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This pull request contains bug fixes to bugs observed within release 0.7.1. The patch version of this code base was increased, now 0.7.2.
Bug fixes:
moalmanac.py
would attempt to access the value "preclinical" in the preclinical_db_paths dictionary, even if no .ini file was provided using the--preclinical-dbs
argument.Revisions:
annotation-databases.ini
andpreclinical-databases.ini
were named topaths
.logging
section ofconfig.ini
to reference the logging module documentation on docs.python.org.run_example.py
andmoalmanac.py
were both refactored with the order of how config_ini, dbs, and preclinical_dbs are set up before executing the main function. Instead of defining paths all at once and then importing each of them, each is processed on its own before moving to the next.logger.py
andmoalmanac.py
, involving new line breaks or spacing.Pre-pull request check list,