Package org.incenp.obofoundry.odk

Class SubsetCommand

java.lang.Object

org.incenp.obofoundry.odk.BasePlugin

org.incenp.obofoundry.odk.SubsetCommand

All Implemented Interfaces:

org.obolibrary.robot.Command

public class SubsetCommand
extends BasePlugin

A command to create an ontology subset.

That command is intended to replace both the --extract-ontology-subset --fill-gaps and the --reasoner-query --make-ontology-from-results commands of OWLTools. As such, it supplements the extract -m subset command of the standard distribution of ROBOT, which can be used to replace the --extract-ontology-subset OWLTools command (note the absence of --fill-gaps!).

Field Summary

Fields inherited from class org.incenp.obofoundry.odk.BasePlugin

ioHelper, options

Fields inherited from interface org.obolibrary.robot.Command

global, missingFileError

Constructor Summary

Constructors

Constructor	Description
SubsetCommand()

Method Summary

Modifier and Type	Method	Description
void	performOperation(org.obolibrary.robot.CommandState state, org.apache.commons.cli.CommandLine line)	Performs whatever operation the command is supposed to do.

Methods inherited from class org.incenp.obofoundry.odk.BasePlugin

execute, getDescription, getIRI, getName, getOptions, getUsage, main, readFile, readFileAsIRIs

Methods inherited from class java.lang.Object

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

Constructor Details

SubsetCommand

public SubsetCommand()

Method Details

performOperation

public void performOperation(org.obolibrary.robot.CommandState state,
 org.apache.commons.cli.CommandLine line)
                      throws Exception

Description copied from class: BasePlugin

Performs whatever operation the command is supposed to do.

Specified by:

performOperation in class BasePlugin

Parameters:

state - The internal state of ROBOT.

line - The command line used to invoke the command.

Throws:

Exception - If any error occurs when attempting to execute the operation.