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

Class MainModelValidator

java.lang.Object

jp.ac.keio.bio.fun.xitosbml.xitosbml.MainSpatial

jp.ac.keio.bio.fun.xitosbml.xitosbml.MainSBaseSpatial

jp.ac.keio.bio.fun.xitosbml.xitosbml.MainModelValidator

All Implemented Interfaces:

ij.plugin.PlugIn

public class MainModelValidator
extends MainSBaseSpatial

The class MainModelValidator, which implements "run Model Validation" function. Date Created: Oct 1, 2015

Author:

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

Field Summary

Fields inherited from class jp.ac.keio.bio.fun.xitosbml.xitosbml.MainSpatial

document, hashSampledValue, imgexp, model, spatialplugin, spImg, viewer

Constructor Summary

Constructors

Constructor and Description
MainModelValidator()

Method Summary

Modifier and Type	Method and Description
void	run(String arg) Overrides ij.plugin.PlugIn#run(java.lang.String).

Methods inherited from class jp.ac.keio.bio.fun.xitosbml.xitosbml.MainSBaseSpatial

checkExtension, checkLevelAndVersion, checkSBMLDocument, getDocument, main, visualize

Methods inherited from class jp.ac.keio.bio.fun.xitosbml.xitosbml.MainSpatial

addSBases, computeImg, gui, print, showDomainStructure, showStep, visualize

Methods inherited from class java.lang.Object

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

Constructor Detail

MainModelValidator

public MainModelValidator()

Method Detail

run

public void run(String arg)

Overrides ij.plugin.PlugIn#run(java.lang.String). A file dialog for validating the model will be displayed. Users will select a model (SBML file) through the graphical user interface, and then XitoSBML 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 it will send the model to the online SBML validator, which will run a semantic validation, and show the validation result.

Specified by:

run in interface ij.plugin.PlugIn

Specified by:

run in class MainSBaseSpatial

Parameters:

arg - name of the method defined in plugins.config

See Also:

PlugIn.run(java.lang.String)