def guess_shed_config(self, app):
tool_ids = []
for tool in self.metadata.get('tools', []):
tool_ids.append(tool.get('guid'))
for shed_tool_conf_dict in app.toolbox.dynamic_confs(include_migrated_tool_conf=True):
name = shed_tool_conf_dict['config_filename']
for elem in shed_tool_conf_dict['config_elems']:
if elem.tag == 'tool':
for sub_elem in elem.findall('id'):
tool_id = sub_elem.text.strip()
if tool_id in tool_ids:
self.shed_config_filename = name
return shed_tool_conf_dict
elif elem.tag == "section":
for tool_elem in elem.findall('tool'):
for sub_elem in tool_elem.findall('id'):
tool_id = sub_elem.text.strip()
if tool_id in tool_ids:
self.shed_config_filename = name
return shed_tool_conf_dict
# We need to search by file paths here, which is less desirable.
tool_shed = common_util.remove_protocol_and_port_from_tool_shed_url(self.tool_shed)
for shed_tool_conf_dict in app.toolbox.dynamic_confs(include_migrated_tool_conf=True):
tool_path = shed_tool_conf_dict['tool_path']
relative_path = os.path.join(tool_path, tool_shed, 'repos', self.owner, self.name)
if os.path.exists(relative_path):
self.shed_config_filename = shed_tool_conf_dict['config_filename']
return shed_tool_conf_dict
# Very last resort, get default shed_tool_config file for this instance
shed_tool_conf_dict = app.toolbox.default_shed_tool_conf_dict()
self.shed_config_filename = shed_tool_conf_dict['config_filename']
return shed_tool_conf_dict
def repo_path(self, app):
tool_shed = common_util.remove_protocol_and_port_from_tool_shed_url(self.tool_shed)
for shed_tool_conf_dict in app.toolbox.dynamic_confs(include_migrated_tool_conf=True):
tool_path = shed_tool_conf_dict['tool_path']
relative_path = os.path.join(tool_path, tool_shed, 'repos', self.owner, self.name, self.installed_changeset_revision)
if os.path.exists(relative_path):
return relative_path
return None
