Beispiel #1
0
void
ASTBase::logError (XMLInputStream& stream, const XMLToken& element, SBMLErrorCode_t code,
          const std::string& msg)
{
  SBMLNamespaces* ns = stream.getSBMLNamespaces();
  if (ns != NULL)
  {
    static_cast <SBMLErrorLog*>
      (stream.getErrorLog())->logError(
      code,
      ns->getLevel(), 
      ns->getVersion(),
      msg, 
      element.getLine(), 
      element.getColumn());
  }
  else
  {
    static_cast <SBMLErrorLog*>
      (stream.getErrorLog())->logError(
      code, 
      SBML_DEFAULT_LEVEL, 
      SBML_DEFAULT_VERSION, 
      msg, 
      element.getLine(), 
      element.getColumn());
  }
}
Beispiel #2
0
/**
 * Sets the type of an ASTNode based on the given MathML &lt;cn> element.
 * Errors will be logged in the stream's SBMLErrorLog object.
 */
static void
setTypeCN (ASTNode& node, const XMLToken& element, XMLInputStream& stream)
{
  string type = "real";
  element.getAttributes().readInto("type", type);

  // here is the only place we might encounter the sbml:units attribute
  string units = "";
  element.getAttributes().readInto("units", units);

  if (type == "real")
  {
    double value = 0;
    istringstream isreal;
    isreal.str( stream.next().getCharacters() );
    isreal >> value;

    node.setValue(value);

    if (isreal.fail() 
      || node.isInfinity()
      || node.isNegInfinity()
      )
    {
      static_cast <SBMLErrorLog*>
        (stream.getErrorLog())->logError(FailedMathMLReadOfDouble,
          stream.getSBMLNamespaces()->getLevel(), 
          stream.getSBMLNamespaces()->getVersion());
    }

  }
Beispiel #3
0
/**
 * Sets the type of an ASTNode based on the given MathML <ci> element.
 * Errors will be logged in the stream's SBMLErrorLog object.
 */
static void
setTypeCI (ASTNode& node, const XMLToken& element, XMLInputStream& stream)
{
  if (element.getName() == "csymbol")
  {
    string url;
    element.getAttributes().readInto("definitionURL", url);

    if ( url == URL_DELAY ) node.setType(AST_FUNCTION_DELAY);
    else if ( url == URL_TIME  ) node.setType(AST_NAME_TIME);
    else if ( url == URL_AVOGADRO  ) node.setType(AST_NAME_AVOGADRO);
    else 
    {
      static_cast <SBMLErrorLog*>
	        (stream.getErrorLog())->logError(BadCsymbolDefinitionURLValue,
          stream.getSBMLNamespaces()->getLevel(), 
          stream.getSBMLNamespaces()->getVersion());
    }
  }
  else if (element.getName() == "ci")
  {
    node.setDefinitionURL(element.getAttributes());
  }

  const string name = trim( stream.next().getCharacters() );
  node.setName( name.c_str() );
}