Re: [Rdkit-discuss] Detecting rings and bond types from PDB HETATM record

2012-07-06 Thread Paul Emsley
On 06/07/12 10:27, JP wrote: > Steifl -- that is a really crafty and less painful way how to go about > it. > > The SMILES is in fact, a wget call away - since I am processing PDB > deposited structures. > http://www.rcsb.org/pdb/rest/describeHet?chemicalID=NAG It is not clear to me how the SMIL

Re: [Rdkit-discuss] Announcement: 1st RDKit User Group Meeting scheduled

2012-07-06 Thread JP
IMHO I think the main difference is that a user is a consumer of the API (so just calling the available methods), while a "developer" is one who builds new functionality and extends RDKit's API and internals. That the user in this case is also a "software developer" somewhat blurs this distinction

Re: [Rdkit-discuss] Announcement: 1st RDKit User Group Meeting scheduled

2012-07-06 Thread Paul Emsley
On 06/07/12 10:06, JP wrote: > I just noticed that this is a "user" meeting and not a "dev" one - so > perhaps such a topic is out of scope... What's the difference? A user uses python and a dev uses python, boost.python and c++? Anyway, I too (AFAICS ATM) would be interested in your suggesti

Re: [Rdkit-discuss] Detecting rings and bond types from PDB HETATM record

2012-07-06 Thread Adrian Schreyer
On Fri, Jul 6, 2012 at 10:27 AM, JP wrote: > Steifl -- that is a really crafty and less painful way how to go about it. > > The SMILES is in fact, a wget call away - since I am processing PDB > deposited structures. > http://www.rcsb.org/pdb/rest/describeHet?chemicalID=NAG Do you want ideal ligan

Re: [Rdkit-discuss] Announcement: 1st RDKit User Group Meeting scheduled

2012-07-06 Thread Adrian JasiƄski
I have the question connected with the topic, Is there any temporary plan of the meeting or topics which will be discussed during this event? If yes where I can find it? If no will it be announced and when? I suggest to publish such a list of topics and to vote for most interesting of them. 2012/

Re: [Rdkit-discuss] Announcement: 1st RDKit User Group Meeting scheduled

2012-07-06 Thread Greg Landrum
On Fri, Jul 6, 2012 at 11:06 AM, JP wrote: > I just noticed that this is a "user" meeting and not a "dev" one - so > perhaps such a topic is out of scope... > eh, that depends. C++ users of the code are also users. I'm more concerned about having a session that only 2 people are interested in. To

Re: [Rdkit-discuss] Announcement: 1st RDKit User Group Meeting scheduled

2012-07-06 Thread JP
I just noticed that this is a "user" meeting and not a "dev" one - so perhaps such a topic is out of scope... - Jean-Paul Ebejer Early Stage Researcher On 4 July 2012 16:52, Greg Landrum wrote: > On Wed, Jul 4, 2012 at 3:38 PM, JP wrote: > > A suggestion, if I'm allowed. > > suggestions are a

Re: [Rdkit-discuss] Detecting rings and bond types from PDB HETATM record

2012-07-06 Thread JP
Steifl -- that is a really crafty and less painful way how to go about it. The SMILES is in fact, a wget call away - since I am processing PDB deposited structures. http://www.rcsb.org/pdb/rest/describeHet?chemicalID=NAG Of course, this approach is not generally applicable (and for this you'd nee