def __init__(self, attributes=None, statically_defined=False):
super(BatchDecorator, self).__init__(attributes, statically_defined)
# If no docker image is explicitly specified, impute a default image.
if not self.attributes["image"]:
# If metaflow-config specifies a docker image, just use that.
if BATCH_CONTAINER_IMAGE:
self.attributes["image"] = BATCH_CONTAINER_IMAGE
# If metaflow-config doesn't specify a docker image, assign a
# default docker image.
else:
# Metaflow-R has it's own default docker image (rocker family)
if R.use_r():
self.attributes["image"] = R.container_image()
# Default to vanilla Python image corresponding to major.minor
# version of the Python interpreter launching the flow.
else:
self.attributes["image"] = "python:%s.%s" % (
platform.python_version_tuple()[0],
platform.python_version_tuple()[1],
)
# Assign docker registry URL for the image.
if not get_docker_registry(self.attributes["image"]):
if BATCH_CONTAINER_REGISTRY:
self.attributes["image"] = "%s/%s" % (
BATCH_CONTAINER_REGISTRY.rstrip("/"),
self.attributes["image"],
)
def runtime_step_cli(self, cli_args, retry_count, max_user_code_retries):
if retry_count <= max_user_code_retries:
# after all attempts to run the user code have failed, we don't need
# Batch anymore. We can execute possible fallback code locally.
cli_args.commands = ['batch', 'step']
cli_args.command_args.append(self.package_sha)
cli_args.command_args.append(self.package_url)
cli_args.command_options.update(self.attributes)
cli_args.command_options['run-time-limit'] = self.run_time_limit
if not R.use_r():
cli_args.entrypoint[0] = sys.executable
def __init__(self, attributes=None, statically_defined=False):
super(BatchDecorator, self).__init__(attributes, statically_defined)
if not self.attributes['image']:
if BATCH_CONTAINER_IMAGE:
self.attributes['image'] = BATCH_CONTAINER_IMAGE
else:
if R.use_r():
self.attributes['image'] = R.container_image()
else:
self.attributes['image'] = 'python:%s.%s' % (platform.python_version_tuple()[0],
platform.python_version_tuple()[1])
if not BatchDecorator._get_registry(self.attributes['image']):
if BATCH_CONTAINER_REGISTRY:
self.attributes['image'] = '%s/%s' % (BATCH_CONTAINER_REGISTRY.rstrip('/'),
self.attributes['image'])
def step(ctx,
step_name,
code_package_sha,
code_package_url,
executable=None,
image=None,
iam_role=None,
execution_role=None,
cpu=None,
gpu=None,
memory=None,
queue=None,
run_time_limit=None,
shared_memory=None,
max_swap=None,
swappiness=None,
**kwargs):
def echo(batch_id, msg, stream=sys.stdout):
ctx.obj.echo_always("[%s] %s" % (batch_id, msg))
if ctx.obj.datastore.datastore_root is None:
ctx.obj.datastore.datastore_root = ctx.obj.datastore.get_datastore_root_from_config(
echo)
if R.use_r():
entrypoint = R.entrypoint()
else:
if executable is None:
executable = ctx.obj.environment.executable(step_name)
entrypoint = '%s -u %s' % (executable, os.path.basename(sys.argv[0]))
top_args = " ".join(util.dict_to_cli_options(ctx.parent.parent.params))
input_paths = kwargs.get("input_paths")
split_vars = None
if input_paths:
max_size = 30 * 1024
split_vars = {
"METAFLOW_INPUT_PATHS_%d" % (i // max_size):
input_paths[i:i + max_size]
for i in range(0, len(input_paths), max_size)
}
kwargs["input_paths"] = "".join("${%s}" % s for s in split_vars.keys())
step_args = " ".join(util.dict_to_cli_options(kwargs))
step_cli = u"{entrypoint} {top_args} step {step} {step_args}".format(
entrypoint=entrypoint,
top_args=top_args,
step=step_name,
step_args=step_args)
node = ctx.obj.graph[step_name]
# Get retry information
retry_count = kwargs.get("retry_count", 0)
retry_deco = [deco for deco in node.decorators if deco.name == "retry"]
minutes_between_retries = None
if retry_deco:
minutes_between_retries = int(retry_deco[0].attributes.get(
"minutes_between_retries", 1))
# Set batch attributes
attrs = {
"metaflow.user":
util.get_username(),
"metaflow.flow_name":
ctx.obj.flow.name,
"metaflow.step_name":
step_name,
"metaflow.run_id":
kwargs["run_id"],
"metaflow.task_id":
kwargs["task_id"],
"metaflow.retry_count":
str(retry_count),
"metaflow.version":
ctx.obj.environment.get_environment_info()["metaflow_version"],
}
env_deco = [deco for deco in node.decorators if deco.name == "environment"]
if env_deco:
env = env_deco[0].attributes["vars"]
else:
env = {}
datastore_root = os.path.join(
ctx.obj.datastore.make_path(ctx.obj.flow.name, kwargs['run_id'],
step_name, kwargs['task_id']))
# Add the environment variables related to the input-paths argument
if split_vars:
env.update(split_vars)
if retry_count:
ctx.obj.echo_always(
"Sleeping %d minutes before the next AWS Batch retry" %
minutes_between_retries)
time.sleep(minutes_between_retries * 60)
batch = Batch(ctx.obj.metadata, ctx.obj.environment)
try:
with ctx.obj.monitor.measure("metaflow.batch.launch"):
batch.launch_job(step_name,
step_cli,
code_package_sha,
code_package_url,
ctx.obj.datastore.TYPE,
image=image,
queue=queue,
iam_role=iam_role,
execution_role=execution_role,
cpu=cpu,
gpu=gpu,
memory=memory,
run_time_limit=run_time_limit,
shared_memory=shared_memory,
max_swap=max_swap,
swappiness=swappiness,
env=env,
attrs=attrs)
except Exception as e:
print(e)
_sync_metadata(echo, ctx.obj.metadata, datastore_root, retry_count)
sys.exit(METAFLOW_EXIT_DISALLOW_RETRY)
try:
batch.wait(echo=echo)
except BatchKilledException:
# don't retry killed tasks
traceback.print_exc()
_sync_metadata(echo, ctx.obj.metadata, datastore_root, retry_count)
sys.exit(METAFLOW_EXIT_DISALLOW_RETRY)
_sync_metadata(echo, ctx.obj.metadata, datastore_root, retry_count)
def step(
ctx,
step_name,
code_package_sha,
code_package_url,
executable=None,
image=None,
iam_role=None,
execution_role=None,
cpu=None,
gpu=None,
memory=None,
queue=None,
run_time_limit=None,
shared_memory=None,
max_swap=None,
swappiness=None,
host_volumes=None,
**kwargs
):
def echo(msg, stream="stderr", batch_id=None):
msg = util.to_unicode(msg)
if batch_id:
msg = "[%s] %s" % (batch_id, msg)
ctx.obj.echo_always(msg, err=(stream == sys.stderr))
if R.use_r():
entrypoint = R.entrypoint()
else:
if executable is None:
executable = ctx.obj.environment.executable(step_name)
entrypoint = "%s -u %s" % (executable, os.path.basename(sys.argv[0]))
top_args = " ".join(util.dict_to_cli_options(ctx.parent.parent.params))
input_paths = kwargs.get("input_paths")
split_vars = None
if input_paths:
max_size = 30 * 1024
split_vars = {
"METAFLOW_INPUT_PATHS_%d" % (i // max_size): input_paths[i : i + max_size]
for i in range(0, len(input_paths), max_size)
}
kwargs["input_paths"] = "".join("${%s}" % s for s in split_vars.keys())
step_args = " ".join(util.dict_to_cli_options(kwargs))
step_cli = u"{entrypoint} {top_args} step {step} {step_args}".format(
entrypoint=entrypoint,
top_args=top_args,
step=step_name,
step_args=step_args,
)
node = ctx.obj.graph[step_name]
# Get retry information
retry_count = kwargs.get("retry_count", 0)
retry_deco = [deco for deco in node.decorators if deco.name == "retry"]
minutes_between_retries = None
if retry_deco:
minutes_between_retries = int(
retry_deco[0].attributes.get("minutes_between_retries", 1)
)
# Set batch attributes
task_spec = {
"flow_name": ctx.obj.flow.name,
"step_name": step_name,
"run_id": kwargs["run_id"],
"task_id": kwargs["task_id"],
"retry_count": str(retry_count),
}
attrs = {"metaflow.%s" % k: v for k, v in task_spec.items()}
attrs["metaflow.user"] = util.get_username()
attrs["metaflow.version"] = ctx.obj.environment.get_environment_info()[
"metaflow_version"
]
env_deco = [deco for deco in node.decorators if deco.name == "environment"]
if env_deco:
env = env_deco[0].attributes["vars"]
else:
env = {}
# Add the environment variables related to the input-paths argument
if split_vars:
env.update(split_vars)
if retry_count:
ctx.obj.echo_always(
"Sleeping %d minutes before the next AWS Batch retry"
% minutes_between_retries
)
time.sleep(minutes_between_retries * 60)
# this information is needed for log tailing
ds = ctx.obj.flow_datastore.get_task_datastore(
mode="w",
run_id=kwargs["run_id"],
step_name=step_name,
task_id=kwargs["task_id"],
attempt=int(retry_count),
)
stdout_location = ds.get_log_location(TASK_LOG_SOURCE, "stdout")
stderr_location = ds.get_log_location(TASK_LOG_SOURCE, "stderr")
def _sync_metadata():
if ctx.obj.metadata.TYPE == "local":
sync_local_metadata_from_datastore(
DATASTORE_LOCAL_DIR,
ctx.obj.flow_datastore.get_task_datastore(
kwargs["run_id"], step_name, kwargs["task_id"]
),
)
batch = Batch(ctx.obj.metadata, ctx.obj.environment)
try:
with ctx.obj.monitor.measure("metaflow.aws.batch.launch_job"):
batch.launch_job(
step_name,
step_cli,
task_spec,
code_package_sha,
code_package_url,
ctx.obj.flow_datastore.TYPE,
image=image,
queue=queue,
iam_role=iam_role,
execution_role=execution_role,
cpu=cpu,
gpu=gpu,
memory=memory,
run_time_limit=run_time_limit,
shared_memory=shared_memory,
max_swap=max_swap,
swappiness=swappiness,
env=env,
attrs=attrs,
host_volumes=host_volumes,
)
except Exception as e:
traceback.print_exc()
_sync_metadata()
sys.exit(METAFLOW_EXIT_DISALLOW_RETRY)
try:
batch.wait(stdout_location, stderr_location, echo=echo)
except BatchKilledException:
# don't retry killed tasks
traceback.print_exc()
sys.exit(METAFLOW_EXIT_DISALLOW_RETRY)
finally:
_sync_metadata()
def _step_cli(self, node, paths, code_package_url, user_code_retries):
cmds = []
script_name = os.path.basename(sys.argv[0])
executable = self.environment.executable(node.name)
if R.use_r():
entrypoint = [R.entrypoint()]
else:
entrypoint = [executable, script_name]
# Use AWS Batch job identifier as the globally unique task identifier.
task_id = '${AWS_BATCH_JOB_ID}'
if node.name == 'start':
# We need a separate unique ID for the special _parameters task
task_id_params = '%s-params' % task_id
# Export user-defined parameters into runtime environment
param_file = ''.join(
random.choice(string.ascii_lowercase) for _ in range(10))
export_params = \
'python -m ' \
'metaflow.plugins.aws.step_functions.set_batch_environment ' \
'parameters %s && . `pwd`/%s' % (param_file, param_file)
params = entrypoint +\
['--quiet',
'--metadata=%s' % self.metadata.TYPE,
'--environment=%s' % self.environment.TYPE,
'--datastore=s3',
'--event-logger=%s' % self.event_logger.logger_type,
'--monitor=%s' % self.monitor.monitor_type,
'--no-pylint',
'init',
'--run-id sfn-$METAFLOW_RUN_ID',
'--task-id %s' % task_id_params]
# If the start step gets retried, we must be careful not to
# regenerate multiple parameters tasks. Hence we check first if
# _parameters exists already.
exists = entrypoint +\
['dump',
'--max-value-size=0',
'sfn-${METAFLOW_RUN_ID}/_parameters/%s' % (task_id_params)]
cmd = 'if ! %s >/dev/null 2>/dev/null; then %s && %s; fi'\
% (' '.join(exists), export_params, ' '.join(params))
cmds.append(cmd)
paths = 'sfn-${METAFLOW_RUN_ID}/_parameters/%s' % (task_id_params)
if node.type == 'join' and\
self.graph[node.split_parents[-1]].type == 'foreach':
parent_tasks_file = ''.join(
random.choice(string.ascii_lowercase) for _ in range(10))
export_parent_tasks = \
'python -m ' \
'metaflow.plugins.aws.step_functions.set_batch_environment ' \
'parent_tasks %s && . `pwd`/%s' \
% (parent_tasks_file, parent_tasks_file)
cmds.append(export_parent_tasks)
top_level = [
'--quiet',
'--metadata=%s' % self.metadata.TYPE,
'--environment=%s' % self.environment.TYPE,
'--datastore=%s' % self.datastore.TYPE,
'--datastore-root=%s' % self.datastore.datastore_root,
'--event-logger=%s' % self.event_logger.logger_type,
'--monitor=%s' % self.monitor.monitor_type, '--no-pylint',
'--with=step_functions_internal'
]
step = [
'step',
node.name,
'--run-id sfn-$METAFLOW_RUN_ID',
'--task-id %s' % task_id,
# Since retries are handled by AWS Batch, we can rely on
# AWS_BATCH_JOB_ATTEMPT as the job counter.
'--retry-count $((AWS_BATCH_JOB_ATTEMPT-1))',
'--max-user-code-retries %d' % user_code_retries,
'--input-paths %s' % paths,
# Set decorator to batch to execute `task_*` hooks for batch
# decorator.
'--with=batch'
]
if any(self.graph[n].type == 'foreach' for n in node.in_funcs):
# We set the `METAFLOW_SPLIT_INDEX` through JSONPath-foo
# to pass the state from the parent DynamoDb state for for-each.
step.append('--split-index $METAFLOW_SPLIT_INDEX')
if self.tags:
step.extend('--tag %s' % tag for tag in self.tags)
if self.namespace:
step.append('--namespace %s' % self.namespace)
cmds.append(' '.join(entrypoint + top_level + step))
return ' && '.join(cmds)
def _step_cli(self, node, paths, code_package_url, user_code_retries):
cmds = []
script_name = os.path.basename(sys.argv[0])
executable = self.environment.executable(node.name)
if R.use_r():
entrypoint = [R.entrypoint()]
else:
entrypoint = [executable, script_name]
# Use AWS Batch job identifier as the globally unique task identifier.
task_id = "${AWS_BATCH_JOB_ID}"
# FlowDecorators can define their own top-level options. They are
# responsible for adding their own top-level options and values through
# the get_top_level_options() hook. See similar logic in runtime.py.
top_opts_dict = {}
for deco in flow_decorators():
top_opts_dict.update(deco.get_top_level_options())
top_opts = list(dict_to_cli_options(top_opts_dict))
if node.name == "start":
# We need a separate unique ID for the special _parameters task
task_id_params = "%s-params" % task_id
# Export user-defined parameters into runtime environment
param_file = "".join(
random.choice(string.ascii_lowercase) for _ in range(10))
export_params = (
"python -m "
"metaflow.plugins.aws.step_functions.set_batch_environment "
"parameters %s && . `pwd`/%s" % (param_file, param_file))
params = (entrypoint + top_opts + [
"--quiet",
"--metadata=%s" % self.metadata.TYPE,
"--environment=%s" % self.environment.TYPE,
"--datastore=s3",
"--event-logger=%s" % self.event_logger.logger_type,
"--monitor=%s" % self.monitor.monitor_type,
"--no-pylint",
"init",
"--run-id sfn-$METAFLOW_RUN_ID",
"--task-id %s" % task_id_params,
])
# Assign tags to run objects.
if self.tags:
params.extend("--tag %s" % tag for tag in self.tags)
# If the start step gets retried, we must be careful not to
# regenerate multiple parameters tasks. Hence we check first if
# _parameters exists already.
exists = entrypoint + [
"dump",
"--max-value-size=0",
"sfn-${METAFLOW_RUN_ID}/_parameters/%s" % (task_id_params),
]
cmd = "if ! %s >/dev/null 2>/dev/null; then %s && %s; fi" % (
" ".join(exists),
export_params,
" ".join(params),
)
cmds.append(cmd)
paths = "sfn-${METAFLOW_RUN_ID}/_parameters/%s" % (task_id_params)
if node.type == "join" and self.graph[
node.split_parents[-1]].type == "foreach":
parent_tasks_file = "".join(
random.choice(string.ascii_lowercase) for _ in range(10))
export_parent_tasks = (
"python -m "
"metaflow.plugins.aws.step_functions.set_batch_environment "
"parent_tasks %s && . `pwd`/%s" %
(parent_tasks_file, parent_tasks_file))
cmds.append(export_parent_tasks)
top_level = top_opts + [
"--quiet",
"--metadata=%s" % self.metadata.TYPE,
"--environment=%s" % self.environment.TYPE,
"--datastore=%s" % self.flow_datastore.TYPE,
"--datastore-root=%s" % self.flow_datastore.datastore_root,
"--event-logger=%s" % self.event_logger.logger_type,
"--monitor=%s" % self.monitor.monitor_type,
"--no-pylint",
"--with=step_functions_internal",
]
step = [
"step",
node.name,
"--run-id sfn-$METAFLOW_RUN_ID",
"--task-id %s" % task_id,
# Since retries are handled by AWS Batch, we can rely on
# AWS_BATCH_JOB_ATTEMPT as the job counter.
"--retry-count $((AWS_BATCH_JOB_ATTEMPT-1))",
"--max-user-code-retries %d" % user_code_retries,
"--input-paths %s" % paths,
# Set decorator to batch to execute `task_*` hooks for batch
# decorator.
"--with=batch",
]
if any(self.graph[n].type == "foreach" for n in node.in_funcs):
# We set the `METAFLOW_SPLIT_INDEX` through JSONPath-foo
# to pass the state from the parent DynamoDb state for for-each.
step.append("--split-index $METAFLOW_SPLIT_INDEX")
if self.tags:
step.extend("--tag %s" % tag for tag in self.tags)
if self.namespace is not None:
step.append("--namespace=%s" % self.namespace)
cmds.append(" ".join(entrypoint + top_level + step))
return " && ".join(cmds)
