charite/jannovar — pull request #7 by buske (2014-08-19 20:38:13+00:00)
Title: Improved exception handling and reporting

If any variant caused an exception other than AnnotationException, all of Jannovar would crash. I added a catch block to report variants that cause errors, and continue processing the remaining variants.

Additionally, it is customary to print logging information to stderr/System.err, instead of stdout/System.out, so I switched the relevant prints in Jannovar.java.