""" Creates the initial galaxy database schema using the settings defined in config/galaxy.ini. This script is also wrapped by create_db.sh. .. note: pass '-c /location/to/your_config.ini' for non-standard ini file locations. .. note: if no database_connection is set in galaxy.ini, the default, sqlite database will be constructed. Using the database_file setting in galaxy.ini will create the file at the settings location (??) .. seealso: galaxy.ini, specifically the settings: database_connection and database file """ import sys import os.path new_path = [ os.path.join( os.getcwd(), "lib" ) ] new_path.extend( sys.path[1:] ) # remove scripts/ from the path sys.path = new_path from galaxy.model.orm.scripts import get_config from galaxy.model.migrate.check import create_or_verify_database as create_db from galaxy.model.tool_shed_install.migrate.check import create_or_verify_database as create_install_db from galaxy.webapps.tool_shed.model.migrate.check import create_or_verify_database as create_tool_shed_db def invoke_create(): config = get_config(sys.argv) if config['database'] == 'galaxy': create_db(config['db_url'], config['config_file']) elif config['database'] == 'tool_shed': create_tool_shed_db(config['db_url']) elif config['database'] == 'install': create_install_db(config['db_url']) if __name__ == "__main__": invoke_create()