jp.ac.keio.bio.fun.xitosbml.util

Class ModelValidator

java.lang.Object

jp.ac.keio.bio.fun.xitosbml.util.ModelValidator

public class ModelValidator
extends Object

The class ModelValidator, which is an utility class to validate SBML document. The saved SBML file will contain an annotation generated by this class. The annotation contains following information:

• Model ID
• Hostname
• Date
• XitoSBML version and credit

Date Created: Feb 21, 2017

Author:

Kaito Ii <ii@fun.bio.keio.ac.jp>, Akira Funahashi <funa@bio.keio.ac.jp>

Constructor Summary

Constructors

Constructor and Description
ModelValidator(org.sbml.jsbml.SBMLDocument document) Instantiates a new model validator.

Method Summary

Modifier and Type	Method and Description
static void	main(String[] args) Example main() method which will read an SBML file and execute a validation.
void	validate() Validate the SBML document.

Methods inherited from class java.lang.Object

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

Constructor Detail

ModelValidator

public ModelValidator(org.sbml.jsbml.SBMLDocument document)

Instantiates a new model validator.

Parameters:

document - the SBML document

Method Detail

validate

public void validate()

Validate the SBML document. This method will will check whether the SBML document has correct level, version and extension. Checking missing boundary conditions for Species is also done by this method. Moreover, if XitoSBML is connected to an internet, then this method will send the model to the online SBML validator, which will run a semantic validation, and show the validation result.

main

public static void main(String[] args)

Example main() method which will read an SBML file and execute a validation. This example requires a specific SBML model "test.xml" located under the specific directory.

Parameters:

args - an array of command-line arguments for the application