mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Nicola Soranzo
d1bc98dfcb
Remove some debugging prints. Fix import order. Consolidate exception logging in ToolShed database migrations.
40 lines
1.4 KiB
Python
40 lines
1.4 KiB
Python
from __future__ import print_function
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import logging
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import os.path
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import sys
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from ConfigParser import SafeConfigParser
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from migrate.versioning.shell import main
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sys.path.insert(1, os.path.abspath(os.path.join(os.path.dirname(__file__), os.pardir, 'lib')))
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from galaxy.model.orm.scripts import read_config_file_arg
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from galaxy.util.properties import load_app_properties
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log = logging.getLogger(__name__)
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config_file = read_config_file_arg(sys.argv, 'config/galaxy.ini', 'universe_wsgi.ini')
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if not os.path.exists(config_file):
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print("Galaxy config file does not exist (hint: use '-c config.ini' for non-standard locations): %s" % config_file)
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sys.exit(1)
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repo = 'lib/tool_shed/galaxy_install/migrate'
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properties = load_app_properties(config_file=config_file)
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cp = SafeConfigParser()
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cp.read(config_file)
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if config_file == 'config/galaxy.ini.sample' and 'GALAXY_TEST_DBURI' in os.environ:
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# Running functional tests.
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db_url = os.environ['GALAXY_TEST_DBURI']
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elif "install_database_connection" in properties:
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db_url = properties["install_database_connection"]
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elif "database_connection" in properties:
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db_url = properties["database_connection"]
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elif "database_file" in properties:
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db_url = "sqlite:///%s?isolation_level=IMMEDIATE" % properties["database_file"]
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else:
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db_url = "sqlite:///./database/universe.sqlite?isolation_level=IMMEDIATE"
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main(repository=repo, url=db_url)
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