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

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 < >

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

[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

[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