public override System.Object openBufferedReader(System.String name, System.IO.StreamReader bufferedReader)
{
try
{
System.Object atomSetCollectionOrErrorMessage = Resolver.resolve(name, bufferedReader);
if (atomSetCollectionOrErrorMessage is System.String)
{
return(atomSetCollectionOrErrorMessage);
}
if (atomSetCollectionOrErrorMessage is AtomSetCollection)
{
AtomSetCollection atomSetCollection = (AtomSetCollection)atomSetCollectionOrErrorMessage;
if (atomSetCollection.errorMessage != null)
{
return(atomSetCollection.errorMessage);
}
return(atomSetCollection);
}
return("unknown reader error");
}
catch (System.Exception e)
{
//SupportClass.WriteStackTrace(e, Console.Error);
//UPGRADE_TODO: The equivalent in .NET for method 'java.lang.Throwable.toString' may return a different value. "ms-help://MS.VSCC.v80/dv_commoner/local/redirect.htm?index='!DefaultContextWindowIndex'&keyword='jlca1043'"
return("" + e);
}
}
public BondIterator(AtomSetCollection atomSetCollection)
{
this.atomSetCollection = atomSetCollection;
atoms = atomSetCollection.atoms;
bonds = atomSetCollection.bonds;
ibond = 0;
}
internal StructureIterator(SmarterJmolAdapter enclosingInstance, AtomSetCollection atomSetCollection)
{
InitBlock(enclosingInstance);
structureCount = atomSetCollection.structureCount;
structures = atomSetCollection.structures;
istructure = 0;
}
internal BondIterator(SmarterJmolAdapter enclosingInstance, AtomSetCollection atomSetCollection)
{
InitBlock(enclosingInstance);
this.atomSetCollection = atomSetCollection;
atoms = atomSetCollection.atoms;
bonds = atomSetCollection.bonds;
ibond = 0;
}
internal static System.Object resolve(System.String name, System.IO.StreamReader bufferedReader)
{
AtomSetCollectionReader atomSetCollectionReader;
System.String atomSetCollectionReaderName = determineAtomSetCollectionReader(bufferedReader);
//logger.log("The Resolver thinks", atomSetCollectionReaderName);
System.String className = "org.jmol.adapter.smarter." + atomSetCollectionReaderName + "Reader";
if (atomSetCollectionReaderName == null)
{
return("unrecognized file format");
}
try
{
//UPGRADE_TODO: The differences in the format of parameters for method 'java.lang.Class.forName' may cause compilation errors. "ms-help://MS.VSCC.v80/dv_commoner/local/redirect.htm?index='!DefaultContextWindowIndex'&keyword='jlca1092'"
System.Type atomSetCollectionReaderClass = System.Type.GetType(className);
atomSetCollectionReader = (AtomSetCollectionReader)System.Activator.CreateInstance(atomSetCollectionReaderClass);
}
catch (System.Exception e)
{
System.String err = "Could not instantiate:" + className;
//logger.log(err);
return(err);
}
//atomSetCollectionReader.Logger = //logger;
atomSetCollectionReader.initialize();
AtomSetCollection atomSetCollection = atomSetCollectionReader.readAtomSetCollection(bufferedReader);
atomSetCollection.freeze();
if (atomSetCollection.errorMessage != null)
{
return(atomSetCollection.errorMessage);
}
if (atomSetCollection.atomCount == 0)
{
return("No atoms in file");
}
return(atomSetCollection);
}
public StructureIterator(AtomSetCollection atomSetCollection)
{
structureCount = atomSetCollection.structureCount;
structures = atomSetCollection.structures;
istructure = 0;
}
public AtomIterator(AtomSetCollection atomSetCollection)
{
this.atomSetCollection = atomSetCollection;
iatom = 0;
}
public override JmolAdapter.StructureIterator getStructureIterator(System.Object clientFile)
{
AtomSetCollection atomSetCollection = (AtomSetCollection)clientFile;
return(atomSetCollection.structureCount == 0 ? null : new StructureIterator(atomSetCollection));
}
internal StructureIterator(SmarterJmolAdapter enclosingInstance, AtomSetCollection atomSetCollection)
{
InitBlock(enclosingInstance);
structureCount = atomSetCollection.structureCount;
structures = atomSetCollection.structures;
istructure = 0;
}
internal BondIterator(SmarterJmolAdapter enclosingInstance, AtomSetCollection atomSetCollection)
{
InitBlock(enclosingInstance);
this.atomSetCollection = atomSetCollection;
atoms = atomSetCollection.atoms;
bonds = atomSetCollection.bonds;
ibond = 0;
}
public AtomIterator(AtomSetCollection atomSetCollection)
{
this.atomSetCollection = atomSetCollection;
iatom = 0;
}
public StructureIterator(AtomSetCollection atomSetCollection)
{
structureCount = atomSetCollection.structureCount;
structures = atomSetCollection.structures;
istructure = 0;
}
public BondIterator(AtomSetCollection atomSetCollection)
{
this.atomSetCollection = atomSetCollection;
atoms = atomSetCollection.atoms;
bonds = atomSetCollection.bonds;
ibond = 0;
}
