Re: [Open Babel] generate image dynamically

2019-01-07 Thread Dimitri Maziuk via OpenBabel-discuss
On 1/7/19 11:04 AM, Dmitri Maziuk via OpenBabel-discuss wrote: > .. subscribe as e.g. > person@work, then have their @work address forwarded to gmail, later > try to unsubscribe their person@work address and wonder why that is not > working. Sorry, braino: I meant "trying to usubscribe person@gma

Re: [Open Babel] generate image dynamically

2019-01-07 Thread Dmitri Maziuk via OpenBabel-discuss
On Mon, 7 Jan 2019 09:42:06 +0200 Devora Witty wrote: > There is some kind of bug in the unscubscribe option for the openbabel > mailing list, despite attempting to unsubscribe several times I am > still receiving emails > > On Sun, Jan 6, 2019 at 10:35 PM Christina Frances Sandall < > cfsan...@

Re: [Open Babel] changes to fingerprint generation, and FPS output

2019-01-07 Thread Noel O'Boyle
Sorry - a more careful read is that it means (3). And indeed this has changed. Off the top of my head, I don't believe any other commits have changed this, but they may have. For example, I rewrote the handling of explicit hydrogens, fixing many related bugs along the way. Regards, - Noel On Mon

[Open Babel] NxN Tanimoto similarity calculations/searches

2019-01-07 Thread John Hutchinson
Hello all, I have a list of ~4000 SMILES codes. For each substance, I want to determine all the substances with Tanimoto similarity >70%. I generated a fastsearch index and have been using the "-at0.7" command, but I can only do 1 query molecule at a time. Can someone recommend a simple way to

Re: [Open Babel] changes to fingerprint generation, and FPS output

2019-01-07 Thread Noel O'Boyle
Can you clarify the requirement for bumping the version? That is, which of the following is the invariant: 1. Any molecule represented in any format changes must create the same fingerprint 2. Any SMILES string must create the same fingerprint 3. Any OBMol must create the same fingerprint Since yo

[Open Babel] changes to fingerprint generation, and FPS output

2019-01-07 Thread Andrew Dalke
Hi all, I just updated from OB 2.4.1 to the most recent version from version control. (This is part of a migration to Python 3.7.) I noticed that the MACCS key implementation changed for about 1% of the first 27008 ChEMBL-24 structures, and the FP2 fingerprints changed for a bit more than 1%