def setUp(self):
proj_name = u"dxclient_test_pröject"
self.project = dxpy.api.project_new({"name": proj_name})['id']
os.environ["DX_PROJECT_CONTEXT_ID"] = self.project
subprocess.check_call(u"dx cd "+self.project+":/", shell=True)
dxpy._initialize(suppress_warning=True)
if 'DX_CLI_WD' in os.environ:
del os.environ['DX_CLI_WD']
def setUp(self):
proj_name = u"dxclient_test_pröject"
self.project = subprocess.check_output(u"dx new project '{p}' --brief".format(p=proj_name), shell=True).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = self.project
subprocess.check_call(u"dx cd " + self.project + ":/", shell=True)
dxpy._initialize(suppress_warning=True)
if "DX_CLI_WD" in os.environ:
del os.environ["DX_CLI_WD"]
def setUp(self):
proj_name = u"dxclient_test_pröject"
# Unplug stdin so that dx doesn't prompt user for input at the tty
self.project = subprocess.check_output(u"dx new project '{p}' --brief".format(p=proj_name), shell=True, stdin=subprocess.PIPE).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = self.project
subprocess.check_call(u"dx cd "+self.project+":/", shell=True)
dxpy._initialize(suppress_warning=True)
if 'DX_CLI_WD' in os.environ:
del os.environ['DX_CLI_WD']
def setUp(self):
proj_name = u"dxclient_test_pröject"
self.project = subprocess.check_output(
u"dx new project '{p}' --brief".format(p=proj_name),
shell=True).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = self.project
subprocess.check_call(u"dx cd " + self.project + ":/", shell=True)
dxpy._initialize(suppress_warning=True)
if 'DX_CLI_WD' in os.environ:
del os.environ['DX_CLI_WD']
def setUp(self):
proj_name = u"dxclient_test_pröject"
self.project = subprocess.check_output(u"dx new project '{p}' --brief".format(p=proj_name), shell=True).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = self.project
# TODO: Fix this once process-wise sessions are in place. For
# now, have to save the old current directory and overwrite
# the file.
if os.path.exists(os.path.expanduser('~/.dnanexus_config/DX_CLI_WD')):
with open(os.path.expanduser('~/.dnanexus_config/DX_CLI_WD')) as fd:
self.old_cwd = fd.read()
os.remove(os.path.expanduser('~/.dnanexus_config/DX_CLI_WD'))
else:
self.old_cwd = None
if 'DX_CLI_WD' in os.environ:
del os.environ['DX_CLI_WD']
dxpy._initialize(suppress_warning=True)
def setUpClass(cls):
if 'DXTEST_FUSE' not in os.environ:
return
proj_name = u"dxclient_test_pröject"
cls.project_id = subprocess.check_output(u"dx new project '{p}' --brief".format(p=proj_name), shell=True).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = cls.project_id
os.environ["DX_CLI_WD"] = '/'
cls.project = dxpy.DXProject(cls.project_id)
dxpy._initialize(suppress_warning=True)
subprocess.check_call(['dx', 'mkdir', 'foo'])
subprocess.check_call(['dx', 'mkdir', 'bar'])
dxpy.upload_local_file(__file__, wait_on_close=True)
dxpy.new_dxrecord(name="A/B testing")
cls.mountpoint = tempfile.mkdtemp()
# TODO: redirect logs to someplace in case we need to debug
# problems in these tests
subprocess.check_call(['dx-mount', cls.mountpoint])
def setUpClass(cls):
if 'DXTEST_FUSE' not in os.environ:
return
proj_name = u"dxclient_test_pröject"
cls.project_id = subprocess.check_output(u"dx new project '{p}' --brief".format(p=proj_name), shell=True).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = cls.project_id
os.environ["DX_CLI_WD"] = '/'
cls.project = dxpy.DXProject(cls.project_id)
dxpy._initialize(suppress_warning=True)
subprocess.check_call(['dx', 'mkdir', 'foo'])
subprocess.check_call(['dx', 'mkdir', 'bar'])
dxpy.upload_local_file(__file__, wait_on_close=True)
cls.mountpoint = tempfile.mkdtemp()
args = ['dx-mount', cls.mountpoint, '--foreground']
args.append('--debug')
cls.fuse_driver = subprocess.Popen(args)
time.sleep(1)
assert(cls.fuse_driver.poll() == None)
def set_env_from_args(args):
''' Sets the environment variables for this process from arguments (argparse.Namespace)
and calls dxpy._initialize() to reset any values that it has already set.
'''
args = vars(args)
require_initialize = False
if args.get('apiserver_host') is not None:
os.environ['DX_APISERVER_HOST'] = args['apiserver_host']
require_initialize = True
if args.get('apiserver_port') is not None:
os.environ['DX_APISERVER_PORT'] = args['apiserver_port']
require_initialize = True
if args.get('apiserver_protocol') is not None:
os.environ['DX_APISERVER_PROTOCOL'] = args['apiserver_protocol']
require_initialize = True
if args.get('project_context_id') is not None:
os.environ['DX_PROJECT_CONTEXT_ID'] = args['project_context_id']
require_initialize = True
if args.get('workspace_id') is not None:
os.environ['DX_WORKSPACE_ID'] = args['workspace_id']
require_initialize = True
if args.get('cli_wd') is not None:
os.environ['DX_CLI_WD'] = args['cli_wd']
require_initialize = True
if args.get('security_context') is not None:
os.environ['DX_SECURITY_CONTEXT'] = args['security_context']
require_initialize = True
if args.get('auth_token') is not None:
os.environ['DX_SECURITY_CONTEXT'] = json.dumps({
"auth_token":
args['auth_token'],
"auth_token_type":
"Bearer"
})
require_initialize = True
if require_initialize:
from dxpy import _initialize
_initialize(suppress_warning=True)
def setUpClass(cls):
if 'DXTEST_FUSE' not in os.environ:
return
proj_name = u"dxclient_test_pröject"
cls.project_id = subprocess.check_output(
u"dx new project '{p}' --brief".format(p=proj_name),
shell=True).strip()
os.environ["DX_PROJECT_CONTEXT_ID"] = cls.project_id
os.environ["DX_CLI_WD"] = '/'
cls.project = dxpy.DXProject(cls.project_id)
dxpy._initialize(suppress_warning=True)
subprocess.check_call(['dx', 'mkdir', 'foo'])
subprocess.check_call(['dx', 'mkdir', 'bar'])
dxpy.upload_local_file(__file__, wait_on_close=True)
cls.mountpoint = tempfile.mkdtemp()
args = ['dx-mount', cls.mountpoint, '--foreground']
args.append('--debug')
cls.fuse_driver = subprocess.Popen(args)
time.sleep(1)
assert (cls.fuse_driver.poll() == None)
def set_env_from_args(args):
''' Sets the environment variables for this process from arguments (argparse.Namespace)
and calls dxpy._initialize() to reset any values that it has already set.
'''
args = vars(args)
require_initialize = False
if args.get('apiserver_host') is not None:
os.environ['DX_APISERVER_HOST'] = args['apiserver_host']
require_initialize = True
if args.get('apiserver_port') is not None:
os.environ['DX_APISERVER_PORT'] = args['apiserver_port']
require_initialize = True
if args.get('apiserver_protocol') is not None:
os.environ['DX_APISERVER_PROTOCOL'] = args['apiserver_protocol']
require_initialize = True
if args.get('project_context_id') is not None:
os.environ['DX_PROJECT_CONTEXT_ID'] = args['project_context_id']
require_initialize = True
if args.get('workspace_id') is not None:
os.environ['DX_WORKSPACE_ID'] = args['workspace_id']
require_initialize = True
if args.get('cli_wd') is not None:
os.environ['DX_CLI_WD'] = args['cli_wd']
require_initialize = True
if args.get('security_context') is not None:
os.environ['DX_SECURITY_CONTEXT'] = args['security_context']
require_initialize = True
if args.get('auth_token') is not None:
os.environ['DX_SECURITY_CONTEXT'] = json.dumps({"auth_token": args['auth_token'],
"auth_token_type": "Bearer"})
require_initialize = True
if require_initialize:
from dxpy import _initialize
_initialize(suppress_warning=True)