Re: [Rdkit-discuss] Stereochemistry - Differences between RDKit Indigo

2015-08-20 Thread Markus Sitzmann
Hehe, that is why I keep my computers always really cold when I run RDKit ... - | Markus Sitzmann | markus.sitzm...@gmail.com On 20.08.2015, at 04:33, Peter Shenkin shen...@gmail.com wrote: Maybe when you have a toolkit as blazingly fast as RDKit it

Re: [Rdkit-discuss] Stereochemistry - Differences between RDKit Indigo

2015-08-20 Thread Greg Landrum
This isn't a simple one, so it may take a bit to get to an answer that's comprehensible. There are two things going on here in the RDKit: 1) Ring stereochemistry 2) stereochemistry about nitrogen centers Let's start with the second, because it's easier: RDKit does not generally believe in

Re: [Rdkit-discuss] Stereochemistry - Differences between RDKit Indigo

2015-08-20 Thread Markus Sitzmann
I agree with remove - the chance that you destroy actual information by this is low - or in other words, the chance that steroinformation on three-coordinate N is spurious I would expect as high. Markus On Thu, Aug 20, 2015 at 4:30 PM, Greg Landrum greg.land...@gmail.com wrote: This isn't a