org.intermine.bio.task
Class OboConverterTask

java.lang.Object
  org.apache.tools.ant.ProjectComponent
      org.apache.tools.ant.Task
          org.intermine.task.DynamicAttributeTask
              org.intermine.task.ConverterTask
                  org.intermine.bio.task.OboConverterTask

public class OboConverterTask
extends ConverterTask

Initiates retrieval and conversion of data from a source database

Field Summary

protected static org.apache.log4j.Logger

LOG

Fields inherited from class org.apache.tools.ant.Task

description, location, target, taskName, taskType, wrapper

Fields inherited from class org.apache.tools.ant.ProjectComponent

project

Constructor Summary

OboConverterTask()

Method Summary

void	execute() Run the task
void	setFile(java.lang.String file) Set the input file name
void	setOntologyName(java.lang.String ontologyName) Set the name of the ontology
void	setOsName(java.lang.String osName) Set the objectstore name
void	setTermClass(java.lang.String termClass) Set the term class name
void	setUrl(java.lang.String url) Set the url for the source of the ontology

Methods inherited from class org.intermine.task.ConverterTask

doSQL, getExcludeList, getModelName, getOsName, setExcludeList, setModelName

Methods inherited from class org.intermine.task.DynamicAttributeTask

configureDynamicAttributes

Methods inherited from class org.apache.tools.ant.Task

getDescription, getLocation, getOwningTarget, getRuntimeConfigurableWrapper, getTaskName, getTaskType, getWrapper, handleErrorFlush, handleErrorOutput, handleFlush, handleInput, handleOutput, init, isInvalid, log, log, maybeConfigure, perform, reconfigure, setDescription, setLocation, setOwningTarget, setRuntimeConfigurableWrapper, setTaskName, setTaskType

Methods inherited from class org.apache.tools.ant.ProjectComponent

getProject, setProject

Methods inherited from class java.lang.Object

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

Field Detail

LOG

protected static final org.apache.log4j.Logger LOG

Constructor Detail

OboConverterTask

public OboConverterTask()

Method Detail

setFile

public void setFile(java.lang.String file)

Set the input file name

Parameters:

file - the database name

setOntologyName

public void setOntologyName(java.lang.String ontologyName)

Set the name of the ontology

Parameters:

ontologyName - name of the ontology

setOsName

public void setOsName(java.lang.String osName)

Set the objectstore name

Overrides:

setOsName in class ConverterTask

Parameters:

osName - the model name

setUrl

public void setUrl(java.lang.String url)

Set the url for the source of the ontology

Parameters:

url - the URL

setTermClass

public void setTermClass(java.lang.String termClass)

Set the term class name

Parameters:

termClass - the class of the term

execute

public void execute()
             throws org.apache.tools.ant.BuildException

Run the task

Overrides:

execute in class org.apache.tools.ant.Task

Throws:

org.apache.tools.ant.BuildException - if a problem occurs