def __init__(self, conf_file="/default/conf/file/"):
self.conf_file = conf_file
darelogger.info('Loading conf file %s' % conf_file)
if not os.path.exists(self.conf_file):
raise RuntimeError("Cannot find %s " % self.conf_file)
#parse job conf file
self.config = ConfigParser.ConfigParser()
self.config.read(self.conf_file)
def check_to_start_step(self, step_id):
flags = []
darelogger.info(self.workflow.step_units_repo[step_id].UnitInfo['start_after_steps'])
if self.workflow.step_units_repo[step_id].get_status() == StepUnitStates.New:
for dep_step_id in self.workflow.step_units_repo[step_id].UnitInfo['start_after_steps']:
if self.workflow.step_units_repo[dep_step_id].get_status() != StepUnitStates.Done:
flags.append(False)
darelogger.info(self.workflow.step_units_repo[dep_step_id].get_status())
return False if False in flags else True
def __init__(self, conf_file="/default/conf/file/"):
self.conf_file = conf_file
darelogger.info('Loading conf file %s' % conf_file)
if not os.path.exists(self.conf_file):
raise RuntimeError("Cannot find %s " % self.conf_file)
#parse job conf file
self.config = configparser.ConfigParser()
self.config.read(self.conf_file)
def create_static_workflow(self):
self.process_config_file()
darelogger.info("Done Reading DARE Config File")
self.prepare_pilot_units()
self.prepare_step_units()
self.prepare_compute_units()
self.prepare_data_units()
def start_step(self):
self.step_start_lock.acquire()
step_id = self.start_thread_step_id
self.step_start_lock.release()
while(1):
darelogger.info(" Checking to start step %s " % step_id)
if self.check_to_start_step(step_id):
self.run_step(step_id)
break
else:
darelogger.info(" Cannot start this step %s sleeping..." % step_id)
time.sleep(10)
def check_to_start_step(self, step_id):
flags = []
darelogger.info(self.workflow.step_units_repo[step_id].
UnitInfo['start_after_steps'])
if self.workflow.step_units_repo[step_id].get_status(
) == StepUnitStates.New:
for dep_step_id in self.workflow.step_units_repo[step_id].UnitInfo[
'start_after_steps']:
if self.workflow.step_units_repo[dep_step_id].get_status(
) != StepUnitStates.Done:
flags.append(False)
darelogger.info(
self.workflow.step_units_repo[dep_step_id].get_status())
return False if False in flags else True
def start_step(self):
self.step_start_lock.acquire()
step_id = self.start_thread_step_id
self.step_start_lock.release()
while (1):
darelogger.info(" Checking to start step %s " % step_id)
if self.check_to_start_step(step_id):
self.run_step(step_id)
break
else:
darelogger.info(" Cannot start this step %s sleeping..." %
step_id)
time.sleep(10)
def prepare_compute_units(self):
"""add prepare work dir """
darelogger.info("Starting to prepare Compute Units ")
for step in self.dare_conf_main['steps'].split(','):
darelogger.info("Preparing compute Units: %s"%step)
try:
step_info_from_main_cfg = self.dare_conf_full.SectionDict(step.strip())
except:
darelogger.info("step description section not found for step %s"%step)
sys.exit()
step_cfg_file = step_info_from_main_cfg.get('step_cfg_file', 'undefined_step_file').strip()
if step_cfg_file.lower() == 'default' or step_cfg_file.lower() == 'undefined_step_file':
step_cfg_file = os.path.join(os.path.dirname(os.path.abspath(__file__)), '..', 'daredb', 'echo_hello.cu')
# check if file exists
all_cu_confs= CfgParser(step_cfg_file)
cu_conf = all_cu_confs.SectionDict( step_info_from_main_cfg.get('cu_type', 'default').strip())
#print step_cfg_file
for input_file in step_info_from_main_cfg.get('input_names', '').split(','):
input_file = input_file.strip()
cu_uuid = "cu-%s"%(uuid.uuid1(),)
cu_working_directory = '/tmp/' #data_unit.url
cu_step_id = "step-%s-%s"%(step_info_from_main_cfg.get('step_name').strip(), self.dare_id)
# start work unit
compute_unit_description = {
"executable": cu_conf["executable"],
"arguments": self.prepare_cu_arguments(input_file,cu_conf),
"total_core_count": 1,
"number_of_processes": 1,
#"working_directory": cu_working_directory,
"output":"dare-cu-stdout-"+ cu_uuid +".txt",
"error": "dare-cu-stderr-"+ cu_uuid +".txt",
"affinity_datacenter_label": "%s-adl"%step_info_from_main_cfg.get('resource', self.dare_conf_main['used_pilots'].split(',')[0]).strip(),
"affinity_machine_label": "%s-aml"%step_info_from_main_cfg.get('resource', self.dare_conf_main['used_pilots'].split(',')[0]).strip()
}
self.compute_units_repo[cu_uuid]=compute_unit_description
# add this cu to step
self.step_units_repo[cu_step_id].add_cu(cu_uuid)
darelogger.info("Done preparing compute Units ")
def start(self):
darelogger.info("Creating Compute Engine service ")
self.pilot_compute_service = PilotComputeService(
coordination_url=COORDINATION_URL)
self.pilot_data_service = PilotDataService(
coordination_url=COORDINATION_URL)
for compute_pilot, desc in list(
self.workflow.compute_pilot_repo.items()):
self.pilot_compute_service.create_pilot(
pilot_compute_description=desc)
for data_pilot, desc in list(self.workflow.data_pilot_repo.items()):
self.data_pilot_service_repo.append(
self.pilot_data_service.create_pilot(
pilot_data_description=desc))
self.compute_data_service = ComputeDataServiceDecentral()
self.compute_data_service.add_pilot_compute_service(
self.pilot_compute_service)
self.compute_data_service.add_pilot_data_service(
self.pilot_data_service)
### run the steps
self.step_start_lock = threading.RLock()
self.step_run_lock = threading.RLock()
for step_id in list(self.workflow.step_units_repo.keys()):
darelogger.info(" Sumitted step %s " % step_id)
self.step_start_lock.acquire()
self.start_thread_step_id = step_id
self.step_start_lock.release()
self.step_threads[step_id] = threading.Thread(
target=self.start_step)
self.step_threads[step_id].start()
while (1):
count_step = [
v.is_alive() for k, v in list(self.step_threads.items())
]
darelogger.info('count_step %s' % count_step)
if not True in count_step and len(count_step) > 0:
break
time.sleep(10)
darelogger.info(" All Steps Done processing")
self.quit(message='quit gracefully')
def start(self):
# try:
from pilot import PilotComputeService, PilotDataService, ComputeDataService, State
darelogger.info("Create Compute Engine service ")
self.pilot_compute_service = PilotComputeService(coordination_url=COORDINATION_URL)
self.pilot_data_service = PilotDataService()
for compute_pilot, desc in self.workflow.compute_pilot_repo.items():
self.compute_pilot_service_repo.append(self.pilot_compute_service.create_pilot(pilot_compute_description=desc))
#for data_pilot, desc in self.workflow.data_pilot_repo.items():
# self.data_pilot_service_repo.append(self.pilot_data_service.create_pilot(pilot_data_description=desc))
self.compute_data_service = ComputeDataService()
self.compute_data_service.add_pilot_compute_service(self.pilot_compute_service)
# self.compute_data_service.add_pilot_data_service(self.pilot_data_service)
self.step_thread= {}
### run the steps
self.step_start_lock=threading.RLock()
self.step_run_lock=threading.RLock()
for step_id in self.workflow.step_units_repo.keys():
darelogger.info(" Sumitted step %s "%step_id)
self.step_start_lock.acquire()
self.start_thread_step_id =step_id
self.step_start_lock.release()
self.step_thread[step_id] = threading.Thread(target=self.start_step)
self.step_thread[step_id].start()
while(1):
count_step = [v.is_alive() for k,v in self.step_thread.items()]
darelogger.info('count_step %s'%count_step)
if not True in count_step and len(count_step)>0:
break
time.sleep(10)
darelogger.info(" All Steps Done processing")
self.cancel()
def prepare_pilot_units(self):
darelogger.info("Starting to prepare pilot Units")
pilot_config_file = self.dare_conf_main.get('pilot_config_file', 'default')
for pilot in self.dare_conf_main['used_pilots'].split(','):
pilot = pilot.strip()
compute_pilot_uuid = "compute-pilot-%s-%s"%(pilot, str(uuid.uuid1()))
data_pilot_uuid = "compute-pilot-%s-%s"%(pilot, str(uuid.uuid1()))
pilot_info_from_main_cfg = self.dare_conf_full.SectionDict(pilot)
darelogger.info("Preparing pilot unit for %s"%pilot)
pilot_config_file = pilot_info_from_main_cfg.get('pilot_config_file', "undefined_pilot_file")
if pilot_config_file.lower() == 'default' or pilot_config_file.lower() == 'undefined_pilot_file':
pilot_config_file = os.path.join(os.path.dirname(os.path.abspath(__file__)), '..', 'daredb', 'pilot.cfg')
pilot_config_from_db = CfgParser(pilot_config_file)
info_pilot = pilot_config_from_db.SectionDict(pilot)
# create pilot job service and initiate a pilot job
pilot_compute_description = {
"service_url": info_pilot['service_url'],
"working_directory": info_pilot['working_directory'],
'affinity_datacenter_label': '%s-adl'%pilot,
'affinity_machine_label': '%s-aml'%pilot ,
"number_of_processes": int(pilot_info_from_main_cfg['number_of_processes']),
"walltime" : int(pilot_info_from_main_cfg['walltime'])
}
self.compute_pilot_repo[compute_pilot_uuid] = pilot_compute_description
pilot_data_description={
"service_url": info_pilot['data_service_url'],
"size": 100,
"affinity_datacenter_label": pilot+'-dcl',
"affinity_machine_label": pilot + '-aml'
}
self.data_pilot_repo[data_pilot_uuid] = pilot_data_description
darelogger.info("Done preparing Pilot Units ")
def prepare_step_units(self):
darelogger.info("Starting to prepare Step Units ")
#TODO:: check for same names
for step in self.dare_conf_main['steps'].split(','):
darelogger.info("Preparing Step Units: %s"%step)
try:
step_info_from_main_cfg = self.dare_conf_full.SectionDict(step.strip())
except:
darelogger.info("step description section not found for step %s"%step)
sys.exit()
start_after_steps = []
if step_info_from_main_cfg.get('start_after_steps'):
start_after_steps = ["step-%s-%s"%(k.strip(),self.dare_id) for k in step_info_from_main_cfg.get('start_after_steps').split(',')]
step_unit_uuid = "step-%s-%s"%(step_info_from_main_cfg.get('step_name').strip(), self.dare_id)
info_steps = {
"step_id":step_unit_uuid,
"dare_web_id":self.dare_web_id ,
"name":step_info_from_main_cfg.get('step_name').strip(),
"status": StepUnitStates.New,
"pilot": step_info_from_main_cfg.get('pilot'),
"start_after_steps":start_after_steps ,
"compute_units":[],
"transfer_input_data_units":[],
"transfer_output_data_units":[]
}
su = StepUnit()
su.define_param(info_steps)
self.step_units_repo[step_unit_uuid] = su
darelogger.info("Done preparing Step Units ")
def prepare_data_units(self):
darelogger.info("Starting to prepare Data Units ")
for step in self.dare_conf_main['steps'].split(','):
darelogger.info("Preparing Data Units: %s"%step)
try:
step_info_from_main_cfg = self.dare_conf_full.SectionDict(step.strip())
except:
darelogger.info("step description section not found for step %s"%step)
sys.exit()
#print step_cfg_file
absolute_url_list = step_info_from_main_cfg.get('input_names', '').split(',')
# Create Data Unit Description
# base_dir = "/Users/Sharath/workspace/projects/backups"
# url_list = os.listdir(base_dir)
# absolute_url_list = [os.path.join(base_dir, i) for i in url_list]
du_uuid = "du-%s"%(uuid.uuid1(),)
# make absolute paths
du_step_id = "step-%s-%s"%(step.strip(), self.dare_id)
data_unit_description = {
"file_urls":absolute_url_list,
"affinity_datacenter_label": "eu-de-south",
"affinity_machine_label": "mymachine-1"
}
# submit pilot data to a pilot store
self.data_units_repo[du_uuid]=data_unit_description
# add this cu to step
self.step_units_repo[du_step_id].add_input_du(du_uuid)
def run_step(self, step_id):
#self.step_run_lock.acquire()
#job started update status
this_su = self.workflow.step_units_repo[step_id].UnitInfo
self.updater.update_status(
this_su['dare_web_id'],
"%s in step %s" % ('Running', this_su['name']))
darelogger.info(" Started running %s " % step_id)
jobs = []
job_start_times = {}
job_states = {}
NUMBER_JOBS = len(
self.workflow.step_units_repo[step_id].UnitInfo['compute_units'])
for cu_id in self.workflow.step_units_repo[step_id].UnitInfo[
'compute_units']:
compute_unit_desc = self.workflow.compute_units_repo[cu_id]
input_dus = compute_unit_desc.pop('input_data_units')
output_dus = compute_unit_desc.pop('output_data_units')
input_data_units = []
for du_id in input_dus:
input_data_units.append(
self.compute_data_service.submit_data_unit(
self.workflow.data_units_repo[du_id]))
output_data_units = []
for du_id in output_dus:
output_data_units.append(
self.compute_data_service.submit_data_unit(
self.workflow.data_units_repo[du_id]))
compute_unit_desc["input_data"] = [
du.get_url() for du in input_data_units
]
compute_unit_desc["output_data"] = [{
du.get_url(): ['std*']
} for du in output_data_units]
compute_unit = self.compute_data_service.submit_compute_unit(
compute_unit_desc)
darelogger.info("Compute Unit: Description: \n%s" %
(str(self.workflow.compute_units_repo[cu_id])))
jobs.append(compute_unit)
job_start_times[compute_unit] = time.time()
job_states[compute_unit] = compute_unit.get_state()
darelogger.debug(
"************************ All Jobs submitted ************************"
)
while 1:
finish_counter = 0
result_map = {}
for i in range(0, NUMBER_JOBS):
old_state = job_states[jobs[i]]
state = jobs[i].get_state()
if state in result_map == False:
result_map[state] = 0
result_map[state] = result_map.get(state, 0) + 1
#print "counter: " + str(i) + " job: " + str(jobs[i]) + " state: " + state
if old_state != state:
darelogger.debug("Job " + str(jobs[i]) +
" changed from: " + old_state + " to " +
state)
if old_state != state and self.has_finished(state) == True:
darelogger.info("%s step Job: " %
(self.workflow.step_units_repo[step_id].
UnitInfo['name']) + str(jobs[i]) +
" Runtime: " +
str(time.time() -
job_start_times[jobs[i]]) + " s.")
if self.has_finished(state) == True:
finish_counter = finish_counter + 1
job_states[jobs[i]] = state
darelogger.debug("Current states: " + str(result_map))
time.sleep(5)
if finish_counter == NUMBER_JOBS:
break
self.workflow.step_units_repo[step_id].set_status(StepUnitStates.Done)
#self.compute_data_service.wait()
darelogger.debug(" Compute jobs for step %s complete" % step_id)
#runtime = time.time()-starttime
#all jobs done update status
self.updater.update_status(this_su['dare_web_id'],
"%s is Done" % this_su['name'])
def run_step(self, step_id):
#self.step_run_lock.acquire()
#job started update status
this_su = self.workflow.step_units_repo[step_id].UnitInfo
self.updater.update_status(this_su['dare_web_id'], "%s in step %s" % ('Running', this_su['name']))
darelogger.info(" Started running %s " % step_id)
jobs = []
job_start_times = {}
job_states = {}
NUMBER_JOBS = len(self.workflow.step_units_repo[step_id].UnitInfo['compute_units'])
for cu_id in self.workflow.step_units_repo[step_id].UnitInfo['compute_units']:
compute_unit_desc = self.workflow.compute_units_repo[cu_id]
input_dus = compute_unit_desc.pop('input_data_units')
output_dus = compute_unit_desc.pop('output_data_units')
input_data_units = []
for du_id in input_dus:
input_data_units.append(self.compute_data_service.submit_data_unit(self.workflow.data_units_repo[du_id]))
output_data_units = []
for du_id in output_dus:
output_data_units.append(self.compute_data_service.submit_data_unit(self.workflow.data_units_repo[du_id]))
compute_unit_desc["input_data"] = [du.get_url() for du in input_data_units]
compute_unit_desc["output_data"] = [{du.get_url(): ['std*']} for du in output_data_units]
compute_unit = self.compute_data_service.submit_compute_unit(compute_unit_desc)
darelogger.info("Compute Unit: Description: \n%s" % (str(self.workflow.compute_units_repo[cu_id])))
jobs.append(compute_unit)
job_start_times[compute_unit] = time.time()
job_states[compute_unit] = compute_unit.get_state()
darelogger.debug("************************ All Jobs submitted ************************")
while 1:
finish_counter = 0
result_map = {}
for i in range(0, NUMBER_JOBS):
old_state = job_states[jobs[i]]
state = jobs[i].get_state()
if state in result_map == False:
result_map[state] = 0
result_map[state] = result_map.get(state, 0) + 1
#print "counter: " + str(i) + " job: " + str(jobs[i]) + " state: " + state
if old_state != state:
darelogger.debug("Job " + str(jobs[i]) + " changed from: " + old_state + " to " + state)
if old_state != state and self.has_finished(state) == True:
darelogger.info("%s step Job: " % (self.workflow.step_units_repo[step_id].UnitInfo['name']) + str(jobs[i]) + " Runtime: " + str(time.time() - job_start_times[jobs[i]]) + " s.")
if self.has_finished(state) == True:
finish_counter = finish_counter + 1
job_states[jobs[i]] = state
darelogger.debug("Current states: " + str(result_map))
time.sleep(5)
if finish_counter == NUMBER_JOBS:
break
self.workflow.step_units_repo[step_id].set_status(StepUnitStates.Done)
#self.compute_data_service.wait()
darelogger.debug(" Compute jobs for step %s complete" % step_id)
#runtime = time.time()-starttime
#all jobs done update status
self.updater.update_status(this_su['dare_web_id'], "%s is Done" % this_su['name'])
