/// <summary> Constructor for the CMLHandler.
///
/// </summary>
/// <param name="cdo">The Chemical Document Object in which data is stored
///
/// </param>
public CMLHandler(IChemicalDocumentObject cdo)
{
//logger = new LoggingTool(this);
conv = new CMLCoreModule(cdo);
userConventions = System.Collections.Hashtable.Synchronized(new System.Collections.Hashtable());
xpath = new CMLStack();
conventionStack = new CMLStack();
}
/// <summary> Constructor for the CMLHandler.
///
/// </summary>
/// <param name="cdo">The Chemical Document Object in which data is stored
///
/// </param>
public CMLHandler(IChemicalDocumentObject cdo)
{
//logger = new LoggingTool(this);
conv = new CMLCoreModule(cdo);
userConventions = System.Collections.Hashtable.Synchronized(new System.Collections.Hashtable());
xpath = new CMLStack();
conventionStack = new CMLStack();
}
public CMLReactionModule(IChemicalDocumentObject cdo)
: base(cdo)
{
}
public MDLMolConvention(IChemicalDocumentObject cdo)
: base(cdo)
{
}
public virtual void inherit(ICMLModule convention)
{
if (convention is CMLCoreModule)
{
CMLCoreModule conv = (CMLCoreModule)convention;
//this.//logger = conv.//logger;
this.cdo = conv.returnCDO();
this.BUILTIN = conv.BUILTIN;
this.atomCounter = conv.atomCounter;
this.elsym = conv.elsym;
this.eltitles = conv.eltitles;
this.elid = conv.elid;
this.formalCharges = conv.formalCharges;
this.partialCharges = conv.partialCharges;
this.isotope = conv.isotope;
this.x3 = conv.x3;
this.y3 = conv.y3;
this.z3 = conv.z3;
this.x2 = conv.x2;
this.y2 = conv.y2;
this.xfract = conv.xfract;
this.yfract = conv.yfract;
this.zfract = conv.zfract;
this.hCounts = conv.hCounts;
this.atomParities = conv.atomParities;
this.atomDictRefs = conv.atomDictRefs;
this.spinMultiplicities = conv.spinMultiplicities;
this.bondCounter = conv.bondCounter;
this.bondid = conv.bondid;
this.bondARef1 = conv.bondARef1;
this.bondARef2 = conv.bondARef2;
this.order = conv.order;
this.bondStereo = conv.bondStereo;
this.bondDictRefs = conv.bondDictRefs;
this.curRef = conv.curRef;
this.unitcellparams = conv.unitcellparams;
this.inchi = conv.inchi;
}
else
{
////logger.warn("Cannot inherit information from module: ", convention.GetType().FullName);
}
}
public CMLCoreModule(IChemicalDocumentObject cdo)
{
////logger = new LoggingTool(this);
this.cdo = cdo;
}
//new private LoggingTool //logger;
public JMOLANIMATIONConvention(IChemicalDocumentObject cdo)
: base(cdo)
{
//logger = new LoggingTool(this);
current = UNKNOWN;
}
public PMPConvention(IChemicalDocumentObject cdo)
: base(cdo)
{
}
public PDBConvention(IChemicalDocumentObject cdo)
: base(cdo)
{
}
public CMLReactionModule(IChemicalDocumentObject cdo)
: base(cdo)
{
}
public MDLMolConvention(IChemicalDocumentObject cdo)
: base(cdo)
{
}
//new private LoggingTool //logger;
public JMOLANIMATIONConvention(IChemicalDocumentObject cdo)
: base(cdo)
{
//logger = new LoggingTool(this);
current = UNKNOWN;
}