On Jun 30, 2011, at 4:05 PM, Eric Pettersen wrote:

Hi Chad,
My first inclination would be to think that the culprit is Chimera's ring-finding code, but the fact your input files work while your output files don't is perplexing.

Once you pointed out that neither actually works I was less perplexed. :-)

I don't think I can really help unless you send me some files to work with (one input and one output would be good).

My inclination was close but not quite it. The ring finding code was fine but the code that assigns atom types to fused planar ring system was a little too optimistic about how big a fused ring system it could handle. I have dropped it's maximum size limit and now your files open quickly. The change will be in tomorrow's daily build (1.6 build).

--Eric