def get_app_kwds(cls, config_section, app_name=None):
kwds = {
'config_file': None,
'config_section': config_section,
}
uwsgi_opt = uwsgi.opt
config_file = None
# check for --set galaxy_config_file=<path>, this overrides whatever config file uWSGI was loaded with (which
# may not actually include a Galaxy config)
if uwsgi_opt.get("galaxy_config_file"):
config_file = uwsgi_opt.get("galaxy_config_file")
# check for --yaml or --json uWSGI config options next
if config_file is None:
config_file = (UWSGIApplicationStack._get_config_file(uwsgi_opt.get("yaml"), yaml.safe_load, config_section)
or UWSGIApplicationStack._get_config_file(uwsgi_opt.get("json"), json.load, config_section))
# --ini and --ini-paste don't behave the same way, but this method will only be called by mules if the main
# application was loaded with --ini-paste, so we can make some assumptions, most notably, uWSGI does not have
# any way to set the app name when loading with paste.deploy:loadapp(), so hardcoding the alternate section
# name to `app:main` is fine.
has_ini_config = config_file is None and uwsgi_opt.get("ini") or uwsgi_opt.get("ini-paste")
has_ini_config = has_ini_config or (config_file and has_ext(config_file, "ini", aliases=True, ignore="sample"))
if has_ini_config:
config_file = config_file or uwsgi_opt.get("ini") or uwsgi_opt.get("ini-paste")
parser = nice_config_parser(config_file)
if not parser.has_section(config_section) and parser.has_section('app:main'):
kwds['config_section'] = 'app:main'
kwds['config_file'] = unicodify(config_file)
return kwds
def get_app_kwds(cls, config_section, app_name=None):
kwds = {
'config_file': None,
'config_section': config_section,
}
uwsgi_opt = uwsgi.opt
config_file = None
# check for --set galaxy_config_file=<path>, this overrides whatever config file uWSGI was loaded with (which
# may not actually include a Galaxy config)
if uwsgi_opt.get("galaxy_config_file"):
config_file = uwsgi_opt.get("galaxy_config_file")
# check for --yaml or --json uWSGI config options next
if config_file is None:
config_file = (UWSGIApplicationStack._get_config_file(uwsgi_opt.get("yaml"), yaml.safe_load, config_section)
or UWSGIApplicationStack._get_config_file(uwsgi_opt.get("json"), json.load, config_section))
# --ini and --ini-paste don't behave the same way, but this method will only be called by mules if the main
# application was loaded with --ini-paste, so we can make some assumptions, most notably, uWSGI does not have
# any way to set the app name when loading with paste.deploy:loadapp(), so hardcoding the alternate section
# name to `app:main` is fine.
has_ini_config = config_file is None and uwsgi_opt.get("ini") or uwsgi_opt.get("ini-paste")
has_ini_config = has_ini_config or (config_file and has_ext(config_file, "ini", aliases=True, ignore="sample"))
if has_ini_config:
config_file = config_file or uwsgi_opt.get("ini") or uwsgi_opt.get("ini-paste")
parser = nice_config_parser(config_file)
if not parser.has_section(config_section) and parser.has_section('app:main'):
kwds['config_section'] = 'app:main'
kwds['config_file'] = config_file
return kwds
def read_properties_from_file(config_file, config_section=None):
properties = {}
if has_ext(config_file, 'yaml', aliases=True, ignore='sample'):
if config_section is None:
config_section = "galaxy"
properties.update(__default_properties(config_file))
raw_properties = _read_from_yaml_file(config_file)
if raw_properties:
properties.update(raw_properties.get(config_section) or {})
elif has_ext(config_file, 'ini', aliases=True, ignore='sample'):
if config_section is None:
config_section = "app:main"
parser = nice_config_parser(config_file) # default properties loaded w/parser
if parser.has_section(config_section):
properties.update(dict(parser.items(config_section)))
else:
properties.update(parser.defaults())
else:
raise InvalidFileFormatError()
return properties
def load_app_properties(
kwds={},
ini_file=None,
ini_section=None,
config_file=None,
config_section=None,
config_prefix="GALAXY_CONFIG_"
):
properties = kwds.copy() if kwds else {}
if config_file is None:
config_file = ini_file
config_section = ini_section
if config_file:
if not has_ext(config_file, 'yaml', aliases=True, ignore='sample'):
if config_section is None:
config_section = "app:main"
parser = nice_config_parser(config_file)
if parser.has_section(config_section):
properties.update(dict(parser.items(config_section)))
else:
properties.update(parser.defaults())
else:
if config_section is None:
config_section = "galaxy"
with open(config_file, "r") as f:
raw_properties = yaml.safe_load(f)
properties = __default_properties(config_file)
properties.update(raw_properties.get(config_section) or {})
override_prefix = "%sOVERRIDE_" % config_prefix
for key in os.environ:
if key.startswith(override_prefix):
config_key = key[len(override_prefix):].lower()
properties[config_key] = os.environ[key]
elif key.startswith(config_prefix):
config_key = key[len(config_prefix):].lower()
if config_key not in properties:
properties[config_key] = os.environ[key]
return properties
def load_app_properties(kwds={},
ini_file=None,
ini_section=None,
config_file=None,
config_section=None,
config_prefix="GALAXY_CONFIG_"):
properties = kwds.copy() if kwds else {}
if config_file is None:
config_file = ini_file
config_section = ini_section
if config_file:
if not has_ext(config_file, 'yaml', aliases=True, ignore='sample'):
if config_section is None:
config_section = "app:main"
parser = nice_config_parser(config_file)
if parser.has_section(config_section):
properties.update(dict(parser.items(config_section)))
else:
properties.update(parser.defaults())
else:
if config_section is None:
config_section = "galaxy"
with open(config_file, "r") as f:
raw_properties = yaml.safe_load(f)
properties = __default_properties(config_file)
properties.update(raw_properties.get(config_section) or {})
override_prefix = "%sOVERRIDE_" % config_prefix
for key in os.environ:
if key.startswith(override_prefix):
config_key = key[len(override_prefix):].lower()
properties[config_key] = os.environ[key]
elif key.startswith(config_prefix):
config_key = key[len(config_prefix):].lower()
if config_key not in properties:
properties[config_key] = os.environ[key]
return properties