Re: [Rdkit-discuss] Fwd: PostGres cartridge

2013-05-15 Thread Nicholas Firth
Hi Greg, This is probably pretty straightforward. You were correct there! In order to build the cartridge you need to have $RDBASE pointing to the directory containing the RDKit source distribution (/usr/local/Cellar/rdkit/2012.03.1 in the example above from Hans). You're looking for the

Re: [Rdkit-discuss] sudo apt-get install python-rdkit not working

2013-05-15 Thread Greg Landrum
Why does it need an update? The RDKit is available in ubuntu in revs 12.04 and later. It's just not always the most up-to-date RDKit (debian packages are rarely the most up-to-date) -greg On Wed, May 15, 2013 at 10:58 AM, JP jeanpaul.ebe...@inhibox.com wrote: Merci Greg, This needs an

Re: [Rdkit-discuss] sudo apt-get install python-rdkit not working

2013-05-15 Thread JP
Merci Greg, This needs an update then: https://github.com/rdkit/rdkit/blob/master/Docs/Book/Install.rst Ubuntu 12.04 and later On 15 May 2013 04:49, Greg Landrum greg.land...@gmail.com wrote: Hi JP, On Tue, May 14, 2013 at 3:43 PM, JP jeanpaul.ebe...@inhibox.com wrote: On:

Re: [Rdkit-discuss] sudo apt-get install python-rdkit not working

2013-05-15 Thread JP
oopppsss sorry, you are right ... On 15 May 2013 10:33, Greg Landrum greg.land...@gmail.com wrote: Why does it need an update? The RDKit is available in ubuntu in revs 12.04 and later. It's just not always the most up-to-date RDKit (debian packages are rarely the most up-to-date) -greg

[Rdkit-discuss] Ring Info for molecules

2013-05-15 Thread Syeda Sabrina
Hi Greg, For the following molecule when I draw it shows a cyclic structure. testm = Chem.MolFromSmarts('[N:1][C@@H:2]([OH1:3])\[CH1:4]=[CH1:5]/[C@H :6]([N:8])[OH1:7]') But when I check the atoms/bonds for ring information it returns False. For example, for a in testm.GetAtoms(): ...:

Re: [Rdkit-discuss] Ring Info for molecules

2013-05-15 Thread Syeda Sabrina
Never mind, I just did something really silly! Thanks Sabrina *Syeda Sabrina* *Graduate Assistant* *25, Fenske Laboratory* *Department of Chemical Engineering, Penn State University* *University Park, PA* * * On Wed, May 15, 2013 at 4:54 PM, Syeda Sabrina sus364...@gmail.com wrote: Hi Greg,