I've been playing for somewhat long time with connecting JChemPaint for 2D 
drawing toJmol 
for 3D rendering.
It's over a year that I have a working prototype, but haven't released it 
public because I was 
expecting to polish it up. In fact, that's the topic of one of my presentations 
at BCCE next 
August in Denton.

A few bugs or lack of features in the Javascript API of JChemPaint  have 
refrained my 
progress with this. Then, JCP v3 was started with quite a reworked engine, and 
I posed great 
expectation on it, but haven't been able to solve my pending issues with this 
new version, so 
I'm still relying on the old v2. Particularly, addition of explicit hydrogens 
has been a constant 
problem. And Jmol minimization heavily depended on the Hs being present in 
order to be 
successful.  So what I have is a semimanual procedure which is not too 
user-friendly.
I haven't yet had the chance to explore the recent addition in Jmol of 
calculate hydrogens, 
which may solve my bottleneck with JCP.

I have therefore followed -but couldn't keep pace with- the recent and so very 
fast 
developments in connecting JME with Jmol, with excitement but also with a  bit 
of dismay at 
having lost my chance to be "the first" ;-)   Great work, Otis and Bob!

My bet for JCP was based, of course, on it being open source. I guess the 
connection could 
be done at the Java level but my knowldege limited me to using Javascript.



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