bel2rdf: a more "graceful" way to fail?

[juliakozlovsky]

At the moment, when bel2rdf conversion fails, it stops processing. So, for example, if it's converting a file of a 100 BEL statements and the first statement has issues, the remaining 99 won't get converted either. I think it would be considerably more useful, if the code could go one statement at a time, converting the "good" statements to RDF and writing the "bad" ones into an error/log file.

[abargnesi]

Thanks for reporting!

This result is due to the existing BEL parser not recovering from recognition errors. I opened #39 to handle short-term changes to the ruby BEL parser to capture recognition errors.

Longer-term #22 will provide a line-based, C parser with more accurate errors.

[abargnesi]

This will need to be addressed after #122 is complete.