def _init_civis_backend(self):
"""init the Civis API client and the executors"""
self.using_template = (self.from_template_id is not None)
if self.max_submit_retries < 0:
raise ValueError(
"max_submit_retries cannot be negative (value = %d)" %
self.max_submit_retries)
self.client = self.client or civis.APIClient()
if self.from_template_id:
self.executor = CustomScriptExecutor(self.from_template_id,
client=self.client,
**self.executor_kwargs)
else:
self.executor = _ContainerShellExecutor(client=self.client,
**self.executor_kwargs)
def __init__(self,
setup_cmd=_DEFAULT_SETUP_CMD,
from_template_id=None,
max_submit_retries=0,
client=None,
**executor_kwargs):
if max_submit_retries < 0:
raise ValueError(
"max_submit_retries cannot be negative (value = %d)" %
max_submit_retries)
if client is None:
client = civis.APIClient(resources='all')
self._client = client
if from_template_id:
self.executor = CustomScriptExecutor(from_template_id,
client=client,
**executor_kwargs)
else:
self.executor = _ContainerShellExecutor(client=client,
**executor_kwargs)
self.setup_cmd = setup_cmd
self.max_submit_retries = max_submit_retries
self.using_template = (from_template_id is not None)
def _check_executor(from_template_id=None):
job_id, run_id = 42, 43
c = _setup_client_mock(job_id, run_id, n_failures=0)
mock_run = c.scripts.post_containers_runs()
if from_template_id:
bpe = CustomScriptExecutor(from_template_id=from_template_id,
client=c,
polling_interval=0.01)
future = bpe.submit(my_param='spam')
else:
bpe = _ContainerShellExecutor(client=c, polling_interval=0.01)
future = bpe.submit("foo")
# Mock and test running, future.job_id, and done()
mock_run.state = "running"
assert future.running(), "future is incorrectly marked as not running"
assert future.job_id == job_id, "job_id not stored properly"
assert not future.done(), "future is incorrectly marked as done"
future.cancel()
# Mock and test cancelled()
assert future.cancelled(), "cancelled() did not return True as expected"
assert not future.running(), "running() did not return False as expected"
# Mock and test done()
mock_run.state = "succeeded"
assert future.done(), "done() did not return True as expected"
# Test cancelling all jobs.
mock_run.state = "running"
bpe.cancel_all()
assert future.cancelled(), "cancel_all() failed"
# Test shutdown method.
bpe.shutdown(wait=True)
assert future.done(), "shutdown() failed"
return c
class _CivisBackend(ParallelBackendBase):
"""The backend class that tells joblib how to use Civis to run jobs
Users should interact with this through ``make_backend_factory``.
"""
uses_threads = False
supports_sharedmem = False
supports_timeout = True
def __init__(self,
setup_cmd=_DEFAULT_SETUP_CMD,
from_template_id=None,
max_submit_retries=0,
client=None,
remote_backend='sequential',
nesting_level=0,
**executor_kwargs):
self.setup_cmd = setup_cmd
self.from_template_id = from_template_id
self.max_submit_retries = max_submit_retries
self.client = client
self.remote_backend = remote_backend
self.executor_kwargs = executor_kwargs
self.nesting_level = nesting_level
self._init_civis_backend()
@classmethod
def from_existing(cls, klass):
"""Build a new `_CivisBackend` from an existing one."""
return cls(setup_cmd=klass.setup_cmd,
from_template_id=klass.from_template_id,
max_submit_retries=klass.max_submit_retries,
client=klass.client,
remote_backend=klass.remote_backend,
**klass.executor_kwargs)
def _init_civis_backend(self):
"""init the Civis API client and the executors"""
self.using_template = (self.from_template_id is not None)
if self.max_submit_retries < 0:
raise ValueError(
"max_submit_retries cannot be negative (value = %d)" %
self.max_submit_retries)
self.client = self.client or civis.APIClient()
if self.from_template_id:
self.executor = CustomScriptExecutor(self.from_template_id,
client=self.client,
**self.executor_kwargs)
else:
self.executor = _ContainerShellExecutor(client=self.client,
**self.executor_kwargs)
def effective_n_jobs(self, n_jobs):
if n_jobs == -1:
n_jobs = _ALL_JOBS
if n_jobs <= 0:
raise ValueError("Please request a positive number of jobs, "
"or use \"-1\" to request a default "
"of {} jobs.".format(_ALL_JOBS))
return n_jobs
def abort_everything(self, ensure_ready=True):
# This method is called when a job has raised an exception.
# In that case, we're not going to finish computations, so
# we should free up Platform resources in any remaining jobs.
self.executor.cancel_all()
if not ensure_ready:
self.executor.shutdown(wait=False)
def terminate(self):
"""Shutdown the workers and free the shared memory."""
return self.abort_everything(ensure_ready=True)
def apply_async(self, func, callback=None):
"""Schedule func to be run
"""
# Serialize func to a temporary file and upload it to a Civis File.
# Make the temporary files expire in a week.
expires_at = (datetime.now() + timedelta(days=7)).isoformat()
with TemporaryDirectory() as tempdir:
temppath = os.path.join(tempdir, "civis_joblib_backend_func")
with open(temppath, "wb") as tmpfile:
cloudpickle.dump((func, self if self.remote_backend == 'civis'
else self.remote_backend), tmpfile,
pickle.HIGHEST_PROTOCOL)
with open(temppath, "rb") as tmpfile:
func_file_id = \
_robust_file_to_civis(tmpfile,
"civis_joblib_backend_func",
n_retries=5,
delay=0.5,
expires_at=expires_at,
client=self.client)
log.debug("uploaded serialized function to File: %d",
func_file_id)
# Use the Civis CLI client to download the job runner script into
# the container, and then run it on the uploaded job.
# Only download the runner script if it doesn't already
# exist in the destination environment.
runner_remote_path = "civis_joblib_worker"
cmd = ("{setup_cmd} && "
"if command -v {runner_remote_path} >/dev/null; "
"then exec {runner_remote_path} {func_file_id}; "
"else pip install civis=={civis_version} && "
"exec {runner_remote_path} {func_file_id}; fi ".format(
civis_version=civis.__version__,
runner_remote_path=runner_remote_path,
func_file_id=func_file_id,
setup_cmd=self.setup_cmd))
# Try to submit the command, with optional retrying for certain
# error types.
for n_retries in range(1 + self.max_submit_retries):
try:
if self.using_template:
args = {'JOBLIB_FUNC_FILE_ID': func_file_id}
future = self.executor.submit(**args)
log.debug(
"Started custom script from template "
"%s with arguments %s",
self.executor.from_template_id, args)
else:
future = self.executor.submit(fn=cmd)
log.debug(
"started container script with "
"command: %s", cmd)
# Stop retrying if submission was successful.
break
except CivisAPIError as e:
# If we've retried the maximum number of times already,
# then raise an exception.
retries_left = self.max_submit_retries - n_retries - 1
if retries_left < 1:
raise JobSubmissionError(e)
log.debug("Retrying submission. %d retries left",
retries_left)
# Sleep with exponentially increasing intervals in case
# the issue persists for a while.
time.sleep(2**n_retries)
if self.executor.max_n_retries:
# Start the ContainerFuture polling.
# This will use more API calls, but will
# allow the ContainerFuture to launch
# retries if necessary.
# (This is only relevant if we're not using the
# notifications endpoint.)
future.done()
result = _CivisBackendResult(future, callback)
return result
def __getstate__(self):
"""override pickle to remove threading and civis APIClient objects"""
state = self.__dict__.copy()
if 'client' in state:
state['client'] = None
if 'executor' in state:
del state['executor']
# the parallel attribute gets added by the parent class when the
# backend is in use.
if 'parallel' in state:
state['parallel'] = None
return state
def __setstate__(self, state):
"""re-init the backend when unpickling"""
self.__dict__.update(state)
self._init_civis_backend()
class _CivisBackend(ParallelBackendBase):
"""The backend class that tells joblib how to use Civis to run jobs
Users should interact with this through ``make_backend_factory``.
"""
def __init__(self,
setup_cmd=_DEFAULT_SETUP_CMD,
from_template_id=None,
max_submit_retries=0,
client=None,
**executor_kwargs):
if max_submit_retries < 0:
raise ValueError(
"max_submit_retries cannot be negative (value = %d)" %
max_submit_retries)
if client is None:
client = civis.APIClient(resources='all')
self._client = client
if from_template_id:
self.executor = CustomScriptExecutor(from_template_id,
client=client,
**executor_kwargs)
else:
self.executor = _ContainerShellExecutor(client=client,
**executor_kwargs)
self.setup_cmd = setup_cmd
self.max_submit_retries = max_submit_retries
self.using_template = (from_template_id is not None)
def effective_n_jobs(self, n_jobs):
if n_jobs == -1:
n_jobs = _ALL_JOBS
if n_jobs <= 0:
raise ValueError("Please request a positive number of jobs, "
"or use \"-1\" to request a default "
"of {} jobs.".format(_ALL_JOBS))
return n_jobs
def abort_everything(self, ensure_ready=True):
# This method is called when a job has raised an exception.
# In that case, we're not going to finish computations, so
# we should free up Platform resources in any remaining jobs.
self.executor.cancel_all()
if not ensure_ready:
self.executor.shutdown(wait=False)
def apply_async(self, func, callback=None):
"""Schedule func to be run
"""
# Serialize func to a temporary file and upload it to a Civis File.
# Make the temporary files expire in a week.
expires_at = (datetime.now() + timedelta(days=7)).isoformat()
with TemporaryDirectory() as tempdir:
temppath = os.path.join(tempdir, "civis_joblib_backend_func")
# compress=3 is a compromise between space and read/write times
# (https://github.com/joblib/joblib/blob/18f9b4ce95e8788cc0e9b5106fc22573d768c44b/joblib/numpy_pickle.py#L358).
joblib.dump(func, temppath, compress=3)
with open(temppath, "rb") as tmpfile:
func_file_id = \
civis.io.file_to_civis(tmpfile,
"civis_joblib_backend_func",
expires_at=expires_at,
client=self._client)
log.debug("uploaded serialized function to File: %d",
func_file_id)
# Use the Civis CLI client to download the job runner script into
# the container, and then run it on the uploaded job.
# Only download the runner script if it doesn't already
# exist in the destination environment.
runner_remote_path = "civis_joblib_worker"
cmd = ("{setup_cmd} && "
"if command -v {runner_remote_path} >/dev/null; "
"then exec {runner_remote_path} {func_file_id}; "
"else pip install civis=={civis_version} && "
"pip install joblib=={jl_version} && "
"exec {runner_remote_path} {func_file_id}; fi".format(
jl_version=joblib.__version__,
civis_version=civis.__version__,
runner_remote_path=runner_remote_path,
func_file_id=func_file_id,
setup_cmd=self.setup_cmd))
# Try to submit the command, with optional retrying for certain
# error types.
for n_retries in range(1 + self.max_submit_retries):
try:
if self.using_template:
args = {'JOBLIB_FUNC_FILE_ID': func_file_id}
future = self.executor.submit(**args)
log.debug(
"Started custom script from template "
"%s with arguments %s",
self.executor.from_template_id, args)
else:
future = self.executor.submit(fn=cmd)
log.debug(
"started container script with "
"command: %s", cmd)
# Stop retrying if submission was successful.
break
except CivisAPIError as e:
# If we've retried the maximum number of times already,
# then raise an exception.
retries_left = self.max_submit_retries - n_retries - 1
if retries_left < 1:
raise JobSubmissionError(e)
log.debug("Retrying submission. %d retries left",
retries_left)
# Sleep with exponentially increasing intervals in case
# the issue persists for a while.
time.sleep(2**n_retries)
if self.executor.max_n_retries:
# Start the ContainerFuture polling.
# This will use more API calls, but will
# allow the ContainerFuture to launch
# retries if necessary.
# (This is only relevant if we're not using the
# notifications endpoint.)
future.done()
result = _CivisBackendResult(future, callback)
return result