def _delete_entity_type_data(args):
if args.force or (not args.force and mcmd.io.ask.confirm(
'Are you sure you want to delete all data in entity type {}?'.
format(args.resource))):
io.start('Deleting all data from entity {}'.format(
highlight(args.resource)))
client.delete(api.rest1(args.resource))
def set_(args):
"""
set sets the specified row of the specified table (or setting of specified settings table) to the specified value
:param args: command line arguments containing: the settings type, the setting to set, and the value to set it to,
if not a setting also the --for (which row to alter)
if --from-path or --from-resource is passed the value is assumed to be a file containing the value data to be set
:return: None
"""
value = args.value
value_desc = highlight(value)
if args.from_path:
path = Path(args.value)
value = files.read_file(path)
value_desc = 'contents of {}'.format(highlight(args.value))
elif args.from_resource:
path = files.select_file_from_folders(context().get_resource_folders(),
args.value)
value = files.read_file(path)
value_desc = 'contents of {}'.format(highlight(args.value))
if args.for_:
entity = args.type
row = args.for_
io.start('Updating {} of {} for id {} to {}'.format(
highlight(args.attribute), highlight(args.type),
highlight(args.for_), value_desc))
else:
entity = _get_settings_entity(args.type)
io.start('Updating {} of {} settings to {}'.format(
highlight(args.attribute), highlight(args.type), value_desc))
row = _get_first_row_id(entity)
url = api.rest1('{}/{}/{}'.format(entity, row, args.attribute))
put(url, json.dumps(value))
def add_package(args):
io.start('Adding package %s' % highlight(args.id))
data = {'id': args.id, 'label': args.id}
if args.parent:
data['parent'] = args.parent
post(api.rest1('sys_md_Package'), data=data)
def add_token(args):
io.start('Adding token %s for user %s' %
(highlight(args.token), highlight(args.user)))
user = get(api.rest2('sys_sec_User'),
params={
'attrs': 'id',
'q': 'username=={}'.format(args.user)
})
if user.json()['total'] == 0:
raise McmdError('Unknown user %s' % args.user)
user_id = user.json()['items'][0]['id']
data = {'User': user_id, 'token': args.token}
post(api.rest1('sys_sec_Token'), data=data)
def add_user(args):
io.start('Adding user %s' % highlight(args.username))
password = args.set_password if args.set_password else args.username
email = args.with_email if args.with_email else args.username + '@molgenis.org'
active = not args.is_inactive
superuser = args.is_superuser
ch_pwd = args.change_password
post(api.rest1('sys_sec_User'),
data={
'username': args.username,
'password_': password,
'changePassword': ch_pwd,
'Email': email,
'active': active,
'superuser': superuser
})
def set_(args):
"""
set sets the specified row of the specified table (or setting of specified settings table) to the specified value
:param args: command line arguments containing: the settings type, the setting to set, and the value to set it to,
if not a setting also the --for (which row to alter)
:return: None
"""
if args.for_:
entity = args.type
row = args.for_
io.start('Updating {} of {} for id {} to {}'.format(
highlight(args.attribute), highlight(args.type),
highlight(args.for_), highlight(args.value)))
else:
entity = _get_settings_entity(args.type)
io.start('Updating {} of {} settings to {}'.format(
highlight(args.attribute), highlight(args.type),
highlight(args.value)))
row = _get_first_row_id(entity)
url = api.rest1('{}/{}/{}'.format(entity, row, args.attribute))
put(url, json.dumps(args.value))
def disable_language(args):
io.start('Disabling language {}'.format(highlight(args.language)))
url = api.rest1('sys_Language/{}/active'.format(args.language))
put(url, 'false')