/**
 * @file SpatialModelPlugin.h
 * @brief Definition of the SpatialModelPlugin class.
 * @author SBMLTeam
 *
 * <!--------------------------------------------------------------------------
 * This file is part of libSBML. Please visit http://sbml.org for more
 * information about SBML, and the latest version of libSBML.
 *
 * Copyright (C) 2013-2017 jointly by the following organizations:
 * 1. California Institute of Technology, Pasadena, CA, USA
 * 2. EMBL European Bioinformatics Institute (EMBL-EBI), Hinxton, UK
 * 3. University of Heidelberg, Heidelberg, Germany
 *
 * Copyright (C) 2009-2013 jointly by the following organizations:
 * 1. California Institute of Technology, Pasadena, CA, USA
 * 2. EMBL European Bioinformatics Institute (EMBL-EBI), Hinxton, UK
 *
 * Copyright (C) 2006-2008 by the California Institute of Technology,
 * Pasadena, CA, USA
 *
 * Copyright (C) 2002-2005 jointly by the following organizations:
 * 1. California Institute of Technology, Pasadena, CA, USA
 * 2. Japan Science and Technology Agency, Japan
 *
 * This library is free software; you can redistribute it and/or modify it
 * under the terms of the GNU Lesser General Public License as published by the
 * Free Software Foundation. A copy of the license agreement is provided in the
 * file named "LICENSE.txt" included with this software distribution and also
 * available online as http://sbml.org/software/libsbml/license.html
 * ------------------------------------------------------------------------ -->
 *
 * @class SpatialModelPlugin
 * @sbmlbrief{spatial} Extension of Model.
 */


#ifndef SpatialModelPlugin_H__
#define SpatialModelPlugin_H__


#include <sbml/common/extern.h>


#ifdef __cplusplus


#include <sbml/extension/SBasePlugin.h>
#include <sbml/packages/spatial/sbml/Geometry.h>


LIBSBML_CPP_NAMESPACE_BEGIN


class LIBSBML_EXTERN SpatialModelPlugin : public SBasePlugin
{
protected:

  /** @cond doxygenLibsbmlInternal */

  Geometry* mGeometry;

  /** @endcond */

public:

  /**
   * Creates a new SpatialModelPlugin using the given uri, prefix and package
   * namespace.
   *
   * @param uri a string, representing the uri of the package.
   *
   * @param prefix a string, the prefix to be used.
   *
   * @param spatialns a pointer to the SpatialPkgNamespaces object to be used.
   */
  SpatialModelPlugin(const std::string& uri,
                     const std::string& prefix,
                     SpatialPkgNamespaces* spatialns);


  /**
   * Copy constructor for SpatialModelPlugin.
   *
   * @param orig the SpatialModelPlugin instance to copy.
   */
  SpatialModelPlugin(const SpatialModelPlugin& orig);


  /**
   * Assignment operator for SpatialModelPlugin.
   *
   * @param rhs the SpatialModelPlugin object whose values are to be used as
   * the basis of the assignment.
   */
  SpatialModelPlugin& operator=(const SpatialModelPlugin& rhs);


  /**
   * Creates and returns a deep copy of this SpatialModelPlugin object.
   *
   * @return a (deep) copy of this SpatialModelPlugin object.
   */
  virtual SpatialModelPlugin* clone() const;


  /**
   * Destructor for SpatialModelPlugin.
   */
  virtual ~SpatialModelPlugin();


  /**
   * Returns the value of the "geometry" element of this SpatialModelPlugin.
   *
   * @return the value of the "geometry" element of this SpatialModelPlugin as
   * a Geometry*.
   */
  const Geometry* getGeometry() const;


  /**
   * Returns the value of the "geometry" element of this SpatialModelPlugin.
   *
   * @return the value of the "geometry" element of this SpatialModelPlugin as
   * a Geometry*.
   */
  Geometry* getGeometry();


  /**
   * Predicate returning @c true if this SpatialModelPlugin's "geometry"
   * element is set.
   *
   * @return @c true if this SpatialModelPlugin's "geometry" element has been
   * set, otherwise @c false is returned.
   */
  bool isSetGeometry() const;


  /**
   * Sets the value of the "geometry" element of this SpatialModelPlugin.
   *
   * @param geometry Geometry* value of the "geometry" element to be set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_INVALID_ATTRIBUTE_VALUE,
   * OperationReturnValues_t}
   */
  int setGeometry(const Geometry* geometry);


  /**
   * Creates a new Geometry object, adds it to this SpatialModelPlugin object
   * and returns the Geometry object created.
   *
   * @return a new Geometry object instance.
   */
  Geometry* createGeometry();


  /**
   * Unsets the value of the "geometry" element of this SpatialModelPlugin.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  int unsetGeometry();


  /**
   * Predicate returning @c true if all the required elements for this
   * SpatialModelPlugin object have been set.
   *
   * @return @c true to indicate that all the required elements of this
   * SpatialModelPlugin have been set, otherwise @c false is returned.
   *
   *
   * @note The required elements for the SpatialModelPlugin object are:
   */
  virtual bool hasRequiredElements() const;



  /** @cond doxygenLibsbmlInternal */

  /**
   * Write any contained elements
   */
  virtual void writeElements(XMLOutputStream& stream) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Accepts the given SBMLVisitor
   */
  virtual bool accept(SBMLVisitor& v) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the parent SBMLDocument
   */
  virtual void setSBMLDocument(SBMLDocument* d);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Connects to child elements
   */
  virtual void connectToChild();

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Connects to parent element
   */
  virtual void connectToParent(SBase* base);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Enables/disables the given package with this element
   */
  virtual void enablePackageInternal(const std::string& pkgURI,
                                     const std::string& pkgPrefix,
                                     bool flag);

  /** @endcond */




  #ifndef SWIG



  /** @cond doxygenLibsbmlInternal */

  /**
   * Gets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to retrieve.
   *
   * @param value, the address of the value to record.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int getAttribute(const std::string& attributeName, bool& value)
    const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Gets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to retrieve.
   *
   * @param value, the address of the value to record.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int getAttribute(const std::string& attributeName, int& value) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Gets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to retrieve.
   *
   * @param value, the address of the value to record.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int getAttribute(const std::string& attributeName,
                           double& value) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Gets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to retrieve.
   *
   * @param value, the address of the value to record.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int getAttribute(const std::string& attributeName,
                           unsigned int& value) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Gets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to retrieve.
   *
   * @param value, the address of the value to record.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int getAttribute(const std::string& attributeName,
                           std::string& value) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Gets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to retrieve.
   *
   * @param value, the address of the value to record.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int getAttribute(const std::string& attributeName,
                           const char* value) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Predicate returning @c true if this SpatialModelPlugin's attribute
   * "attributeName" is set.
   *
   * @param attributeName, the name of the attribute to query.
   *
   * @return @c true if this SpatialModelPlugin's attribute "attributeName" has
   * been set, otherwise @c false is returned.
   */
  virtual bool isSetAttribute(const std::string& attributeName) const;

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to set.
   *
   * @param value, the value of the attribute to set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int setAttribute(const std::string& attributeName, bool value);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to set.
   *
   * @param value, the value of the attribute to set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int setAttribute(const std::string& attributeName, int value);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to set.
   *
   * @param value, the value of the attribute to set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int setAttribute(const std::string& attributeName, double value);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to set.
   *
   * @param value, the value of the attribute to set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int setAttribute(const std::string& attributeName,
                           unsigned int value);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to set.
   *
   * @param value, the value of the attribute to set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int setAttribute(const std::string& attributeName,
                           const std::string& value);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Sets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to set.
   *
   * @param value, the value of the attribute to set.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int setAttribute(const std::string& attributeName, const char*
    value);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Unsets the value of the "attributeName" attribute of this
   * SpatialModelPlugin.
   *
   * @param attributeName, the name of the attribute to query.
   *
   * @copydetails doc_returns_success_code
   * @li @sbmlconstant{LIBSBML_OPERATION_SUCCESS, OperationReturnValues_t}
   * @li @sbmlconstant{LIBSBML_OPERATION_FAILED, OperationReturnValues_t}
   */
  virtual int unsetAttribute(const std::string& attributeName);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Creates and returns an new "elementName" object in this
   * SpatialModelPlugin.
   *
   * @param elementName, the name of the element to create.
   *
   * pointer to the element created.
   */
  virtual SBase* createObject(const std::string& elementName);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Returns the number of "elementName" in this SpatialModelPlugin.
   *
   * @param elementName, the name of the element to get number of.
   *
   * unsigned int number of elements.
   */
  virtual unsigned int getNumObjects(const std::string& elementName);

  /** @endcond */



  /** @cond doxygenLibsbmlInternal */

  /**
   * Returns the nth object of "objectName" in this SpatialModelPlugin.
   *
   * @param elementName, the name of the element to get number of.
   *
   * @param index, unsigned int teh index of teh object to retrieve.
   *
   * pointer to the object.
   */
  virtual SBase* getObject(const std::string& elementName, unsigned int index);

  /** @endcond */




  #endif /* !SWIG */


  /**
   * Returns the first child element that has the given @p id in the model-wide
   * SId namespace, or @c NULL if no such object is found.
   *
   * @param id a string representing the id attribute of the object to
   * retrieve.
   *
   * @return a pointer to the SBase element with the given @p id.
   */
  virtual SBase* getElementBySId(const std::string& id);


  /**
   * Returns the first child element that has the given @p metaid, or @c NULL
   * if no such object is found.
   *
   * @param metaid a string representing the metaid attribute of the object to
   * retrieve.
   *
   * @return a pointer to the SBase element with the given @p metaid.
   */
  virtual SBase* getElementByMetaId(const std::string& metaid);


  /**
   * Returns a List of all child SBase objects, including those nested to an
   * arbitrary depth.
   *
   * filter, an ElementFilter that may impose restrictions on the objects to be
   * retrieved.
   *
   * @return a List* pointer of pointers to all SBase child objects with any
   * restriction imposed.
   */
  virtual List* getAllElements(ElementFilter * filter = NULL);



  /** @cond doxygenLibsbmlInternal */

  /**
   * Append items from model (used in comp flattening)
   *
   * @param model a pointer to a model object.
   *
   */
  int appendFrom(const Model* model);

  /** @endcond */


protected:


  /** @cond doxygenLibsbmlInternal */

  /**
   * Creates a new object from the next XMLToken on the XMLInputStream
   */
  virtual SBase* createObject(XMLInputStream& stream);

  /** @endcond */


};



LIBSBML_CPP_NAMESPACE_END




#endif /* __cplusplus */




#endif /* !SpatialModelPlugin_H__ */


