Re: [BlueObelisk-discuss] Stereochemistry in MDL files

2010-03-03 Thread Greg Landrum
On Wed, Mar 3, 2010 at 4:00 PM, Noel O'Boyle wrote: > On 3 March 2010 14:48, Craig James wrote: >> Noel O'Boyle wrote: >>> >>> Are some of the wedge/hash bonds in typical MOL files unrelated to >>> stereochemistry? That is, are some purely for depiction? If I knew >>> this for sure, I would not r

Re: [BlueObelisk-discuss] Stereochemistry in MDL files

2010-03-03 Thread Craig James
Noel O'Boyle wrote: > Are some of the wedge/hash bonds in typical MOL files unrelated to > stereochemistry? That is, are some purely for depiction? If I knew > this for sure, I would not retain the wedge/hash bond designations in > the input but just work them out from the perceived stereo. YES.

Re: [BlueObelisk-discuss] Stereochemistry in MDL files

2010-03-03 Thread Noel O'Boyle
On 3 March 2010 14:48, Craig James wrote: > Noel O'Boyle wrote: >> >> Are some of the wedge/hash bonds in typical MOL files unrelated to >> stereochemistry? That is, are some purely for depiction? If I knew >> this for sure, I would not retain the wedge/hash bond designations in >> the input but j

Re: [BlueObelisk-discuss] Stereochemistry in MDL files

2010-03-03 Thread Peter Murray-Rust
On Wed, Mar 3, 2010 at 9:29 AM, Noel O'Boyle wrote: > On 2 March 2010 11:23, Greg Landrum wrote: > > > Are some of the wedge/hash bonds in typical MOL files unrelated to > stereochemistry? That is, are some purely for depiction? If I knew > this for sure, I would not retain the wedge/hash bond d

Re: [BlueObelisk-discuss] Stereochemistry in MDL files

2010-03-03 Thread Noel O'Boyle
On 2 March 2010 11:23, Greg Landrum wrote: > Dear Noel, > > Thanks for the repost; this helps. > > My 2 cents are below. > > On Tue, Mar 2, 2010 at 11:34 AM, Noel O'Boyle wrote: >> On 2 March 2010 09:40, Peter Murray-Rust wrote: >>> Thanks, >>> This is a useful initiative >>> >>> On Tue, Mar 2,