Re: [Open Babel] Setting stereochemistry with Python openbabel

2012-08-08 Thread Noel O'Boyle
On 6 August 2012 19:14, Tim Vandermeersch tim.vandermeer...@gmail.com wrote: Hi, On Mon, Aug 6, 2012 at 12:24 PM, Noel O'Boyle baoille...@gmail.com wrote: Even more unforunately, it's not possible to access most of the stereo functionality from anything but C++. This is due to the use of

Re: [Open Babel] OBConversion OUTOPTIONS characters

2012-08-08 Thread Chris Morley
On 07/08/2012 23:02, Rob Smith wrote: Does anyone know of a comprehensive list of the OBConversion OUTOPTIONS characters? I am trying to extend a ruby wrapper we are developing for openbabel, and I'm having trouble locating the correct characters to complete the translation of the command line

Re: [Open Babel] OBConversion OUTOPTIONS characters

2012-08-08 Thread Geoff Hutchison
characters to complete the translation of the command line argument for what I am trying to do: obabel benzodiazepine.sdf.gz -O out.svg --filter title=3016 -s c1ccc2c(c1)C(=NCCN2)c3c3 red -xu -d Keep in mind that if you're doing it programmatically, you don't use the 'x' part of the

Re: [Open Babel] distgeom.cpp vs Eigen2

2012-08-08 Thread Noel O'Boyle
I fixed the Eigen2 problem with a cast. Hopefully it still works for Eigen3. I'm getting quite a few trivial compile warnings though, Geoff, with MSVC - maybe you can look into these: 1..\..\..\src\distgeom.cpp(126) : warning C4244: 'initializing' : conversion from 'double' to 'float', possible