@djarrett I could not initially find any problems. You could get rid of the vernalis error messages by installing RDKit.
Could you create a LOG in DEBUG mode? Open the existing log and delete the content:
or delete the file from the workspace directory
{workspace_directory}/.metadata/knime/knime.log
activate the DEBUG level. Make sure that it would not contain any sensitive informations and remember to set it back to WARN after you are finished:
You might want to include further informations about your system and environment, like the KNIME version you are using (cf. also this):
In other cases providing a minimal example of your workflow might also help, but in this case this might not be possible.
And could you provide us with screenshots about the settings in the data transfer nodes.