi.AbstractEFetchWorker
      net.sourceforge.taverna.scuflworkers.ncbi.ProteinFastaWorker

All Implemented Interfaces:

LocalWorker

public class ProteinFastaWorker
extends AbstractEFetchWorker

This processor fetches a protein sequence in FASTA format.

Version:

$Revision: 1.3 $

Author:

Mark

Field Summary

Fields inherited from class net.sourceforge.taverna.scuflworkers.ncbi.AbstractEFetchWorker

GET_TRANSMITTER, NEWLINE, POST_TRANSMITTER

Fields inherited from interface org.embl.ebi.escience.scuflworkers.java.LocalWorker

BINARY, BINARY_ARRAY, HTML, HTML_ARRAY, PNG_IMAGE, PNG_IMAGE_ARRAY, STRING, STRING_ARRAY, UNTYPED, UNTYPED_ARRAY

Constructor Summary

ProteinFastaWorker()

Method Summary

java.util.Map	execute(java.util.Map inputMap) Given a Map of DataThing objects as input, invoke the underlying logic of the task and return a map of DataThing objects as outputs, with the port names acting as keys in the map in both cases.
java.lang.String[]	inputNames() Get an array of the names of input ports for this processor
java.lang.String[]	inputTypes() Get an array of the string types for the inputs defined by the inputNames() method, these should probably use the constants defined in this interface but may use any valid Baclava data type specifier.

Methods inherited from class net.sourceforge.taverna.scuflworkers.ncbi.AbstractEFetchWorker

outputNames, outputTypes

Methods inherited from class java.lang.Object

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

Constructor Detail

ProteinFastaWorker

public ProteinFastaWorker()

Method Detail

execute

public java.util.Map execute(java.util.Map inputMap)
                      throws TaskExecutionException

Description copied from interface: LocalWorker

Given a Map of DataThing objects as input, invoke the underlying logic of the task and return a map of DataThing objects as outputs, with the port names acting as keys in the map in both cases.

Specified by:

execute in interface LocalWorker

Specified by:

execute in class AbstractEFetchWorker

Throws:

TaskExecutionException - thrown if there is an error during invocation of the task.

See Also:

LocalWorker.execute(java.util.Map)

inputNames

public java.lang.String[] inputNames()

Description copied from interface: LocalWorker

Get an array of the names of input ports for this processor

Specified by:

inputNames in interface LocalWorker

Specified by:

inputNames in class AbstractEFetchWorker

See Also:

AbstractEFetchWorker.inputNames()

inputTypes

public java.lang.String[] inputTypes()

Description copied from interface: LocalWorker

Get an array of the string types for the inputs defined by the inputNames() method, these should probably use the constants defined in this interface but may use any valid Baclava data type specifier.

Specified by:

inputTypes in interface LocalWorker

Specified by:

inputTypes in class AbstractEFetchWorker

See Also:

AbstractEFetchWorker.inputTypes()