rnacentral_pipeline\rnacentral\r2dt\parser.py broad-exception-caught

Catching Exception might hide unexpected exceptions (e.g., due to new code that will be added).

The method parse calls R2DTResultInfo.validate (in line 96).Validate is a sequence of assertions, hence the specific AssertionError can be used instead.

See
https://stackoverflow.com/questions/1569049/making-pythons-assert-throw-an-exception-that-i-choose

Author: evidencebp

rnacentral_pipeline/rnacentral/r2dt/parser.py

@@ -94,7 +94,7 @@ def parse(
 
             try:
                 info.validate()
-            except Exception as e:
+            except AssertionError as e:
                 if allow_missing:
                     LOGGER.warn("Did not find all required files for %s", urs)
                     LOGGER.exception(e)