public override Graph Apply(Graph g)
{
var h = new Graph(g.Order);
// copy atom/topology information this is unchanged
for (int u = 0; u < g.Order; u++)
{
if (g.TopologyOf(u).Type == Configuration.ConfigurationType.DoubleBond)
{
h.AddAtom(ReducedAtom(g, u));
}
else
{
h.AddAtom(g.GetAtom(u));
h.AddTopology(g.TopologyOf(u));
}
}
var replacements = new Traversal(g).replacement;
// append the edges, replacing any which need to be changed
for (int u = 0; u < g.Order; u++)
{
foreach (var e in g.GetEdges(u))
{
if (e.Other(u) > u)
{
var ee = e;
if (replacements.TryGetValue(e, out Edge replacement))
{
ee = replacement;
}
h.AddEdge(ee);
}
}
}
return(h);
}