CCellDesignerImporter.cpp File Reference

#include <algorithm>
#include <assert.h>
#include <ctype.h>
#include <limits>
#include <cmath>
#include <sstream>
#include <string>
#include <stdlib.h>
#include <sbml/Compartment.h>
#include <sbml/Model.h>
#include <sbml/SBase.h>
#include <sbml/SBMLDocument.h>
#include <sbml/Species.h>
#include <sbml/xml/XMLNode.h>
#include <sbml/xml/XMLNamespaces.h>
#include <sbml/xml/XMLAttributes.h>
#include <sbml/packages/layout/sbml/CompartmentGlyph.h>
#include <sbml/packages/layout/sbml/CubicBezier.h>
#include <sbml/packages/layout/sbml/Curve.h>
#include <sbml/packages/layout/sbml/GraphicalObject.h>
#include <sbml/packages/layout/sbml/Layout.h>
#include <sbml/packages/layout/sbml/LineSegment.h>
#include <sbml/packages/layout/sbml/ReactionGlyph.h>
#include <sbml/packages/layout/sbml/SpeciesGlyph.h>
#include <sbml/packages/layout/sbml/SpeciesReferenceGlyph.h>
#include <sbml/packages/layout/sbml/SpeciesReferenceRole.h>
#include <sbml/packages/layout/sbml/TextGlyph.h>
#include <sbml/packages/layout/extension/LayoutModelPlugin.h>
#include <sbml/packages/render/sbml/ColorDefinition.h>
#include <sbml/packages/render/sbml/Ellipse.h>
#include <sbml/packages/render/sbml/RenderGroup.h>
#include <sbml/packages/render/sbml/LocalRenderInformation.h>
#include <sbml/packages/render/sbml/LocalStyle.h>
#include <sbml/packages/render/sbml/Polygon.h>
#include <sbml/packages/render/sbml/Rectangle.h>
#include <sbml/packages/render/sbml/RelAbsVector.h>
#include <sbml/packages/render/sbml/RenderCurve.h>
#include <sbml/packages/render/sbml/RenderPoint.h>
#include <sbml/packages/render/extension/RenderLayoutPlugin.h>
#include "CCellDesignerImporter.h"
#include "SBMLUtils.h"
#include <copasi/utilities/CCopasiMessage.h>

Macros
#define	COULD_NOT_CREATE(result)
#define	FAIL_WITH_ERROR(result, message)
#define	FAIL_WITH_ERROR_AND_RETURN(result, message)
#define	USE_LAYOUT   1
#define	USE_RENDER   1

Functions
double	getAngleFrom (const std::vector< ProteinModification > &modifications, const std::string &id)
Point	getCenter (const BoundingBox &bounds)
SPECIES_MODIFICATION_TYPE	getTypeFrom (const std::vector< SpeciesModification > &modifications, const std::string &id)

Macro Definition Documentation

COULD_NOT_CREATE

#define COULD_NOT_CREATE

(

result

)

Value:

  {\
    FAIL_WITH_ERROR(result, "could not create element");\
  }\

FAIL_WITH_ERROR

#define FAIL_WITH_ERROR	(		result,
			message
	)

Value:

  {\
    std::stringstream str;\
    str << "CellDesigner Importer: " << "line: " << __LINE__ << " " << message;\
    result = false;\
    CCopasiMessage(CCopasiMessage::WARNING_FILTERED, str.str().c_str());\
  }\

FAIL_WITH_ERROR_AND_RETURN

#define FAIL_WITH_ERROR_AND_RETURN	(		result,
			message
	)

Value:

  {\
    FAIL_WITH_ERROR(result, message);\
    return result;\
  }\

USE_LAYOUT

#define USE_LAYOUT   1

USE_RENDER

#define USE_RENDER   1

Function Documentation

getAngleFrom()

double getAngleFrom	(	const std::vector< ProteinModification > &	modifications,
		const std::string &	id
	)

getCenter()

Point getCenter

(

const BoundingBox &

bounds

)

Referenced by CCellDesignerImporter::convertCompartmentAnnotations().

getTypeFrom()

SPECIES_MODIFICATION_TYPE getTypeFrom	(	const std::vector< SpeciesModification > &	modifications,
		const std::string &	id
	)

References EMPTY_MOD_TYPE.

Referenced by CCellDesignerImporter::addProteinModifications().