net.sourceforge.taverna.scuflworkers.biojava
Class GenBankParserWorker

java.lang.Object
  net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker

All Implemented Interfaces:

LocalWorker

public class GenBankParserWorker
extends java.lang.Object
implements LocalWorker

This class parses genbank files and outputs the results in Agave XML format. Last edited by $Author: alaninmcr $

Version:

$Revision: 1.4 $

Author:

Mark

Field Summary

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

GenBankParserWorker()

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.
java.lang.String[]	outputNames() Names of the output ports
java.lang.String[]	outputTypes() Types of the output ports

Methods inherited from class java.lang.Object

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

Constructor Detail

GenBankParserWorker

public GenBankParserWorker()

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

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

See Also:

LocalWorker.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

See Also:

LocalWorker.inputTypes()

outputNames

public java.lang.String[] outputNames()

Description copied from interface: LocalWorker

Names of the output ports

Specified by:

outputNames in interface LocalWorker

See Also:

LocalWorker.outputNames()

outputTypes

public java.lang.String[] outputTypes()

Description copied from interface: LocalWorker

Types of the output ports

Specified by:

outputTypes in interface LocalWorker

See Also:

LocalWorker.outputTypes()