Timeout to long running test - the test currently errors due to to much GC. Adding a timeout doesn't convert the error to a failure but does allow the 'cdk-standard' suite to run twice as quick.

Change-Id: If8db442080406d08b68fff7f9fbf5e8f307f64cf
Signed-off-by: Egon Willighagen <egonw@users.sourceforge.net>
Adding atoms/bonds to correct molecules.

Change-Id: I46199aa3264cc22f5243c0bcff10af1f6fce31a7
Signed-off-by: Egon Willighagen <egonw@users.sourceforge.net>