Source code for galaxy.managers.configuration

Serializers for Galaxy config file data: ConfigSerializer for all users
and a more expanded set of data for admin in AdminConfigSerializer.

Used by both the API and bootstrapped data.
# TODO: this is a bit of an odd duck. It uses the serializer structure from managers
#   but doesn't have a model like them. It might be better in or a
#   totally new area, but I'm leaving it in managers for now for class consistency.
import logging
import sys

from galaxy.managers import base
from galaxy.web.framework.base import server_starttime

log = logging.getLogger(__name__)

[docs]class ConfigSerializer(base.ModelSerializer): """Configuration (galaxy.ini) settings viewable by all users"""
[docs] def __init__(self, app): super(ConfigSerializer, self).__init__(app) self.default_view = 'all' self.add_view('all', list(self.serializers.keys()))
[docs] def default_serializer(self, config, key): return getattr(config, key, None)
[docs] def add_serializers(self): def _defaults_to(default): return lambda item, key, **context: getattr(item, key, default) def _required_attribute(item, key, **context): assert hasattr(item, key) return getattr(item, key) self.serializers = { # TODO: this is available from user data, remove 'is_admin_user' : lambda *a, **c: False, 'brand' : _required_attribute, 'display_galaxy_brand' : _required_attribute, # TODO: this doesn't seem right 'logo_url' : lambda item, key, **context: self.url_for(item.get(key, '/')), 'logo_src' : lambda item, key, **context: self.url_for('/static/favicon.png'), 'terms_url' : _required_attribute, 'myexperiment_target_url' : _required_attribute, 'wiki_url' : _required_attribute, 'search_url' : _required_attribute, 'mailing_lists' : _defaults_to(, 'screencasts_url' : _required_attribute, 'citation_url' : _required_attribute, 'support_url' : _required_attribute, 'helpsite_url' : _required_attribute, 'lims_doc_url' : _defaults_to(""), 'default_locale' : _required_attribute, 'enable_openid' : _required_attribute, 'enable_communication_server' : _required_attribute, 'communication_server_port' : _required_attribute, 'communication_server_host' : _required_attribute, 'persistent_communication_rooms' : _required_attribute, 'allow_user_impersonation' : _required_attribute, 'allow_user_creation' : _defaults_to(False), # schema default is True 'use_remote_user' : _defaults_to(None), # schema default is False; or config.single_user 'enable_oidc' : _required_attribute, 'oidc' : _required_attribute, 'enable_quotas' : _required_attribute, 'remote_user_logout_href' : _required_attribute, 'datatypes_disable_auto' : _required_attribute, 'allow_user_dataset_purge' : _defaults_to(False), # schema default is True 'ga_code' : _required_attribute, 'enable_unique_workflow_defaults' : _required_attribute, 'enable_beta_markdown_export' : _required_attribute, 'has_user_tool_filters' : _defaults_to(False), # TODO: is there no 'correct' way to get an api url? controller='api', action='tools' is a hack # at any rate: the following works with path_prefix but is still brittle # TODO: change this to (more generic) upload_path and incorporate config.nginx_upload_path into building it 'nginx_upload_path' : lambda item, key, **context: getattr(item, key, False), 'chunk_upload_size' : _required_attribute, 'ftp_upload_site' : _required_attribute, 'version_major' : _defaults_to(None), 'require_login' : _required_attribute, 'inactivity_box_content' : _required_attribute, 'visualizations_visible' : _required_attribute, 'interactivetools_enable' : _required_attribute, 'message_box_content' : _required_attribute, 'message_box_visible' : _required_attribute, 'message_box_class' : _required_attribute, 'server_startttime' : lambda item, key, **context: server_starttime, 'mailing_join_addr' : _defaults_to(''), # should this be the schema default? 'server_mail_configured' : lambda item, key, **context: bool(getattr(item, 'smtp_server')), 'registration_warning_message' : _required_attribute, 'welcome_url' : _required_attribute, 'show_welcome_with_login' : _defaults_to(True), # schema default is False 'cookie_domain' : _required_attribute, 'python' : _defaults_to((sys.version_info.major, sys.version_info.minor)), 'select_type_workflow_threshold' : _required_attribute, }
[docs]class AdminConfigSerializer(ConfigSerializer): """Configuration attributes viewable only by admin users"""
[docs] def add_serializers(self): super(AdminConfigSerializer, self).add_serializers() def _defaults_to(default): return lambda item, key, **context: getattr(item, key, default) self.serializers.update({ # TODO: this is available from user serialization: remove 'is_admin_user' : lambda *a: True, 'library_import_dir' : _defaults_to(None), 'user_library_import_dir' : _defaults_to(None), 'allow_library_path_paste' : _defaults_to(False), 'allow_user_deletion' : _defaults_to(False), })