[Cdk-devel] handling null pointer exceptions using PDBReader for some PDBfiles

[<sj...@sm...>]

Hello,

The PDBReader is throwing null pointer exception
in function createbonds for some PDBIDS like

1fdy
1dr2
1hpg
1gdo
1lcb
 etc.The number of files throwing exception is large that i have  to debugg the
error someway.

The error         java.lang.NullPointerException
                is in         if(strand.getAtomCount() < atoms &&
((PDBAtom)strand.getAtomAt(atoms)).getOxt()&&strand.getAtomAt(atoms)!=null)
line in createBonds().
The same kind of error occurs for files with OXT like 1tnl
and without oxt like 1fdy.

thanks,
sunu