[Cdk-user] Descriptor calculation error

[Nicholas F. <nf...@in...>]

I'm trying to calculate molecular descriptors for molecules in a 
database. First I parse the sdf files, then pass them through a 
3D-coordinate generator, and finally to a Descriptor engine. I am often 
getting errors along the lines of:

KEYError:Unknown distance key in pSet: O= ;Csp2 take default bon length:1.5

thrown by the 3D coordinates generator.

Is this an error with the 3Dcoordinates generator, or does it mean there 
is something wrong with the input, ie the sdf files?