Re: [Cdk-user] atom typing without atom type name

2020-09-21 Thread Rajarshi Guha
Thanks On Mon, Sep 21, 2020 at 7:09 AM John Mayfield wrote: > The SMILES parser nor other IO (maybe CML) will assign atom types for you > - you need to do this yourself with: > > AtomContainerManipulator.percieveAtomTypesAndConfigureAtoms(methane); > > Atom types are an annotation on top of a

Re: [Cdk-user] atom typing without atom type name

2020-09-21 Thread John Mayfield
The SMILES parser nor other IO (maybe CML) will assign atom types for you - you need to do this yourself with: AtomContainerManipulator.percieveAtomTypesAndConfigureAtoms(methane); Atom types are an annotation on top of a molecule. There are different atom types we could assign - CDK atom types