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How to use nottest method in Nose
Best Python code snippet using nose
test_basic.py
Source:test_basic.py 
...22def nottest_unless(criteria):23 def _nottest_unless(f):24 if criteria:25 return f26 return nottest(f)27 return _nottest_unless28def nottest_if(criteria):29 def _nottest_if(f):30 if not criteria:31 return f32 return nottest(f)33 return _nottest_if34class EnumValuesMixin(object):35 @classmethod36 def setup_class(cls):37 cls.enum_values = set([v for v in Location])38 cls.app = QCoreApplication(sys.argv)39 cls.app.setApplicationName('Yksom')40 cls.app.setOrganizationName('uranusjr')41 configure(application_name='Yksom', organization_name='uranusjr')42 @classmethod43 def teardown_class(cls):44 # Make sure all locations are tested.45 eq_(cls.enum_values, set())46 def setUp(self):...
CordTestServer.py
Source:CordTestServer.py
1# Copyright 2017-present Open Networking Foundation2#3# Licensed under the Apache License, Version 2.0 (the "License");4# you may not use this file except in compliance with the License.5# You may obtain a copy of the License at6#7# http://www.apache.org/licenses/LICENSE-2.08#9# Unless required by applicable law or agreed to in writing, software10# distributed under the License is distributed on an "AS IS" BASIS,11# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.12# See the License for the specific language governing permissions and13# limitations under the License.14#15# Copyright 2016-present Ciena Corporation16#17# Licensed under the Apache License, Version 2.0 (the "License");18# you may not use this file except in compliance with the License.19# You may obtain a copy of the License at20#21# http://www.apache.org/licenses/LICENSE-2.022#23# Unless required by applicable law or agreed to in writing, software24# distributed under the License is distributed on an "AS IS" BASIS,25# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.26# See the License for the specific language governing permissions and27# limitations under the License.28#29from CordContainer import Container, Onos, OnosStopWrapper, OnosCord, OnosCordStopWrapper, Quagga, QuaggaStopWrapper, Radius, reinitContainerClients30from nose.tools import nottest31from SimpleXMLRPCServer import SimpleXMLRPCServer32from resource import getrlimit, RLIMIT_NOFILE33import daemon34import xmlrpclib35import os36import signal37import json38import time39import threading40##Server to handle container restart/stop requests from test container.41##Used now to restart ONOS from vrouter test container42CORD_TEST_HOST = '172.17.0.1'43CORD_TEST_PORT = 2500044class CordTestServer(object):45 onos_cord = None46 def __restart_onos(self, node = None, config = None, timeout = 10):47 if self.onos_cord:48 onos_config = '{}/network-cfg.json'.format(self.onos_cord.onos_config_dir)49 else:50 onos_config = '{}/network-cfg.json'.format(Onos.host_config_dir)51 if config is None:52 try:53 os.unlink(onos_config)54 except:55 pass56 print('Restarting ONOS')57 if self.onos_cord:58 self.onos_cord.start(restart = True, network_cfg = config)59 else:60 Onos.restart_node(node = node, network_cfg = config, timeout = timeout)61 return 'DONE'62 def restart_onos(self, kwargs):63 return self.__restart_onos(**kwargs)64 def __shutdown_onos(self, node = None):65 if node is None:66 node = Onos.NAME67 OnosStopWrapper(node)68 return 'DONE'69 def shutdown_onos(self, kwargs):70 return self.__shutdown_onos(**kwargs)71 def __restart_cluster(self, config = None, timeout = 10, setup = False):72 Onos.restart_cluster(network_cfg = config, timeout = timeout, setup = setup)73 return 'DONE'74 def restart_cluster(self, kwargs):75 return self.__restart_cluster(**kwargs)76 def __add_cluster_onos(self, count = 1, config = None):77 Onos.add_cluster(count = count, network_cfg = config)78 return 'DONE'79 def add_cluster_onos(self, kwargs):80 return self.__add_cluster_onos(**kwargs)81 def __restart_quagga(self, config = None, boot_delay = 30 ):82 config_file = Quagga.quagga_config_file83 if config is not None:84 quagga_config = '{}/testrib_gen.conf'.format(Quagga.host_quagga_config)85 config_file = '{}/testrib_gen.conf'.format(Quagga.guest_quagga_config)86 with open(quagga_config, 'w+') as fd:87 fd.write(str(config))88 print('Restarting QUAGGA with config file %s, delay %d' %(config_file, boot_delay))89 Quagga(prefix = Container.IMAGE_PREFIX, restart = True, config_file = config_file, boot_delay = boot_delay)90 return 'DONE'91 def restart_quagga(self, kwargs):92 return self.__restart_quagga(**kwargs)93 def stop_quagga(self):94 quaggaStop = QuaggaStopWrapper()95 time.sleep(5)96 try:97 quagga_config_gen = '{}/testrib_gen.conf'.format(Quagga.host_quagga_config)98 os.unlink(quagga_config_gen)99 except: pass100 return 'DONE'101 def __run_shell_quagga(self, cmd = None):102 ret = 0103 if cmd is not None:104 exec_cmd = 'docker exec {} {}'.format(Quagga.NAME, cmd)105 ret = os.system(exec_cmd)106 return ret107 def __run_shell(self, cmd = None):108 ret = 0109 if cmd is not None:110 ret = os.system(cmd)111 return ret112 def run_shell_quagga(self, kwargs):113 return self.__run_shell_quagga(**kwargs)114 def run_shell(self, kwargs):115 return self.__run_shell(**kwargs)116 def restart_radius(self):117 print('Restarting RADIUS Server')118 Radius(prefix = Container.IMAGE_PREFIX, restart = True)119 return 'DONE'120 def shutdown(self):121 print('Shutting down cord test server')122 os.kill(0, signal.SIGKILL)123 return 'DONE'124def find_files_by_path(*paths):125 wanted = []126 for p in paths:127 try:128 fd = os.open(p, os.O_RDONLY)129 wanted.append(os.fstat(fd)[1:3])130 finally:131 os.close(fd)132 def fd_wanted(fd):133 try:134 return os.fstat(fd)[1:3] in wanted135 except OSError:136 return False137 max_fd = getrlimit(RLIMIT_NOFILE)[1]138 return [ fd for fd in xrange(max_fd) if fd_wanted(fd) ]139@nottest140def cord_test_server_start(daemonize = True,141 cord_test_host = CORD_TEST_HOST,142 cord_test_port = CORD_TEST_PORT,143 onos_cord = None,144 foreground=False):145 server = SimpleXMLRPCServer( (cord_test_host, cord_test_port) )146 server.register_instance(CordTestServer())147 CordTestServer.onos_cord = onos_cord148 if daemonize is True:149 ##before daemonizing, preserve urandom needed by paramiko150 preserve_list = find_files_by_path('/dev/urandom')151 preserve_list.append(server)152 d = daemon.DaemonContext(files_preserve = preserve_list,153 detach_process = True)154 with d:155 reinitContainerClients()156 server.serve_forever()157 else:158 if foreground:159 try:160 server.serve_forever()161 except KeyboardInterrupt:162 return server163 else:164 task = threading.Thread(target = server.serve_forever)165 ##terminate when main thread exits166 task.daemon = True167 task.start()168 return server169@nottest170def cord_test_server_stop(server):171 server.shutdown()172 server.server_close()173@nottest174def get_cord_test_loc():175 host = os.getenv('CORD_TEST_HOST', CORD_TEST_HOST)176 port = int(os.getenv('CORD_TEST_PORT', CORD_TEST_PORT))177 return host, port178def rpc_server_instance():179 '''Stateless'''180 host, port = get_cord_test_loc()181 rpc_server = 'http://{}:{}'.format(host, port)182 return xmlrpclib.Server(rpc_server, allow_none = True)183@nottest184def __cord_test_onos_restart(**kwargs):185 return rpc_server_instance().restart_onos(kwargs)186@nottest187def cord_test_onos_restart(node = None, config = None, timeout = 10):188 '''Send ONOS restart to server'''189 for i in range(3):190 try:191 data = __cord_test_onos_restart(node = node, config = config, timeout = timeout)192 if data == 'DONE':193 return True194 except:195 time.sleep(2)196 return False197@nottest198def __cord_test_onos_shutdown(**kwargs):199 return rpc_server_instance().shutdown_onos(kwargs)200@nottest201def cord_test_onos_shutdown(node = None):202 data = __cord_test_onos_shutdown(node = node)203 if data == 'DONE':204 return True205 return False206@nottest207def __cord_test_restart_cluster(**kwargs):208 return rpc_server_instance().restart_cluster(kwargs)209@nottest210def cord_test_restart_cluster(config = None, timeout = 10, setup = False):211 for i in range(3):212 try:213 data = __cord_test_restart_cluster(config = config, timeout = timeout, setup = setup)214 if data == 'DONE':215 return True216 except:217 time.sleep(2)218 return False219@nottest220def __cord_test_onos_add_cluster(**kwargs):221 return rpc_server_instance().add_cluster_onos(kwargs)222@nottest223def cord_test_onos_add_cluster(count = 1, config = None):224 data = __cord_test_onos_add_cluster(count = count, config = config)225 if data == 'DONE':226 return True227 return False228@nottest229def __cord_test_quagga_restart(**kwargs):230 return rpc_server_instance().restart_quagga(kwargs)231@nottest232def cord_test_quagga_restart(config = None, boot_delay = 30):233 '''Send QUAGGA restart to server'''234 data = __cord_test_quagga_restart(config = config, boot_delay = boot_delay)235 if data == 'DONE':236 return True237 return False238@nottest239def __cord_test_quagga_shell(**kwargs):240 return rpc_server_instance().run_shell_quagga(kwargs)241@nottest242def cord_test_quagga_shell(cmd = None):243 '''Send QUAGGA shell cmd to server'''244 return __cord_test_quagga_shell(cmd = cmd)245@nottest246def __cord_test_shell(**kwargs):247 return rpc_server_instance().run_shell(kwargs)248@nottest249def cord_test_shell(cmd = None):250 '''Send shell cmd to run remotely'''251 return __cord_test_shell(cmd = cmd)252@nottest253def cord_test_quagga_stop():254 data = rpc_server_instance().stop_quagga()255 if data == 'DONE':256 return True257 return False258@nottest259def cord_test_radius_restart():260 '''Send Radius server restart to server'''261 data = rpc_server_instance().restart_radius()262 if data == 'DONE':263 return True264 return False265@nottest266def cord_test_server_shutdown(host, port):267 '''Shutdown the cord test server'''268 rpc_server = 'http://{}:{}'.format(host, port)269 try:270 xmlrpclib.Server(rpc_server, allow_none = True).shutdown()271 except: pass...
test_standard_stats.py
Source:test_standard_stats.py
1"""2Currently just running and making sure there's no uncaught exceptions.3TODO: check that the correct output is generated too4In future we should put this in a web-accessible place5Usage: pytest test_standard_stats.py6"""7import tempfile8import pytest9import toml10from pathlib import Path11from lama.tests import (wt_registration_dir, mut_registration_dir, target_dir,12 stats_output_dir)13from lama.stats.standard_stats import lama_stats_new14root_config = dict(15 stats_types=[16 'organ_volumes',17 'intensity',18 'jacobians'19 ],20 normalise_organ_vol_to_mask=True,21 use_log_jacobians = True,22 reg_folder='similarity',23 jac_folder='similarity',24 mask='mask_tight.nrrd',25 label_info='label_info.csv',26 label_map='labels.nrrd',27 blur_fwhm=100,28 voxel_size=14.0,29 invert_stats=True,30 normalise='mask',31 use_staging=True,32 memmap=True33)34@pytest.fixture()35def get_config() -> Path:36 """37 Fixture to get stats config and to write it to temporary file38 Returns39 -------40 location of stats config temporary file41 """42 def make_config(config_updates={}):43 # Create a nested function to allow the fixture to take arguments44 c = root_config.copy()45 c.update(config_updates)46 with tempfile.NamedTemporaryFile(mode='w+', delete=False, suffix='.toml') as fh:47 fh.write(toml.dumps(c))48 return c, fh.name49 return make_config50def test_all(get_config):51 """52 Run the stats module. The data required for this to work must be initially made53 by running the test: tests/test_data_generation.py54 """55 config, config_file = get_config()56 lama_stats_new.run(config_file, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)57@pytest.mark.skip58def test_no_mask(get_config):59 config, config_file = get_config({'mask': None})60 # Should get value errors if mask not specified61 # with pytest.raises(ValueError):62 # lama_stats_new.run(config_file, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)63# # @nottest64# # def test_no_use():65# # """66# # For the organ volume test, if the meta data dataframe has a column of 'no_analysis', do not include the label in the67# # analysis68# # """69# # pass70#71# @nottest72# def test_mutant_id_subset():73# """74# Thest whether specifying mutant id subset works75# """76#77# config = stats_config_dir / 'new_stats_config_test_mutant_id_subset.toml'78# lama_stats_new.run(config, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)79#80# @nottest81# def test_specifiy_line():82# """83# Run the stats module. The data requirted for this to work must be initially made84# by running the test: tests/test_lama.py:test_lama_job_runner()85# """86# line = 'mutant_1' # Only run this line87#88# # Remove any previous output89# if stats_output_dir.is_dir():90# shutil.rmtree(stats_output_dir)91#92# config = stats_config_dir / 'new_stats_config.toml'93# lama_stats_new.run(config, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir, lines_to_process=[line])94#95# output_lines = [x.name for x in stats_output_dir.iterdir() if x.is_dir()]96# assert_equal([line], output_lines)97#98#99# @nottest100# def test_erroneuos_configs():101# error_config_dir = stats_config_dir / 'erroneous_configs'102#103# for config in error_config_dir.iterdir():104# lama_stats_new.run(config, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)105#106# # @nottest107# # def test_organ_vols():108# # config = join(CONFIG_DIR, 'organ_vols.yaml')109# # run_lama_stats.run(config)110# #111# # @nottest112# # def test_glcm():113# # config = join(CONFIG_DIR, 'test_glcm.yaml')114# # run_lama_stats.run(config)115# #116# # @nottest117# # def test_from_arbitrary_directory():118# # config = join(CONFIG_DIR, 'all_specimens.yaml')119# # os.chdir(os.path.expanduser('~'))120# # run_lama_stats.run(config)121# #122# # @nottest123# # def test_missing_config():124# # config = join(CONFIG_DIR, 'all_specimens.flaml')125# # assert_raises(Exception, run_lama_stats.run, config)126# #127# # @nottest128# # def test_misc():129# # config = join(CONFIG_DIR, 'misc_test.yaml')130# # run_lama_stats.run(config)131# #132# #133# # @nottest134# # def test_incorrect_staging_file():135# # pass136#...
test_lama_stats.py
Source:test_lama_stats.py
1"""2Currently just running and making sure there's no uncaught exceptions.3TODO: check that the correct output is generated too4To run these tests, the test data needs to be fechted from bit/dev/lama_stats_test_data5In future we should put this in a web-accessible place6Usage: pytest -v -m "not notest"7"""8import shutil9import tempfile10from nose.tools import nottest, assert_equal11import toml12# import paths from the __init__13from . import (stats_config_dir, wt_registration_dir, mut_registration_dir, target_dir,14 stats_output_dir)15from lama.stats.standard_stats import lama_stats_new16root_config = dict(17 stats_types=[18 'organ_volumes'19 # 'intensity',20 # 'jacobians'21 ],22 reg_folder='similarity',23 jac_folder='similarity',24 mask='mask_tight.nrrd',25 label_info='label_info.csv',26 label_map='labels.nrrd',27 blur_fwhm=100,28 voxel_size=14.0,29 invert_stats=True,30 normalise='mask',31 use_staging=False,32)33# @nottest34def test_all():35 """36 Run the stats module. The data requirted for this to work must be initially made37 by running the test: tests/test_lama.py:test_lama_job_runner()38 """39 with tempfile.NamedTemporaryFile(mode='w+', delete=False) as fh:40 # print(fh.name)41 fh.write(toml.dumps(root_config))42 lama_stats_new.run(fh.name, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)43# @nottest44# def test_no_use():45# """46# For the organ volume test, if the meta data dataframe has a column of 'no_analysis', do not include the label in the47# analysis48# """49# pass50@nottest51def test_mutant_id_subset():52 """53 Thest whether specifying mutant id subset works54 """55 config = stats_config_dir / 'new_stats_config_test_mutant_id_subset.toml'56 lama_stats_new.run(config, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)57@nottest58def test_specifiy_line():59 """60 Run the stats module. The data requirted for this to work must be initially made61 by running the test: tests/test_lama.py:test_lama_job_runner()62 """63 line = 'mutant_1' # Only run this line64 # Remove any previous output65 if stats_output_dir.is_dir():66 shutil.rmtree(stats_output_dir)67 config = stats_config_dir / 'new_stats_config.toml'68 lama_stats_new.run(config, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir, lines_to_process=[line])69 output_lines = [x.name for x in stats_output_dir.iterdir() if x.is_dir()]70 assert_equal([line], output_lines)71@nottest72def test_erroneuos_configs():73 error_config_dir = stats_config_dir / 'erroneous_configs'74 for config in error_config_dir.iterdir():75 lama_stats_new.run(config, wt_registration_dir, mut_registration_dir, stats_output_dir, target_dir)76# @nottest77# def test_organ_vols():78# config = join(CONFIG_DIR, 'organ_vols.yaml')79# run_lama_stats.run(config)80#81# @nottest82# def test_glcm():83# config = join(CONFIG_DIR, 'test_glcm.yaml')84# run_lama_stats.run(config)85#86# @nottest87# def test_from_arbitrary_directory():88# config = join(CONFIG_DIR, 'all_specimens.yaml')89# os.chdir(os.path.expanduser('~'))90# run_lama_stats.run(config)91#92# @nottest93# def test_missing_config():94# config = join(CONFIG_DIR, 'all_specimens.flaml')95# assert_raises(Exception, run_lama_stats.run, config)96#97# @nottest98# def test_misc():99# config = join(CONFIG_DIR, 'misc_test.yaml')100# run_lama_stats.run(config)101#102#103# @nottest104# def test_incorrect_staging_file():105# pass106if __name__ == '__main__':...
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