Re: [Rdkit-discuss] RDKit Windows binaries - exists ? Where ?

2017-05-05 Thread Jan Holst Jensen
Hi Greg, > Using conda makes the installation a lot simpler and saves me a fair amount of time while doing the builds. Sounds like a good deal. > Is using the anaconda python distribution a problem for you? Actually not. I was concerned about its support for other packages, but it comes

[Rdkit-discuss] How to preserve stereochemistry in a SMARTS subgraph?

2017-05-05 Thread Thilo Bauer
Dear Mailinglist-members, in rdkit, when doing a MCS search for molecules bearing a chirality center, (how) is it possible to preserve the stereochemical information when exporting the subgraph to a SMARTS string? Consider the following three molecules: >>> mol_ccw =

Re: [Rdkit-discuss] How to preserve stereochemistry in a SMARTS subgraph?

2017-05-05 Thread Greg Landrum
Hi Thilo, This is a bug in the generation of the SMARTS from the MCS code. It's not a new one and I was pretty sure that it had already been filed in github, but I can't seem to find it. I'll file the bug report and will hopefully be able to get it fixed in the not-too-distant future. -greg

Re: [Rdkit-discuss] nitro-compounds from smarts

2017-05-05 Thread Rafal Roszak
Curt & Greg, Thx for clarification. > But it's not clear to me why you would need to query in this way. in my code I use(d) smarts as a smiles with extra features ("regex", atom numbering). As far as I remember I had some problem with smiles and therefore decided to switch to smarts. Now I