internal virtual void addStructure(Structure structure)
{
if (structureCount == structures.Length)
{
structures = (Structure[])AtomSetCollectionReader.setLength(structures, structureCount + 32);
}
structures[structureCount++] = structure;
}
internal virtual void addBond(Bond bond)
{
/*
* System.out.println("I see a bond:" + bond.atomIndex1 + "-" +
* bond.atomIndex2 + ":" + bond.order);
*/
if (bond.atomIndex1 < 0 || bond.atomIndex2 < 0 || bond.order <= 0)
{
/*
* System.out.println(">>>>>>BAD BOND:" + bond.atomIndex1 + "-" +
* bond.atomIndex2 + ":" + bond.order);
*/
return;
}
if (bondCount == bonds.Length)
{
bonds = (Bond[])AtomSetCollectionReader.setLength(bonds, bondCount + 1024);
}
bonds[bondCount++] = bond;
}
