def run(self,
job_status,
expand_arrays,
job_queue=None,
job_ids=None,
show_details=False):
"""
print list of jobs, by filtering by queue or by ids
"""
if job_ids:
self.__populate_output_by_job_ids(
job_status, job_ids, show_details or len(job_ids) == 1)
# explicitly asking for job details,
# or asking for a single job that is not an array (the output is not a list of jobs)
details_required = show_details or (len(job_ids) == 1
and self.output.length() == 1)
elif job_queue:
self.__populate_output_by_queue(job_queue, job_status,
expand_arrays, show_details)
details_required = show_details
else:
fail(
"Error listing jobs from AWS Batch. job_ids or job_queue must be defined"
)
if details_required:
self.output.show()
else:
self.output.show_table([
'jobId', 'jobName', 'status', 'startedAt', 'stoppedAt',
'exitCode'
])
def __get_ecs_clusters(self, compute_environments):
"""
Get Compute Environments from AWS Batch and create a list of ECS Cluster ARNs.
:param compute_environments: compute environments to query
:return: a list of ECS clusters
"""
ecs_clusters = []
try:
# connect to batch and ask for compute environments
batch_client = self.boto3_factory.get_client("batch")
next_token = ""
while next_token is not None:
response = batch_client.describe_compute_environments(
computeEnvironments=compute_environments,
nextToken=next_token)
ecs_clusters.extend(
self.__get_clusters(response["computeEnvironments"]))
next_token = response.get("nextToken")
except Exception as e:
fail(
"Error listing compute environments from AWS Batch. Failed with exception: %s"
% e)
return ecs_clusters
def main():
"""Command entrypoint."""
try:
# parse input parameters and config file
args = _get_parser().parse_args()
log = config_logger(args.log_level)
log.info("Input parameters: %s" % args)
config = AWSBatchCliConfig(log, args.cluster)
boto3_factory = Boto3ClientFactory(
region=config.region,
proxy=config.proxy,
aws_access_key_id=config.aws_access_key_id,
aws_secret_access_key=config.aws_secret_access_key,
)
AWSBhostsCommand(log, boto3_factory).run(
compute_environments=[config.compute_environment],
instance_ids=args.instance_ids,
show_details=args.details)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def main():
"""Command entrypoint."""
try:
# parse input parameters and config file
args = _get_parser().parse_args()
_validate_parameters(args)
log = config_logger(args.log_level)
log.info("Input parameters: %s" % args)
config = AWSBatchCliConfig(log=log, cluster=args.cluster)
boto3_factory = Boto3ClientFactory(
region=config.region,
proxy=config.proxy,
aws_access_key_id=config.aws_access_key_id,
aws_secret_access_key=config.aws_secret_access_key,
)
AWSBoutCommand(log, boto3_factory).run(
job_id=args.job_id, head=args.head, tail=args.tail, stream=args.stream, stream_period=args.stream_period
)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def __populate_output_by_job_ids(self, job_status, job_ids, details):
"""
Add Job item or jobs array children to the output
:param job_status: list of job status to ask
:param job_ids: job ids or ARNs
:param details: ask for job details
"""
try:
if job_ids:
self.log.info("Describing jobs (%s), details (%s)" %
(job_ids, details))
single_jobs = []
job_array_ids = []
jobs = self.batch_client.describe_jobs(jobs=job_ids)['jobs']
for job in jobs:
if is_job_array(job):
job_array_ids.append(job['jobId'])
else:
single_jobs.append(job)
# create output items for job array children
self.__populate_output_by_array_ids(job_status, job_array_ids,
details)
# add single jobs to the output
self.__add_jobs(single_jobs, details)
except Exception as e:
fail(
"Error describing jobs from AWS Batch. Failed with exception: %s"
% e)
def _validate_parameters(args):
"""
Validate input parameters
:param args: args variable
"""
if args.command_file:
if not type(args.command) == str:
fail(
"The command parameter is required with --command-file option")
elif not os.path.isfile(args.command):
fail("The command parameter (%s) must be an existing file" %
args.command)
elif not sys.stdin.isatty():
# stdin
if args.arguments or type(args.command) == str:
fail(
"Error: command and arguments cannot be specified when submitting by stdin."
)
elif not type(args.command) == str:
fail("Parameters validation error: command parameter is required.")
if args.depends_on and not re.match(
'(jobId|type)=[^\s,]+([\s,]?(jobId|type)=[^\s]+)*',
args.depends_on):
fail(
"Parameters validation error: please double check --depends-on parameter syntax."
)
def main():
"""Command entrypoint."""
try:
# parse input parameters and config file
args = _get_parser().parse_args()
_validate_parameters(args)
log = config_logger(args.log_level)
log.info("Input parameters: %s" % args)
config = AWSBatchCliConfig(log=log, cluster=args.cluster)
boto3_factory = Boto3ClientFactory(
region=config.region,
proxy=config.proxy,
aws_access_key_id=config.aws_access_key_id,
aws_secret_access_key=config.aws_secret_access_key,
)
AWSBoutCommand(log,
boto3_factory).run(job_id=args.job_id,
head=args.head,
tail=args.tail,
stream=args.stream,
stream_period=args.stream_period)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def __populate_output_by_queue(self, job_queue, job_status, expand_children, details):
"""
Add Job items to the output asking for given queue and status.
:param job_queue: job queue name or ARN
:param job_status: list of job status to ask
:param expand_children: if True, the job with children will be expanded by creating a row for each child
:param details: ask for job details
"""
try:
single_jobs = []
jobs_with_children = []
for status in job_status:
next_token = "" # nosec
while next_token is not None:
response = self.batch_client.list_jobs(jobStatus=status, jobQueue=job_queue, nextToken=next_token)
for job in response["jobSummaryList"]:
if get_job_type(job) != "SIMPLE" and expand_children is True:
jobs_with_children.append(job["jobId"])
else:
single_jobs.append(job)
next_token = response.get("nextToken")
# create output items for job array children
self.__populate_output_by_job_ids(jobs_with_children, details)
# add single jobs to the output
self.__add_jobs(single_jobs, details)
except Exception as e:
fail("Error listing jobs from AWS Batch. Failed with exception: %s" % e)
def __add_jobs(self, jobs, details=False):
"""
Get job info from AWS Batch and add to the output.
:param jobs: list of jobs items (output of the list_jobs function)
:param details: ask for job details
"""
try:
if jobs:
self.log.debug("Adding jobs to the output (%s)" % jobs)
if details:
self.log.info("Asking for jobs details")
jobs_to_show = self.__chunked_describe_jobs([job["jobId"] for job in jobs])
else:
jobs_to_show = jobs
for job in jobs_to_show:
self.log.debug("Adding job to the output (%s)", job)
job_converter = self.__JOB_CONVERTERS[get_job_type(job)]
self.output.add(job_converter.convert(job))
except KeyError as e:
fail("Error building Job item. Key (%s) not found." % e)
except Exception as e:
fail("Error adding jobs to the output. Failed with exception: %s" % e)
def main(argv=None):
"""Command entrypoint."""
try:
# parse input parameters and config file
args = _get_parser().parse_args(argv)
log = config_logger(args.log_level)
log.info("Input parameters: %s", args)
config = AWSBatchCliConfig(log=log, cluster=args.cluster)
boto3_factory = Boto3ClientFactory(region=config.region, proxy=config.proxy)
job_status_set = OrderedDict((status.strip().upper(), "") for status in args.status.split(","))
if "ALL" in job_status_set:
# add all the statuses in the list
job_status_set = OrderedDict((status, "") for status in AWS_BATCH_JOB_STATUS)
job_status = list(job_status_set)
AWSBstatCommand(log, boto3_factory).run(
job_status=job_status,
expand_children=args.expand_children,
job_ids=args.job_ids,
job_queue=config.job_queue,
show_details=args.details,
)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def config_logger(log_level):
"""
Define a logger for aws-parallelcluster-awsbatch-cli.
:param log_level logging level
:return: the logger
"""
try:
logfile = os.path.expanduser(os.path.join("~", ".parallelcluster", "awsbatch-cli.log"))
logdir = os.path.dirname(logfile)
os.makedirs(logdir)
except OSError as e:
if e.errno == errno.EEXIST and os.path.isdir(logdir):
pass
else:
fail("Cannot create log file (%s). Failed with exception: %s" % (logfile, e))
formatter = logging.Formatter("%(asctime)s %(levelname)s [%(module)s:%(funcName)s] %(message)s")
logfile_handler = RotatingFileHandler(logfile, maxBytes=5 * 1024 * 1024, backupCount=1)
logfile_handler.setFormatter(formatter)
logger = logging.getLogger("awsbatch-cli")
logger.addHandler(logfile_handler)
try:
logger.setLevel(log_level.upper())
except (TypeError, ValueError) as e:
fail("Error setting log level. Failed with exception: %s" % e)
return logger
def __init__(self, log, cluster):
"""
Constructor.
Search for the [cluster cluster-name] section in the /etc/awsbatch-cli.cfg configuration file, if there
or ask to the pcluster status.
:param log: log
:param cluster: cluster name
"""
# Check if credentials and region have been provided in parallelcluster config
self.aws_access_key_id = None
self.aws_secret_access_key = None
self.region = None
self.env_blacklist = None
parallelcluster_config_file = os.path.expanduser(
os.path.join("~", ".parallelcluster", "config"))
if os.path.isfile(parallelcluster_config_file):
self.__init_from_parallelcluster_config(
parallelcluster_config_file, log)
# search for awsbatch-cli config
cli_config_file = os.path.expanduser(
os.path.join("~", ".parallelcluster", "awsbatch-cli.cfg"))
if os.path.isfile(cli_config_file):
self.__init_from_config(cli_config_file, cluster, log)
elif cluster:
self.__init_from_stack(cluster, log)
else:
fail("Error: cluster parameter is required")
self.__verify_initialization(log)
def config_logger(log_level):
"""
Define a logger for aws-parallelcluster-awsbatch-cli.
:param log_level logging level
:return: the logger
"""
try:
logfile = os.path.expanduser(
os.path.join("~", ".parallelcluster", "awsbatch-cli.log"))
logdir = os.path.dirname(logfile)
os.makedirs(logdir)
except OSError as e:
if e.errno == errno.EEXIST and os.path.isdir(logdir):
pass
else:
fail("Cannot create log file (%s). Failed with exception: %s" %
(logfile, e))
formatter = logging.Formatter(
"%(asctime)s %(levelname)s [%(module)s:%(funcName)s] %(message)s")
logfile_handler = RotatingFileHandler(logfile,
maxBytes=5 * 1024 * 1024,
backupCount=1)
logfile_handler.setFormatter(formatter)
logger = logging.getLogger("awsbatch-cli")
logger.addHandler(logfile_handler)
try:
logger.setLevel(log_level.upper())
except (TypeError, ValueError) as e:
fail("Error setting log level. Failed with exception: %s" % e)
return logger
def __init__(self, log, cluster):
"""
Constructor.
Search for the [cluster cluster-name] section in the /etc/awsbatch-cli.cfg configuration file, if there
or ask to the pcluster status.
:param log: log
:param cluster: cluster name
"""
# Check if credentials and region have been provided in parallelcluster config
self.aws_access_key_id = None
self.aws_secret_access_key = None
self.region = None
self.env_blacklist = None
parallelcluster_config_file = os.path.expanduser(os.path.join("~", ".parallelcluster", "config"))
if os.path.isfile(parallelcluster_config_file):
self.__init_from_parallelcluster_config(parallelcluster_config_file, log)
# search for awsbatch-cli config
cli_config_file = os.path.expanduser(os.path.join("~", ".parallelcluster", "awsbatch-cli.cfg"))
if os.path.isfile(cli_config_file):
self.__init_from_config(cli_config_file, cluster, log)
elif cluster:
self.__init_from_stack(cluster, log)
else:
fail("Error: cluster parameter is required")
self.__verify_initialization(log)
def main():
"""Command entrypoint."""
try:
# parse input parameters and config file
args = _get_parser().parse_args()
log = config_logger(args.log_level)
log.info("Input parameters: %s" % args)
config = AWSBatchCliConfig(log=log, cluster=args.cluster)
boto3_factory = Boto3ClientFactory(
region=config.region,
proxy=config.proxy,
aws_access_key_id=config.aws_access_key_id,
aws_secret_access_key=config.aws_secret_access_key,
)
if args.job_queues:
job_queues = args.job_queues
show_details = True
else:
job_queues = [config.job_queue]
show_details = args.details
AWSBqueuesCommand(log, boto3_factory).run(job_queues=job_queues, show_details=show_details)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def __populate_output_by_job_ids(self, job_ids, details, include_parents=False):
"""
Add Job item or jobs array children to the output.
:param job_ids: job ids or ARNs
:param details: ask for job details
"""
try:
if job_ids:
self.log.info("Describing jobs (%s), details (%s)" % (job_ids, details))
parent_jobs = []
jobs_with_children = []
jobs = self.__chunked_describe_jobs(job_ids)
for job in jobs:
# always add parent job
if include_parents or get_job_type(job) == "SIMPLE":
parent_jobs.append(job)
if is_job_array(job):
jobs_with_children.append((job["jobId"], ":", job["arrayProperties"]["size"]))
elif is_mnp_job(job):
jobs_with_children.append((job["jobId"], "#", job["nodeProperties"]["numNodes"]))
# add parent jobs to the output
self.__add_jobs(parent_jobs)
# create output items for jobs' children
self.__populate_output_by_parent_ids(jobs_with_children)
except Exception as e:
fail("Error describing jobs from AWS Batch. Failed with exception: %s" % e)
def __search_for_job_definition(self, base_job_definition, nodes):
"""
Search for existing job definition with the same name of the base_job_definition and the same number of nodes.
:param base_job_definition: job definition arn
:param nodes: number of nodes
:return: the found jobDefinition object or None
"""
job_definition_found = None
base_job_definition_name = get_job_definition_name_by_arn(
base_job_definition)
try:
next_token = ""
while next_token is not None:
response = self.batch_client.describe_job_definitions(
jobDefinitionName=base_job_definition_name,
status="ACTIVE",
nextToken=next_token)
for job_definition in response["jobDefinitions"]:
if job_definition["nodeProperties"]["numNodes"] == nodes:
job_definition_found = job_definition
break
next_token = response.get("nextToken")
except Exception as e:
fail("Error listing job definition. Failed with exception: %s" % e)
return job_definition_found
def __populate_output_by_array_ids(self, job_status, job_array_ids,
details):
"""
Add jobs array children to the output
:param job_status: list of job status to ask
:param job_array_ids: job array ids to ask
:param details: ask for job details
"""
try:
for job_array_id in job_array_ids:
for status in job_status:
self.log.info(
"Listing job array children for job (%s) in status (%s)"
% (job_array_id, status))
next_token = ''
while next_token is not None:
response = self.batch_client.list_jobs(
jobStatus=status,
arrayJobId=job_array_id,
nextToken=next_token)
# add single jobs to the output
self.__add_jobs(response['jobSummaryList'], details)
next_token = response.get('nextToken')
except Exception as e:
fail(
"Error listing job array children for job (%s). Failed with exception: %s"
% (job_array_id, e))
def __register_new_job_definition(self, base_job_definition_arn, nodes):
"""
Register a new job definition by using the base_job_definition_arn as starting point for the nodeRangeProperties
:param base_job_definition_arn: job definition arn to use as starting point
:param nodes: nuber of nodes to set in the job definition
:return: the ARN of the created job definition
"""
try:
# get base job definition and reuse its nodeRangeProperties
response = self.batch_client.describe_job_definitions(
jobDefinitions=[base_job_definition_arn], status='ACTIVE')
job_definition = response['jobDefinitions'][0]
# create new job definition
response = self.batch_client.register_job_definition(
jobDefinitionName=job_definition['jobDefinitionName'],
type='multinode',
nodeProperties={
'numNodes':
nodes,
'mainNode':
0,
'nodeRangeProperties': [{
'targetNodes':
'0:%d' % (nodes - 1),
'container':
job_definition['nodeProperties']['nodeRangeProperties']
[0]['container']
}]
})
job_definition_arn = response['jobDefinitionArn']
except Exception as e:
fail("Error listing job definition. Failed with exception: %s" % e)
return job_definition_arn
def __init__(self, log, cluster):
"""
Initialize the object.
Search for the [cluster cluster-name] section in the /etc/awsbatch-cli.cfg configuration file, if there
or ask to the pcluster status.
:param log: log
:param cluster: cluster name
"""
self.region = None
self.env_blacklist = None
# search for awsbatch-cli config
cli_config_file = os.path.expanduser(
os.path.join("~", ".parallelcluster", "awsbatch-cli.cfg"))
if os.path.isfile(cli_config_file):
self.__init_from_config(cli_config_file, cluster, log)
elif cluster:
self.__init_from_stack(cluster, log)
else:
fail("Error: cluster parameter is required")
self.__verify_initialization(log)
def main():
"""Command entrypoint."""
try:
# parse input parameters and config file
args = _get_parser().parse_args()
log = config_logger(args.log_level)
log.info("Input parameters: %s" % args)
config = AWSBatchCliConfig(log=log, cluster=args.cluster)
boto3_factory = Boto3ClientFactory(
region=config.region,
proxy=config.proxy,
aws_access_key_id=config.aws_access_key_id,
aws_secret_access_key=config.aws_secret_access_key,
)
if args.job_queues:
job_queues = args.job_queues
show_details = True
else:
job_queues = [config.job_queue]
show_details = args.details
AWSBqueuesCommand(log, boto3_factory).run(job_queues=job_queues,
show_details=show_details)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def __create_host_item(container_instance, ec2_instance):
"""
Merge container instance and ec2 instance information and create a Host item.
:param container_instance: the containerInstance object to parse
:param ec2_instance: the ec2Instance object to parse
:return: the Host item
"""
try:
instance_type = '-'
for attr in container_instance['attributes']:
if attr['name'] == 'ecs.instance-type':
instance_type = attr['value']
break
return Host(container_instance_arn=container_instance[
'containerInstanceArn'],
status=container_instance['status'],
ec2_instance=container_instance['ec2InstanceId'],
instance_type=instance_type,
private_ip_address=ec2_instance['PrivateIpAddress'],
public_ip_address=ec2_instance['PublicIpAddress']
if ec2_instance['PublicIpAddress'] != '' else '-',
private_dns_name=ec2_instance['PrivateDnsName'],
public_dns_name=ec2_instance['PublicDnsName']
if ec2_instance['PublicDnsName'] != '' else '-',
running_jobs=container_instance['runningTasksCount'],
pending_jobs=container_instance['pendingTasksCount'])
except KeyError as e:
fail("Error building Host item. Key (%s) not found." % e)
def __init_from_stack(self, cluster, log): # noqa: C901 FIXME
"""
Init object attributes by asking to the stack.
:param cluster: cluster name
:param log: log
"""
try:
self.stack_name = _get_stack_name(cluster)
log.info("Describing stack (%s)" % self.stack_name)
# get required values from the output of the describe-stack command
# don't use proxy because we are in the client and use default region
boto3_factory = Boto3ClientFactory(
region=self.region,
aws_access_key_id=self.aws_access_key_id,
aws_secret_access_key=self.aws_secret_access_key,
)
cfn_client = boto3_factory.get_client("cloudformation")
stack = cfn_client.describe_stacks(
StackName=self.stack_name).get("Stacks")[0]
log.debug(stack)
if self.region is None:
self.region = get_region_by_stack_id(stack.get("StackId"))
self.proxy = "NONE"
stack_status = stack.get("StackStatus")
if stack_status in ["CREATE_COMPLETE", "UPDATE_COMPLETE"]:
for output in stack.get("Outputs", []):
output_key = output.get("OutputKey")
output_value = output.get("OutputValue")
if output_key == "ResourcesS3Bucket":
self.s3_bucket = output_value
elif output_key == "ArtifactS3RootDirectory":
self.artifact_directory = output_value
elif output_key == "BatchComputeEnvironmentArn":
self.compute_environment = output_value
elif output_key == "BatchJobQueueArn":
self.job_queue = output_value
elif output_key == "BatchJobDefinitionArn":
self.job_definition = output_value
elif output_key == "MasterPrivateIP":
self.head_node_ip = output_value
elif output_key == "BatchJobDefinitionMnpArn":
self.job_definition_mnp = output_value
for parameter in stack.get("Parameters", []):
if parameter.get("OutputKey") == "ProxyServer":
self.proxy = parameter.get("OutputValue")
if not self.proxy == "NONE":
log.info("Configured proxy is: %s" % self.proxy)
break
else:
fail("The cluster is in the (%s) status." % stack_status)
except (ClientError, ParamValidationError) as e:
fail(
"Error getting cluster information from AWS CloudFormation. Failed with exception: %s"
% e)
def get_client(self, service):
try:
return boto3.client(
service,
region_name=self.region,
aws_access_key_id=self.aws_access_key_id,
aws_secret_access_key=self.aws_secret_access_key,
config=self.proxy_config)
except ClientError as e:
fail("AWS %s service failed with exception: %s" % (service, e))
def __print_log_stream(self, log_stream, head=None, tail=None, stream=None, stream_period=None): # noqa: C901 FIXME
"""
Ask for log stream and print it.
:param log_stream: job log stream
"""
logs_client = self.boto3_factory.get_client("logs")
try:
# The maximum number of log events returned by the get_log_events function is as many log events
# as can fit in a response size of 1 MB, up to 10,000 log events
max_limit = 10000
if head:
limit = head
start_from_head = True
elif tail:
limit = tail
start_from_head = False
else:
limit = max_limit
start_from_head = False
response = logs_client.get_log_events(
logGroupName="/aws/batch/job", logStreamName=log_stream, limit=limit, startFromHead=start_from_head
)
events = response["events"]
self.log.debug(response)
if not events:
print("No events found.")
self.__print_events(events)
if limit == max_limit or stream:
# get paginated items
next_token = response["nextForwardToken"]
while next_token is not None or stream:
self.log.info("Next Forward Token is (%s)" % next_token)
if stream:
period = stream_period if stream_period else 5
self.log.info("Waiting other %s seconds..." % period)
time.sleep(period)
response = logs_client.get_log_events(
logGroupName="/aws/batch/job", logStreamName=log_stream, nextToken=next_token
)
self.__print_events(response["events"])
# if nextForwardToken is the same we passed in, we reached the end of the stream
if stream:
next_token = response["nextForwardToken"]
else:
next_token = (
response["nextForwardToken"] if response["nextForwardToken"] != next_token else None
)
except KeyboardInterrupt:
self.log.info("Interrupted by the user")
exit(0)
except Exception as e:
fail("Error listing jobs from AWS Batch. Failed with exception: %s" % e)
def _upload_and_get_command(boto3_factory, args, job_s3_folder, job_name, config, log):
"""
Get command by parsing args and config.
The function will also perform an s3 upload, if needed.
:param boto3_factory: initialized Boto3ClientFactory object
:param args: input arguments
:param job_s3_folder: S3 folder for the job files
:param job_name: job name
:param config: config object
:param log: log
:return: command to submit
"""
# create S3 folder for the job
s3_uploader = S3Uploader(boto3_factory, config.s3_bucket, job_s3_folder)
# upload input files, if there
if args.input_file:
for file in args.input_file:
s3_uploader.put_file(file, os.path.basename(file))
# upload command, if needed
if args.command_file or not sys.stdin.isatty() or args.env:
# define job script name
job_script = job_name + ".sh"
log.info("Using command-file option or stdin. Job script name: %s" % job_script)
env_file = None
if args.env:
env_file = job_name + ".env.sh"
# get environment variables and upload file used to extend the submission environment
env_blacklist = args.env_blacklist if args.env_blacklist else config.env_blacklist
_get_env_and_upload(s3_uploader, args.env, env_blacklist, env_file, log)
# upload job script
if args.command_file:
# existing script file
try:
s3_uploader.put_file(args.command, job_script)
except Exception as e:
fail("Error creating job script. Failed with exception: %s" % e)
elif not sys.stdin.isatty():
# stdin
_get_stdin_and_upload(s3_uploader, job_script)
# define command to execute
bash_command = _compose_bash_command(args, config.s3_bucket, config.region, job_s3_folder, job_script, env_file)
command = ["/bin/bash", "-c", bash_command]
elif type(args.command) == str:
log.info("Using command parameter")
command = [args.command] + args.arguments
else:
fail("Unexpected error. Command cannot be empty.")
log.info("Command: %s" % shell_join(command))
return command
def check(self):
"""Verify if CLI requirements are satisfied."""
for req in self.requirements:
if not self.COMPARISON_OPERATORS[req.operator](
packaging.version.parse(get_installed_version(
req.package)),
packaging.version.parse(req.version),
):
fail(
f"The cluster requires {req.package}{req.operator}{req.version}"
)
def __init_from_stack(self, cluster, log): # noqa: C901 FIXME
"""
Init object attributes by asking to the stack.
:param cluster: cluster name
:param log: log
"""
try:
self.stack_name = "parallelcluster-" + cluster
log.info("Describing stack (%s)" % self.stack_name)
# get required values from the output of the describe-stack command
# don't use proxy because we are in the client and use default region
boto3_factory = Boto3ClientFactory(
region=self.region,
aws_access_key_id=self.aws_access_key_id,
aws_secret_access_key=self.aws_secret_access_key,
)
cfn_client = boto3_factory.get_client("cloudformation")
stack = cfn_client.describe_stacks(StackName=self.stack_name).get("Stacks")[0]
log.debug(stack)
if self.region is None:
self.region = get_region_by_stack_id(stack.get("StackId"))
self.proxy = "NONE"
stack_status = stack.get("StackStatus")
if stack_status in ["CREATE_COMPLETE", "UPDATE_COMPLETE"]:
for output in stack.get("Outputs", []):
output_key = output.get("OutputKey")
output_value = output.get("OutputValue")
if output_key == "ResourcesS3Bucket":
self.s3_bucket = output_value
elif output_key == "BatchComputeEnvironmentArn":
self.compute_environment = output_value
elif output_key == "BatchJobQueueArn":
self.job_queue = output_value
elif output_key == "BatchJobDefinitionArn":
self.job_definition = output_value
elif output_key == "MasterPrivateIP":
self.master_ip = output_value
elif output_key == "BatchJobDefinitionMnpArn":
self.job_definition_mnp = output_value
for parameter in stack.get("Parameters", []):
if parameter.get("OutputKey") == "ProxyServer":
self.proxy = parameter.get("OutputValue")
if not self.proxy == "NONE":
log.info("Configured proxy is: %s" % self.proxy)
break
else:
fail("The cluster is in the (%s) status." % stack_status)
except (ClientError, ParamValidationError) as e:
fail("Error getting cluster information from AWS CloudFormation. Failed with exception: %s" % e)
def main():
try:
# parse input parameters and config file
args = _get_parser().parse_args()
_validate_parameters(args)
log = config_logger(args.log_level)
log.info("Input parameters: %s" % args)
config = AWSBatchCliConfig(log=log, cluster=args.cluster)
boto3_factory = Boto3ClientFactory(
region=config.region,
proxy=config.proxy,
aws_access_key_id=config.aws_access_key_id,
aws_secret_access_key=config.aws_secret_access_key)
# define job name
if args.job_name:
job_name = args.job_name
else:
# set a default job name if not specified
if not sys.stdin.isatty():
# stdin
job_name = 'STDIN'
else:
# normalize name
job_name = re.sub('\W+', '_', os.path.basename(args.command))
log.info("Job name not specified, setting it to (%s)" % job_name)
# upload script, if needed, and get related command
command = _upload_and_get_command(boto3_factory, args, job_name,
config.region, config.s3_bucket, log)
# parse and validate depends_on parameter
depends_on = _get_depends_on(args)
job_definition = config.job_definition
AWSBsubCommand(log,
boto3_factory).run(job_definition=job_definition,
job_name=job_name,
job_queue=config.job_queue,
command=command,
vcpus=args.vcpus,
memory=args.memory,
array_size=args.array_size,
dependencies=depends_on,
retry_attempts=args.retry_attempts,
timeout=args.timeout,
master_ip=config.master_ip)
except KeyboardInterrupt:
print("Exiting...")
sys.exit(0)
except Exception as e:
fail("Unexpected error. Command failed with exception: %s" % e)
def __init_from_stack(self, cluster, log):
"""
init object attributes by asking to the stack
:param cluster: cluster name
:param log: log
"""
try:
self.stack_name = 'parallelcluster-' + cluster
log.info("Describing stack (%s)" % self.stack_name)
# get required values from the output of the describe-stack command
# don't use proxy because we are in the client and use default region
boto3_factory = Boto3ClientFactory(
region=self.region,
aws_access_key_id=self.aws_access_key_id,
aws_secret_access_key=self.aws_secret_access_key)
cfn_client = boto3_factory.get_client('cloudformation')
stack = cfn_client.describe_stacks(
StackName=self.stack_name).get("Stacks")[0]
log.debug(stack)
if self.region is None:
self.region = get_region_by_stack_id(stack.get('StackId'))
self.proxy = 'NONE'
stack_status = stack.get('StackStatus')
if stack_status in ['CREATE_COMPLETE', 'UPDATE_COMPLETE']:
for output in stack.get('Outputs', []):
output_key = output.get('OutputKey')
output_value = output.get('OutputValue')
if output_key == 'ResourcesS3Bucket':
self.s3_bucket = output_value
elif output_key == 'BatchComputeEnvironmentArn':
self.compute_environment = output_value
elif output_key == 'BatchJobQueueArn':
self.job_queue = output_value
elif output_key == 'BatchJobDefinitionArn':
self.job_definition = output_value
elif output_key == 'MasterPrivateIP':
self.master_ip = output_value
for parameter in stack.get('Parameters', []):
if parameter.get('OutputKey') == 'ProxyServer':
self.proxy = parameter.get('OutputValue')
if not self.proxy == "NONE":
log.info("Configured proxy is: %s" % self.proxy)
break
else:
fail("The cluster is in the (%s) status." % stack_status)
except (ClientError, ParamValidationError) as e:
fail(
"Error getting cluster information from AWS CloudFormation. Failed with exception: %s"
% e)
def get_client(self, service):
"""
Initialize the boto3 client for a given service.
:param service: boto3 service.
:return: the boto3 client
"""
try:
return boto3.client(service,
region_name=self.region,
config=self.proxy_config)
except ClientError as e:
fail("AWS %s service failed with exception: %s" % (service, e))
def __verify_initialization(self, log):
try:
log.debug("stack_name = %s", self.stack_name)
log.debug("region = %s", self.region)
log.debug("s3_bucket = %s", self.s3_bucket)
log.debug("compute_environment = %s", self.compute_environment)
log.debug("job_queue = %s", self.job_queue)
log.debug("job_definition = %s", self.job_definition)
log.debug("master_ip = %s", self.master_ip)
log.info(self)
except AttributeError as e:
fail("Error getting cluster information from AWS CloudFormation."
"Missing attribute (%s) from the output CloudFormation stack."
% e)
def __new_queue(queue):
"""
Parse jobQueue and return a Queue object.
:param queue: the jobQueue object to parse
:return: a Queue object
"""
try:
return Queue(arn=queue['jobQueueArn'],
name=queue['jobQueueName'],
priority=queue['priority'],
status=queue['status'],
status_reason=queue['statusReason'])
except KeyError as e:
fail("Error building Queue item. Key (%s) not found." % e)
def __init__(self, requirements_string):
try:
self.requirements = []
for requirement_string in requirements_string.split(","):
match = re.search(r"([\w+_-]+)([<>=]+)([\d.]+)",
requirement_string)
self.requirements.append(
CliRequirement(package=match.group(1),
operator=match.group(2),
version=match.group(3)))
except IndexError:
fail(
f"Unable to parse ParallelCluster AWS Batch CLI requirements: '{requirements_string}'"
)
def _add_host_items(self,
ecs_cluster_arn,
container_instances_arns,
instance_ids=None):
"""
Add a list of Hosts to the output.
:param ecs_cluster_arn: ECS Cluster arn
:param container_instances_arns: container ids
:param instance_ids: hosts requested
"""
self.log.info("Container ARNs = %s" % container_instances_arns)
if container_instances_arns:
response = self.ecs_client.describe_container_instances(
cluster=ecs_cluster_arn,
containerInstances=container_instances_arns)
container_instances = response["containerInstances"]
self.log.debug("Container Instances = %s" % container_instances)
# get ec2_instance_ids
ec2_instances_ids = []
for container_instance in container_instances:
ec2_instances_ids.append(container_instance["ec2InstanceId"])
# get ec2 instances information
ec2_instances = {}
try:
ec2_client = self.boto3_factory.get_client("ec2")
paginator = ec2_client.get_paginator("describe_instances")
for page in paginator.paginate(InstanceIds=ec2_instances_ids):
for reservation in page["Reservations"]:
for instance in reservation["Instances"]:
ec2_instances[instance["InstanceId"]] = instance
except Exception as e:
fail(
"Error listing EC2 instances from AWS EC2. Failed with exception: %s"
% e)
# merge ec2 and container information
for container_instance in container_instances:
ec2_instance_id = container_instance["ec2InstanceId"]
# filter by instance_id if there
if not instance_ids or ec2_instance_id in instance_ids:
self.log.debug("Container Instance = %s" %
container_instance)
self.log.debug("EC2 Instance = %s" %
ec2_instances[ec2_instance_id])
self.output.add(
self.__create_host_item(
container_instance,
ec2_instances[ec2_instance_id]))
def __verify_initialization(self, log):
try:
log.debug("stack_name = %s", self.stack_name)
log.debug("region = %s", self.region)
log.debug("s3_bucket = %s", self.s3_bucket)
log.debug("compute_environment = %s", self.compute_environment)
log.debug("job_queue = %s", self.job_queue)
log.debug("job_definition = %s", self.job_definition)
log.debug("master_ip = %s", self.master_ip)
log.info(self)
except AttributeError as e:
fail(
"Error getting cluster information from AWS CloudFormation."
"Missing attribute (%s) from the output CloudFormation stack." % e
)
def _get_stdin_and_upload(s3_uploader, job_script):
"""
Create file from STDIN and upload to S3.
:param s3_uploader: S3Uploader object
:param job_script: job script name
"""
try:
# copy stdin to temporary file and upload
with os.fdopen(sys.stdin.fileno(), "rb") as src:
with tempfile.NamedTemporaryFile() as dst:
shutil.copyfileobj(src, dst)
dst.flush()
s3_uploader.put_file(dst.name, job_script)
except Exception as e:
fail("Error creating job script. Failed with exception: %s" % e)
def get_client(self, service):
"""
Initialize the boto3 client for a given service.
:param service: boto3 service.
:return: the boto3 client
"""
try:
return boto3.client(
service,
region_name=self.region,
aws_access_key_id=self.aws_access_key_id,
aws_secret_access_key=self.aws_secret_access_key,
config=self.proxy_config,
)
except ClientError as e:
fail("AWS %s service failed with exception: %s" % (service, e))
def __new_queue(queue):
"""
Parse jobQueue and return a Queue object.
:param queue: the jobQueue object to parse
:return: a Queue object
"""
try:
return Queue(
arn=queue["jobQueueArn"],
name=queue["jobQueueName"],
priority=queue["priority"],
status=queue["status"],
status_reason=queue["statusReason"],
)
except KeyError as e:
fail("Error building Queue item. Key (%s) not found." % e)
def __init_output(self, job_queues):
"""
Initialize queues output by asking for given queues.
:param job_queues: a list of job queues
"""
try:
# connect to batch and get queues
batch_client = self.boto3_factory.get_client("batch")
queues = batch_client.describe_job_queues(jobQueues=job_queues)["jobQueues"]
self.log.info("Job Queues: %s" % job_queues)
self.log.debug(queues)
for queue in queues:
self.output.add(self.__new_queue(queue=queue))
except Exception as e:
fail("Error listing queues from AWS Batch. Failed with exception: %s" % e)
def __get_log_stream(self, job_id):
"""
Get log stream for the given job.
:param job_id: job id (ARN)
:return: the log_stream if there, or None
"""
log_stream = None
try:
batch_client = self.boto3_factory.get_client("batch")
jobs = batch_client.describe_jobs(jobs=[job_id])["jobs"]
if len(jobs) == 1:
job = jobs[0]
self.log.debug(job)
if "nodeProperties" in job:
# MNP job
container = job["nodeProperties"]["nodeRangeProperties"][0]["container"]
elif "container" in job:
container = job["container"]
else:
container = {}
if get_job_type(job) != "SIMPLE":
fail("No output available for the Job (%s). Please ask for its children." % job["jobId"])
else:
if "logStreamName" in container:
log_stream = container.get("logStreamName")
else:
print("No log stream found for job (%s) in the status (%s)" % (job_id, job["status"]))
else:
fail("Error asking job output for job (%s). Job not found." % job_id)
except Exception as e:
fail("Error listing jobs from AWS Batch. Failed with exception: %s" % e)
return log_stream
def _validate_parameters(args):
"""
Validate input parameters.
:param args: args variable
"""
if args.head:
if args.tail:
fail("Parameters validation error: --tail and --head option cannot be set at the same time")
if args.stream:
fail("Parameters validation error: --stream and --head option cannot be set at the same time")
if args.stream_period and not args.stream:
fail("Parameters validation error: --stream-period can be used only with --stream option")
def __init_from_config(self, cli_config_file, cluster, log): # noqa: C901 FIXME
"""
Init object attributes from awsbatch-cli configuration file.
:param cli_config_file: awsbatch-cli config
:param cluster: cluster name
:param log: log
"""
with open(cli_config_file) as config_file:
log.info("Searching for configuration file %s" % cli_config_file)
config = ConfigParser()
config.read_file(config_file)
# use cluster if there or search for default value in [main] section of the config file
try:
cluster_name = cluster if cluster else config.get("main", "cluster_name")
except NoSectionError as e:
fail("Error getting the section [%s] from the configuration file (%s)" % (e.section, cli_config_file))
except NoOptionError as e:
fail(
"Error getting the option (%s) from the section [%s] of the configuration file (%s)"
% (e.option, e.section, cli_config_file)
)
cluster_section = "cluster {0}".format(cluster_name)
try:
self.region = config.get("main", "region")
except NoOptionError:
pass
try:
self.env_blacklist = config.get("main", "env_blacklist")
except NoOptionError:
pass
try:
self.stack_name = "parallelcluster-" + cluster_name
log.info("Stack name is (%s)" % self.stack_name)
# if region is set for the current stack, override the region from the AWS ParallelCluster config file
# or the region from the [main] section
self.region = config.get(cluster_section, "region")
self.s3_bucket = config.get(cluster_section, "s3_bucket")
self.compute_environment = config.get(cluster_section, "compute_environment")
self.job_queue = config.get(cluster_section, "job_queue")
self.job_definition = config.get(cluster_section, "job_definition")
try:
self.job_definition_mnp = config.get(cluster_section, "job_definition_mnp")
except NoOptionError:
pass
self.master_ip = config.get(cluster_section, "master_ip")
# get proxy
self.proxy = config.get(cluster_section, "proxy")
if not self.proxy == "NONE":
log.info("Configured proxy is: %s" % self.proxy)
except NoSectionError:
# initialize by getting stack info
self.__init_from_stack(cluster_name, log)
except NoOptionError as e:
fail(
"Error getting the option (%s) from the section [%s] of the configuration file (%s)"
% (e.option, e.section, cli_config_file)
)
