Commenting out FileProcessor but not corresponding ReferenceCreator terminates program

[cookersjs]

If you are trying to run specific AddLinks modules by commenting out portions of the context file, its possible to cause a premature termination of the program.

For example, in release 72 I meant to run everything except for HMDB processing/insertion, as they were going to be run separately. I had commented out the HMDBMetabolites and HMDBProteins File Processors, but I only commented out one of the two HMDB ReferencesCreators, mistakenly leaving one to be executed. When it came time to do that reference creation, the program terminated, likely due to a NullPointerException. Guarding for this, by either doing a check that any active FileProcessors/ReferenceCreators have their corresponding context active or just by outputting a warning message and continuing with the process would be good.