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galaxy.model.orm package¶
galaxy.model.orm - ORM-related functionality
Submodules¶
galaxy.model.orm.engine_factory module¶
galaxy.model.orm.logging_connection_proxy module¶
galaxy.model.orm.now module¶
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galaxy.model.orm.now.
now
()¶ Return a new datetime representing UTC day and time.
galaxy.model.orm.scripts module¶
Code to support database helper scripts (create_db.py, manage_db.py, etc…).
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galaxy.model.orm.scripts.
get_config
(argv, use_argparse=True, cwd=None)[source]¶ Read sys.argv and parse out repository of migrations and database url.
>>> import os >>> from six.moves.configparser import SafeConfigParser >>> from shutil import rmtree >>> from tempfile import mkdtemp >>> config_dir = mkdtemp() >>> os.makedirs(os.path.join(config_dir, 'config')) >>> def write_ini(path, property, value): ... p = SafeConfigParser() ... p.add_section('app:main') ... p.set('app:main', property, value) ... with open(os.path.join(config_dir, 'config', path), 'w') as f: p.write(f) >>> write_ini('tool_shed.ini', 'database_connection', 'sqlite:///pg/testdb1') >>> config = get_config(['manage_db.py', 'tool_shed'], cwd=config_dir) >>> config['repo'] 'lib/galaxy/webapps/tool_shed/model/migrate' >>> config['db_url'] 'sqlite:///pg/testdb1' >>> write_ini('galaxy.ini', 'database_file', 'moo.sqlite') >>> config = get_config(['manage_db.py'], cwd=config_dir) >>> config['db_url'] 'sqlite:///moo.sqlite?isolation_level=IMMEDIATE' >>> config['repo'] 'lib/galaxy/model/migrate' >>> rmtree(config_dir)