def create_paramsweeper(parameters, result_dir):
"""Generate an iterator over combination parameters
This function initializes a `ParamSweeper` as an iterator over the possible
parameters space (The dictionary of parameters space is created from the
`define_parameters` function.). The detail information about the `ParamSweeper`
can be found here: http://execo.gforge.inria.fr/doc/latest-stable/execo_engine.html#paramsweeper
Parameters
----------
parameters: dict
a dictionary contains the parameters space
key: str, the name of the experiment parameter
value: list, a list of possible values for a parameter of the experiment
result_dir: str
the path to the result directory on the disk for `ParamSweeper` to persist
the state of combinations
Returns
-------
ParamSweeper
an instance of the `ParamSweeper` object.
"""
logger.debug('Parameters:\n%s' % parameters)
sweeps = sweep(parameters)
sweeper = ParamSweeper(os.path.join(result_dir, "sweeps"), sweeps)
logger.info('-----> TOTAL COMBINATIONS: %s', len(sweeps))
if len(sweeper.get_remaining()) < len(sweeps):
logger.info('%s combinations remaining\n' % len(sweeper.get_remaining()))
return sweeper
def define_parameters(self):
""" """
parameters = self.get_parameters("conf.xml")
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def define_parameters(self):
nbNodes = len(self.cluster)
# build parameters and make nbCore list per benchmark
freqList = [2534000, 2000000, 1200000]
n_nodes = float(len(self.cluster))
max_core = SshProcess('cat /proc/cpuinfo | grep -i processor |wc -l',
self.cluster[0],
connection_params={
'user': '******'
}).run().stdout
max_core = n_nodes * float(max_core)
even = filter(
lambda i: i > n_nodes,
list(takewhile(lambda i: i < max_core,
(2**i for i in count(0, 1)))))
powerTwo = filter(
lambda i: i > n_nodes,
list(takewhile(lambda i: i < max_core,
(i**2 for i in count(0, 1)))))
# Define parameters
self.parameters = {
'Repeat': [1],
"Freq": [2534000],
"NPBclass": ['C'],
"Benchmark": {
# 'ft': {
# 'n_core': even
# },
# 'ep': {
# 'n_core': even
# },
# 'lu': {
# 'n_core': even
# },
# 'is': {
# 'n_core': even
# },
# 'sg': {
# 'n_core': even
# },
# 'bt': {
# 'n_core': powerTwo
# },
'sp': {
'n_core': powerTwo
}
}
}
logger.info(self.parameters)
# make all possible parameters object,
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def define_parameters(self):
""" """
parameters = {
'blas' : ['none','mkl','atlas','openblas'],
'experiment' : ['aevol','raevol'],
'compilator' : ['gcc','intel'],
'parallel' : ['openmp','tbb']
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"), sweeps)
logger.info('Number of parameters combinations %s', len(self.sweeper.get_remaining()))
def define_parameters(self):
"""Create the iterator that contains the parameters to be explored """
self.parameters = {
'sizes': [100],
'zipf': [1],
'pop_keys': [100],
'min_size': [500, 1000],
'int_phases': [1, 2, 3, 4, 5, 10],
'iosf': [100]
}
logger.info(self.parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def define_parameters(self):
""" """
parameters = {
'seed': [
51456165, 33263658, 7158785, 456847894, 1223144, 878944,
121145, 3587842
],
'mutation': ['5e-4', '1e-4', '5e-5', '5e-6'],
'env': ['const', 'lat_3', 'lat_all'],
'selection': [750, 2000, 4000]
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def create_paramsweeper(self):
"""Generate an iterator over combination parameters"""
if self.parameters is None:
parameters = self.define_parameters()
logger.detail(pformat(parameters))
sweeps = sweep(parameters)
logger.info('% s combinations', len(sweeps))
self.sweeper = ParamSweeper(path.join(self.result_dir, "sweeps"),
sweeps)
def create_sweeper(self):
"""Define the parameter space and return a sweeper."""
parameters = {
'RA': ['1.e5', '1.e6', '1.e7'],
'RCMB' : [2.],
'KFe' : [0.85, 0.9, 0.95, 0.99]
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
def create_paramsweeper(self):
"""Test all the sites, with or without a KaVLAN and for several env."""
params = {
"version": ['kadeploy3-dev', 'kadeploy3'],
"kavlan": [True, False],
"site": get_g5k_sites(),
"n_nodes": [1, 4, 10],
"env": ['wheezy-x64-base', 'wheezy-x64-prod', 'wheezy-x64-xen']
}
logger.info('Defining parameters: %s', pformat(params))
combs = sweep(params)
return ParamSweeper(self.result_dir + "/sweeper", combs)
def define_parameters(self):
"""Create the iterator that contains the parameters to be explored """
self.parameters = {
'sizes': [100],
'zipf': [1],
'pop_keys': [100],
'min_size': [500, 1000],
'int_phases': [1, 2, 3, 4, 5, 10],
'iosf': [100]
}
logger.info(self.parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s', len(self.sweeper.get_remaining()))
def define_parameters(self):
"""
Define the parametters used by the L2C application
"""
parameters = {
'cluster': [
cluster for site in ['grenoble', 'nancy']
for cluster in get_site_clusters(site) if cluster != 'graphite'
],
'cores': {i: {
'px': expRange(1, i)
}
for i in expRange(4, 64)},
'datasize':
expRange(256, 256),
'transposition': ['XYZ', 'XZY', 'YXZ', 'YZX', 'ZXY', 'ZYX']
}
logger.info(pformat(parameters))
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def define_parameters(self):
"""Create the iterator on the parameters combinations to be explored"""
# fixed number of nodes
self.n_nodes = 4
# choose a list of clusters
clusters = ['graphene', 'petitprince', 'edel', 'paradent', 'stremi']
#clusters = ['petitprince', 'paradent']
# compute the maximum number of cores among all clusters
max_core = self.n_nodes * max([
get_host_attributes(cluster + '-1')['architecture']['smt_size']
for cluster in clusters])
# define the parameters
self.parameters = {
'cluster' : clusters,
'n_core': filter(lambda i: i >= self.n_nodes,
list(takewhile(lambda i: i<max_core,
(2**i for i in count(0, 1))))),
'size' : ['A', 'B', 'C']
}
logger.info(self.parameters)
# define the iterator over the parameters combinations
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s' % len(self.sweeper.get_remaining()))
def define_parameters(self):
"""
Define the parametters used by the L2C application
"""
parameters = {
'cluster': [cluster for site in ['grenoble', 'nancy']
for cluster in get_site_clusters(site) if cluster != 'graphite'],
'cores': {i: {'px': expRange(1, i)}
for i in expRange(4, 64)},
'datasize': expRange(256, 256),
'transposition': ['XYZ', 'XZY', 'YXZ', 'YZX', 'ZXY', 'ZYX']}
logger.info(pformat(parameters))
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"), sweeps)
logger.info('Number of parameters combinations %s', len(self.sweeper.get_remaining()))
def run(self):
""" """
token = 'bRIJb9jp5igAAAAAAAAACc5QzQ619Vp0pYa2PdIrt0q2y0qFyJgwrKvtzuTp3Sz_'
client = dropbox.client.DropboxClient(token)
parameters = {'size': igeom(128, 2048, 5), 'db_if': ['rest', 'sdk']}
combs = sweep(parameters)
sweeper = ParamSweeper(self.result_dir + "/sweeps", combs)
f = open(self.result_dir + '/results.txt', 'w')
while len(sweeper.get_remaining()) > 0:
comb = sweeper.get_next()
logger.info('Treating combination %s', pformat(comb))
comb_dir = self.result_dir + '/' + slugify(comb)
try:
os.mkdir(comb_dir)
except:
pass
fname = self.create_file(comb['size'])
timer = Timer()
if comb['db_if'] == 'sdk':
self.upload_file_sdk(client, fname, fname.split('/')[-1])
up_time = timer.elapsed()
self.download_file_sdk(client,
fname.split('/')[-1],
comb_dir + fname.split('/')[-1])
dl_time = timer.elapsed() - up_time
sweeper.done(comb)
elif comb['db_if'] == 'rest':
logger.warning('REST interface not implemented')
sweeper.skip(comb)
continue
os.remove(fname)
f.write("%f %i %f %f \n" %
(timer.start_date(), comb['size'], up_time, dl_time))
f.close()
def run(self):
""" """
token = 'bRIJb9jp5igAAAAAAAAACc5QzQ619Vp0pYa2PdIrt0q2y0qFyJgwrKvtzuTp3Sz_'
client = dropbox.client.DropboxClient(token)
parameters = {'size': igeom(128, 2048, 5),
'db_if': ['rest', 'sdk']}
combs = sweep(parameters)
sweeper = ParamSweeper(self.result_dir + "/sweeps", combs)
f = open(self.result_dir + '/results.txt', 'w')
while len(sweeper.get_remaining()) > 0:
comb = sweeper.get_next()
logger.info('Treating combination %s', pformat(comb))
comb_dir = self.result_dir + '/' + slugify(comb)
try:
os.mkdir(comb_dir)
except:
pass
fname = self.create_file(comb['size'])
timer = Timer()
if comb['db_if'] == 'sdk':
self.upload_file_sdk(client, fname, fname.split('/')[-1])
up_time = timer.elapsed()
self.download_file_sdk(client, fname.split('/')[-1],
comb_dir + fname.split('/')[-1])
dl_time = timer.elapsed() - up_time
sweeper.done(comb)
elif comb['db_if'] == 'rest':
logger.warning('REST interface not implemented')
sweeper.skip(comb)
continue
os.remove(fname)
f.write("%f %i %f %f \n" % (timer.start_date(), comb['size'],
up_time, dl_time))
f.close()
def run(self):
""" run method from engine in order to do our workflow """
mongo = ClientMongo()
size = dict
if not self.options.file:
if not self.options.only:
size = {
1,
long(self.options.size * 0.25),
long(self.options.size * 0.5),
long(self.options.size * 0.75),
long(self.options.size)
}
else:
size = {long(self.options.size)}
else:
if self.OnlyDownload:
size = getFilSize(self.options.file)
else:
size = {0}
drive = None
if self.options.drive:
drive = self.options.drive
else:
drive = self.drive
interface = ['rest', 'sdk']
parameters = {
'size': size,
'if': interface,
'drive': drive,
'transfert': self.transfert
}
p = None
for n in range(0, int(self.options.ntest), 1):
logger.info('---------------------')
logger.info('Round %i', n + 1)
combs = sweep(parameters)
date = datetime.datetime.now().strftime("%Y-%m-%d_%H-%M-%S")
pathResults = os.getcwd() + '/Results/Bench' + date
sweeper = ParamSweeper(pathResults + "/sweeps", combs)
f = open(pathResults + '/results.txt', 'w')
while len(sweeper.get_remaining()) > 0:
# sort the parameters
for i in interface:
for dr in drive:
for s in size:
comb = sweeper.get_next(filtr=lambda r: filter(
lambda x: x['drive'] == dr and x['size'] == s
and x['if'] == i, r))
if not comb: continue
# start of the workflow
if comb['drive'] == 'amazon':
p = providerS3.ProviderS3()
elif comb['drive'] == 'dropbox':
p = providerDB.ProviderDB()
else:
p = providerGD.ProviderGD()
logger.info('Treating combination %s',
pformat(comb))
comb_dir = pathResults + '/' + slugify(comb)
if not os.path.isdir(comb_dir):
os.mkdir(comb_dir)
if not self.options.file:
fname = self.create_file(comb['size'])
else:
fname = self.options.file
timer = Timer()
up_time = 0
dl_time = 0
start_date = datetime.datetime.now()
if comb['if'] == 'sdk':
if p.provider_name == "amazon":
# AMAZON
clientAmz = p.getConnexion()
if self.OnlyDownload:
p.bucketKey += fname
else:
p.bucketKey += '/' + fname
if comb['transfert'] == "upload" or comb[
'transfert'] == 'upDown':
p.upload_file_sdk(
clientAmz.get_bucket(p.bucketName),
p.bucketKey, fname)
up_time = timer.elapsed()
if comb['transfert'] == "download" or comb[
'transfert'] == 'upDown':
p.download_file_sdk(
clientAmz.get_bucket(p.bucketName),
p.bucketKey, comb_dir + '/' +
fname.split('/')[-1])
dl_time = timer.elapsed() - up_time
if not self.OnlyDownload:
p.delete_file_sdk(
clientAmz.get_bucket(p.bucketName),
p.bucketKey)
elif p.provider_name == "dropbox":
# DROPBOX
client = p.getToken()
if comb['transfert'] == "upload" or comb[
'transfert'] == 'upDown':
p.upload_file_sdk(
client, fname,
fname.split('/')[-1])
up_time = timer.elapsed()
if comb['transfert'] == "download" or comb[
'transfert'] == 'upDown':
p.download_file_sdk(
client,
fname.split('/')[-1], comb_dir +
'/' + fname.split('/')[-1])
dl_time = timer.elapsed() - up_time
if not self.OnlyDownload:
p.delete_file(client,
fname.split('/')[-1])
elif p.provider_name == "googledrive":
# GOOGLEDRIVE
drive_service = p.getConnexion()
new_file = None
if comb['transfert'] == 'upload' or comb[
'transfert'] == 'upDown':
new_file = p.upload_file_sdk(
drive_service, fname,
fname.split('/')[-1], 'text/plain')
up_time = timer.elapsed()
if comb['transfert'] == 'download' or comb[
'transfert'] == 'upDown':
p.download_file_sdk(
drive_service, new_file, comb_dir +
'/' + fname.split('/')[-1])
dl_time = timer.elapsed() - up_time
if not self.OnlyDownload:
p.delete_file_sdk(
drive_service, new_file['id'])
sweeper.done(comb)
elif comb['if'] == 'rest':
logger.warning(
'REST interface not implemented')
sweeper.skip(comb)
if not self.OnlyDownload:
# logger.info('delete de '+fname)
if os.path.isfile(fname):
os.remove(fname)
# delete only if rest is implmented
# os.remove(comb_dir + '/' + fname.split('/')[-1])
continue
if comb['transfert'] == "upload" or comb[
'transfert'] == "upDown":
f.write("%s %s %s %s %s %s %s %f %i %s %f\n" %
(self.localisation['ip'],
self.localisation['lat'],
self.localisation['lon'],
self.localisation['city'],
self.localisation['country'],
comb['drive'], comb['if'],
timer.start_date(), comb['size'],
"upload", up_time))
mongo.collection.insert({
'ip':
self.localisation['ip'],
'latitude':
self.localisation['lat'],
'longitude':
self.localisation['lon'],
'city':
self.localisation['city'],
'country':
self.localisation['country'],
'drive':
comb['drive'],
'interface':
comb['if'],
'start_date':
start_date,
'size':
comb['size'],
'transfert':
'upload',
'time':
up_time
})
if comb['transfert'] == "download" or comb[
'transfert'] == "upDown":
f.write("%s %s %s %s %s %s %s %f %i %s %f\n" %
(self.localisation['ip'],
self.localisation['lat'],
self.localisation['lon'],
self.localisation['city'],
self.localisation['country'],
comb['drive'], comb['if'],
timer.start_date(), comb['size'],
"download", dl_time))
mongo.collection.insert({
'ip':
self.localisation['ip'],
'latitude':
self.localisation['lat'],
'longitude':
self.localisation['lon'],
'city':
self.localisation['city'],
'country':
self.localisation['country'],
'drive':
comb['drive'],
'interface':
comb['if'],
'start_date':
start_date,
'size':
comb['size'],
'transfert':
'download',
'time':
dl_time
})
if not self.OnlyDownload:
# logger.info('delete de '+fname)
if os.path.isfile(fname):
os.remove(fname)
if os.path.isfile(comb_dir + '/' + fname):
os.remove(comb_dir + '/' +
fname.split('/')[-1])
f.close()
# delete the Bench Folder
os.rmdir(self.result_dir)
logger.info("---------------------------------------")
for t in check_Exp_database(self.options, self.localisation)['result']:
logger.info(t)
def run(self):
# Defining experiment parameters
self.parameters = {
'n_clients': [400, 450, 500, 550, 600],
'n_transitions': [10000]
}
cluster = 'griffon'
sweeps = sweep(self.parameters)
sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"), sweeps)
server_out_path = os.path.join(self.result_dir, "server.out")
self._updateStat(sweeper.stats())
# Loop on the number of nodes
while True:
# Taking the next parameter combinations
comb = sweeper.get_next()
if not comb: break
# Performing the submission on G5K
site = get_cluster_site(cluster)
self._log("Output will go to " + self.result_dir)
n_nodes = int(math.ceil(float(comb['n_clients']) / EX5.get_host_attributes(cluster + '-1')['architecture']['smt_size'])) + 1
self._log("Reserving {0} nodes on {1}".format(n_nodes, site))
resources = "{cluster=\\'" + cluster + "\\'}/nodes=" + str(n_nodes)
submission = EX5.OarSubmission(resources = resources, job_type = 'allow_classic_ssh', walltime ='00:10:00')
job = EX5.oarsub([(submission, site)])
self.__class__._job = job
# Sometimes oarsub fails silently
if job[0][0] is None:
print("\nError: no job was created")
sys.exit(1)
# Wait for the job to start
self._log("Waiting for job {0} to start...\n".format(BOLD_MAGENTA + str(job[0][0]) + NORMAL))
EX5.wait_oar_job_start(job[0][0], job[0][1], prediction_callback = prediction)
nodes = EX5.get_oar_job_nodes(job[0][0], job[0][1])
# Deploying nodes
#deployment = EX5.Deployment(hosts = nodes, env_file='path_to_env_file')
#run_deploy = EX5.deploy(deployment)
#nodes_deployed = run_deploy.hosts[0]
# Copying active_data program on all deployed hosts
EX.Put([nodes[0]], '../dist/active-data-lib-0.1.2.jar', connexion_params = {'user': '******'}).run()
EX.Put([nodes[0]], '../server.policy', connexion_params = {'user': '******'}).run()
# Loop on the number of requests per client process
while True:
# Split the nodes
clients = nodes[1:]
server = nodes[0]
self._log("Running experiment with {0} nodes and {1} transitions per client".format(len(clients), comb['n_transitions']))
# Launching Server on one node
out_handler = FileOutputHandler(server_out_path)
launch_server = EX.Remote('java -jar active-data-lib-0.1.2.jar', [server], stdout_handler = out_handler, stderr_handler = out_handler).start()
self._log("Server started on " + server.address)
time.sleep(2)
# Launching clients
rank=0
n_cores = EX5.get_host_attributes(clients[0])['architecture']['smt_size'];
cores = nodes * n_cores
cores = cores[0:comb['n_clients']] # Cut out the additional cores
client_connection_params = {
'taktuk_gateway': 'lyon.grid5000.fr',
'host_rewrite_func': None
}
self._log("Launching {0} clients...".format(len(cores)))
client_cmd = "/usr/bin/env java -cp /home/ansimonet/active-data-lib-0.1.2.jar org.inria.activedata.examples.perf.TransitionsPerSecond " + \
"{0} {1} {2} {3} {4}".format(server.address, 1200, "{{range(len(cores))}}", len(cores), comb['n_transitions'])
client_out_handler = FileOutputHandler(os.path.join(self.result_dir, "clients.out"))
client_request = EX.TaktukRemote(client_cmd, cores, connexion_params = client_connection_params, \
stdout_handler = client_out_handler, stderr_handler = client_out_handler)
client_request.run()
if not client_request.ok():
# Some client failed, please panic
self._log("One or more client process failed. Enjoy reading their outputs.")
self._log("OUTPUT STARTS -------------------------------------------------\n")
for process in client_request.processes():
print("----- {0} returned {1}".format(process.host().address, process.exit_code()))
if not process.stdout() == "": print(GREEN + process.stdout() + NORMAL)
if not process.stderr() == "": print(RED + process.stderr() + NORMAL)
print("")
self._log("OUTPUT ENDS ---------------------------------------------------\n")
sweeper.skip(comb)
launch_server.kill()
launch_server.wait()
else:
# Waiting for server to end
launch_server.wait()
# Getting log files
distant_path = OUT_FILE_FORMAT.format(len(cores), comb['n_transitions'])
local_path = distant_path
EX.Get([server], distant_path).run()
EX.Local('mv ' + distant_path + ' ' + os.path.join(self.result_dir, local_path)).run()
EX.Get([server], 'client_*.out', local_location = self.result_dir)
EX.Remote('rm -f client_*.out', [server])
self._log("Finishing experiment with {0} clients and {1} transitions per client".format(comb['n_clients'], comb['n_transitions']))
sweeper.done(comb)
sub_comb = sweeper.get_next (filtr = lambda r: filter(lambda s: s["n_clients"] == comb['n_clients'], r))
self._updateStat(sweeper.stats())
if not sub_comb:
# Killing job
EX5.oar.oardel(job)
self.__class__._job = None
break
else:
comb = sub_comb
print ""
class fp_hadoop(Engine):
def __init__(self):
""" Surchargement la methode init pour ajouter des options"""
super(fp_hadoop, self).__init__()
self.options_parser.set_usage("usage: %prog <cluster>")
self.options_parser.add_argument(
"cluster", "The cluster on which to run the experiment")
self.options_parser.add_option("-k",
dest="keep_alive",
help="keep reservation alive ..",
action="store_true")
self.options_parser.add_option("-j",
dest="oar_job_id",
help="oar_job_id to relaunch an engine",
type=int)
self.options_parser.add_option("-o",
dest="outofchart",
help="Run the engine outside days",
action="store_true")
self.n_nodes = 10
self.options_parser.add_option("-w",
dest="walltime",
help="walltime for the reservation",
type="string",
default="3:00:00")
def xp(self, comb):
comb_ok = False
try:
""" tout ton xp """
comb_ok = True
finally:
if comb_ok:
self.sweeper.done(comb)
else:
self.sweeper.cancel(comb)
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def run(self):
"""Inherited method, put here the code for running the engine"""
self.define_parameters()
self.cluster = self.args[0]
self.site = get_cluster_site(self.cluster)
if self.options.oar_job_id:
self.oar_job_id = self.options.oar_job_id
else:
self.oar_job_id = None
try:
# Creation of the main iterator which is used for the first control loop.
# You need have a method called define_parameters, that returns a list of parameter dicts
self.define_parameters()
job_is_dead = False
# While they are combinations to treat
while len(self.sweeper.get_remaining()) > 0:
# If no job, we make a reservation and prepare the hosts for the experiments
if job_is_dead or self.oar_job_id is None:
self.make_reservation()
# Retrieving the hosts and subnets parameters
self.hosts = get_oar_job_nodes(self.oar_job_id, self.frontend)
# Hosts deployment
deployed, undeployed = deploy(
Deployment(self.hosts,
env_file="/home/mliroz/deploys/hadoop6.env"))
logger.info("%i deployed, %i undeployed" %
(len(deployed), len(undeployed)))
if len(deployed) == 0:
break
# Configuration du systeme => look at the execo_g5k.topology module
attr = get_host_attributes(self.cluster + '-1')
## SETUP FINISHED
# Getting the next combination
comb = self.sweeper.get_next()
self.prepare_dataset(comb)
self.xp(comb)
# subloop over the combinations that have the same sizes
while True:
newcomb = self.sweeper.get_next(lambda r: filter(
lambda subcomb: subcomb['sizes'] == comb['sizes'], r))
if newcomb:
try:
self.xp(newcomb)
except:
break
else:
break
if get_oar_job_info(self.oar_job_id,
self.frontend)['state'] == 'Error':
job_is_dead = True
finally:
if self.oar_job_id is not None:
if not self.options.keep_alive:
logger.info('Deleting job')
oardel([(self.oar_job_id, self.frontend)])
else:
logger.info('Keeping job alive for debugging')
def define_parameters(self):
"""Create the iterator that contains the parameters to be explored """
self.parameters = {
'sizes': [100],
'zipf': [1],
'pop_keys': [100],
'min_size': [500, 1000],
'int_phases': [1, 2, 3, 4, 5, 10],
'iosf': [100]
}
logger.info(self.parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def _get_nodes(self, starttime, endtime):
""" """
planning = get_planning(elements=[self.cluster],
starttime=starttime,
endtime=endtime,
out_of_chart=self.options.outofchart)
slots = compute_slots(planning, self.options.walltime)
startdate = slots[0][0]
i_slot = 0
n_nodes = slots[i_slot][2][self.cluster]
while n_nodes < self.n_nodes:
logger.debug(slots[i_slot])
startdate = slots[i_slot][0]
n_nodes = slots[i_slot][2][self.cluster]
i_slot += 1
if i_slot == len(slots) - 1:
return False, False
return startdate, self.n_nodes
def make_reservation(self):
"""Perform a reservation of the required number of nodes"""
logger.info('Performing reservation')
starttime = int(time.time() +
timedelta_to_seconds(datetime.timedelta(minutes=1)))
endtime = int(
starttime +
timedelta_to_seconds(datetime.timedelta(days=3, minutes=1)))
startdate, n_nodes = self._get_nodes(starttime, endtime)
while not n_nodes:
logger.info('No enough nodes found between %s and %s, ' + \
'increasing time window',
format_date(starttime), format_date(endtime))
starttime = endtime
endtime = int(
starttime +
timedelta_to_seconds(datetime.timedelta(days=3, minutes=1)))
startdate, n_nodes = self._get_nodes(starttime, endtime)
if starttime > int(time.time() +
timedelta_to_seconds(datetime.timedelta(
weeks=6))):
logger.error('There are not enough nodes on %s for your ' + \
'experiments, abort ...', self.cluster)
exit()
jobs_specs = get_jobs_specs({self.cluster: n_nodes},
name=self.__class__.__name__)
sub = jobs_specs[0][0]
sub.walltime = self.options.walltime
sub.additional_options = '-t deploy'
sub.reservation_date = startdate
(self.oar_job_id, self.frontend) = oarsub(jobs_specs)[0]
logger.info('Startdate: %s, n_nodes: %s', format_date(startdate),
str(n_nodes))
class DVFS(Engine):
def __init__(self, result_dir, cluster, site):
Engine.__init__(self)
self.result_dir = result_dir
self.cluster = cluster
self.site = site
def run(self):
"""Inherited method, put here the code for running the engine"""
self.define_parameters()
self.run_xp()
def define_parameters(self):
nbNodes = len(self.cluster)
# build parameters and make nbCore list per benchmark
freqList = [2534000, 2000000, 1200000]
n_nodes = float(len(self.cluster))
max_core = SshProcess('cat /proc/cpuinfo | grep -i processor |wc -l',
self.cluster[0],
connection_params={
'user': '******'
}).run().stdout
max_core = n_nodes * float(max_core)
even = filter(
lambda i: i > n_nodes,
list(takewhile(lambda i: i < max_core,
(2**i for i in count(0, 1)))))
powerTwo = filter(
lambda i: i > n_nodes,
list(takewhile(lambda i: i < max_core,
(i**2 for i in count(0, 1)))))
# Define parameters
self.parameters = {
'Repeat': [1],
"Freq": [2534000],
"NPBclass": ['C'],
"Benchmark": {
# 'ft': {
# 'n_core': even
# },
# 'ep': {
# 'n_core': even
# },
# 'lu': {
# 'n_core': even
# },
# 'is': {
# 'n_core': even
# },
# 'sg': {
# 'n_core': even
# },
# 'bt': {
# 'n_core': powerTwo
# },
'sp': {
'n_core': powerTwo
}
}
}
logger.info(self.parameters)
# make all possible parameters object,
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def run_xp(self):
master = self.cluster[0]
opt = ''
"""Iterate over the parameters and execute the bench"""
while len(self.sweeper.get_remaining()) > 0:
# Take sweeper
comb = self.sweeper.get_next()
logger.info('Processing new combination %s' % (comb, ))
try:
# metric from linux sar tools, works with clock
def takeMetric(
path,
startTime,
endTime,
metric=['cpu', 'mem', 'disk', 'swap', 'network']):
opt = ''
cmd_template_sar = (
"sar -f /var/log/sysstat/sa* -{opt} -s {startTime} -e {endTime}"
)
for met in metric:
if met == 'cpu':
opt = 'u'
elif met == 'mem':
opt = 'r'
elif met == 'disk':
opt = 'dp'
elif met == 'swap':
opt = 'S'
elif met == 'network':
opt = 'n DEV'
cmd = cmd_template_sar.format(opt=opt,
startTime=startTime,
endTime=endTime)
for host in self.cluster:
hE = SshProcess(cmd,
host,
connection_params={'user': '******'})
hE.run()
stdMetric = host + '-' + met + '.txt'
with open(os.path.join(path, stdMetric),
"w") as sout:
sout.write(hE.stdout)
#Set CPU Freq and Policy according current combination
cmd_template_Freq_Policy = ("cpufreq-set -r -g {policy}")
cmd_template_Freq = ("cpufreq-set -r -f {freq}")
if comb['Freq'] == 'OnDemand':
cmd_freq_policy = cmd_template_Freq_Policy.format(
policy='ondemand')
Remote(cmd_freq_policy,
master,
connection_params={
'user': '******'
}).run()
elif comb['Freq'] == 'conservative':
cmd_freq_policy = cmd_template_Freq_Policy.format(
policy='conservative')
Remote(cmd_freq_policy,
master,
connection_params={
'user': '******'
}).run()
else:
cmd_freq_policy = cmd_template_Freq_Policy.format(
policy='userspace')
Remote(cmd_freq_policy,
master,
connection_params={
'user': '******'
}).run()
cmd_freq = cmd_template_Freq.format(freq=comb['Freq'])
Remote(cmd_freq,
master,
connection_params={
'user': '******'
}).run()
# build command
src = 'source /opt/intel-performance-snapshoot/apsvars.sh'
cmd_mpirun_template = (
"mpirun {opt} -f /root/cluster.txt -np {pr1} aps -r '/tmp/log/' /tmp/NPB/npb-mpi/bin/{typeNPB}.{NPBclass}.{pr2}"
)
cmd_mpirun = cmd_mpirun_template.format(
opt='',
pr1=comb['n_core'],
typeNPB=comb['Benchmark'],
NPBclass=comb['NPBclass'],
pr2=comb['n_core'])
cmd = "{}; /tmp/NPB/bin/runMPI.sh '{}' '{}'".format(
src, cmd_mpirun, slugify(comb))
curPath = self.result_dir + slugify(comb)
# run Mpi through execo remote SshProcess
def runMpi(cmd):
act = SshProcess(cmd,
master,
connection_params={'user': '******'},
shell=True)
act.run()
if not os.path.exists(curPath):
os.makedirs(curPath)
with open(os.path.join(curPath, "stdout.txt"),
"a+") as sout, open(
os.path.join(curPath, "stderr.txt"),
"w") as serr:
sout.write(act.stdout)
serr.write(act.stderr)
return act.ok
# start clock and exec command in the master node
time.sleep(5)
startUnix = int(time.time())
start24Hour = datetime.datetime.fromtimestamp(
startUnix).strftime('%H:%M:%S')
task1 = runMpi(cmd)
endUnix = int(time.time())
end24Hour = datetime.datetime.fromtimestamp(endUnix).strftime(
'%H:%M:%S')
time.sleep(5)
with open(os.path.join(curPath, "executionTime.txt"),
"w") as sout:
sout.write(
'ExecTime:{}\nStartDate:{}\nEndDate:{}\n'.format(
str(endUnix - startUnix), start24Hour, end24Hour))
takeMetric(curPath, start24Hour, end24Hour,
['cpu', 'mem', 'disk', 'swap', 'network'])
# collect power from kWAPI: grid5000 infrastructure made tool
for hostname in self.cluster:
powerOut = '{}_power'.format(hostname)
collect_metric(startUnix, endUnix, 'power', curPath,
self.site, powerOut, hostname)
st = '/tmp/out/' + slugify(comb)
intelAppPerf = str(st + '.html')
# get the data from ['Application Performance Snapshot', 'Storage Performance Snapshot']
# https://software.intel.com/en-us/performance-snapshot
Get(master, [intelAppPerf],
curPath,
connection_params={
'user': '******'
}).run()
if task1:
logger.info("comb ok: %s" % (comb, ))
self.sweeper.done(comb)
continue
except OSError as err:
print("OS error: {0}".format(err))
except ValueError:
print("Could not convert data to an integer.")
except:
print("Unexpected error:", sys.exc_info()[0])
raise
logger.info("comb NOT ok: %s" % (comb, ))
self.sweeper.cancel(comb)
class l2c_fft(Engine):
workingPath = '/home/jrichard/l2c-fft-new-distrib/bin'
genLadScript = '/home/jrichard/l2c-fft-new-distrib/src/utils/gen-lad/genPencil.py'
def run(self):
"""
Main engine method to perform the experiment
"""
self.define_parameters()
while len(self.sweeper.get_remaining()) > 0:
# Getting the next combination
comb = self.sweeper.get_next()
logger.info(style.host(slugify(comb)) + ' has been started')
self.get_nodes(comb)
# If the job is broken, the program is stopped
if get_oar_job_info(self.oar_job_id,
self.frontend)['state'] == 'Error':
break
try:
self.workflow(comb)
# Process all combinations that can use the same submission
while True:
# Find the next combination combinations that can use the same submission
subcomb = self.sweeper.get_next(lambda r: filter(
lambda x: x['cores'] == comb['cores'] and x['cluster']
== comb['cluster'], r))
if not subcomb:
logger.info(
'No more combination for cluster=%s and cores=%s',
comb['cluster'], comb['cores'])
break
else:
logger.info(
style.host(slugify(subcomb)) + ' has been started')
if get_oar_job_info(self.oar_job_id,
self.frontend)['state'] != 'Error':
self.workflow(subcomb)
else:
break
# Whatever happens (errors, end of loop), the job is deleted
finally:
logger.info('Deleting job...')
oardel([(self.oar_job_id, self.frontend)])
def workflow(self, comb):
"""
Compute one application launch
using a given parameter group
"""
comb_ok = False
try:
# Generate configuration file needed by MPI processes
logger.info("Generating assembly file...")
py = comb['cores'] / comb['px']
prepare = Process(
'cd %s && python %s %d %d %d %d %d %s app.lad' %
(self.workingPath, self.genLadScript, comb['datasize'],
comb['datasize'], comb['datasize'], comb['px'], py,
comb['transposition']))
prepare.shell = True
prepare.run()
# Generate the MPI host file
mfile = self.generate_machine_file()
# Start L2C
lad = "./app.lad"
logger.info("Computing...")
res = Process(
"export OAR_JOB_KEY_FILE=~/.oar_key ; cd %s && l2c_loader -M,-machinefile,%s --mpi -c %d %s"
% (self.workingPath, mfile, comb['cores'], lad))
res.shell = True
res.stdout_handlers.append(
os.path.join(self.result_dir,
slugify(comb) + '.out'))
res.stdout_handlers.append(sys.stdout)
res.stderr_handlers.append(
os.path.join(self.result_dir,
slugify(comb) + '.err'))
res.stderr_handlers.append(sys.stderr)
res.run()
if not res.ok:
logger.error('Bad L2C termination')
raise Exception('Bad L2C termination')
if len(
res.stderr
) > 0: # WARNING: when L2C cannot find the LAD file or something strange like this
logger.warning('Not empty error output')
# Clean configuration files
logger.info("Removing assembly files...")
res = Process('cd %s && rm -f app.lad*' % self.workingPath)
res.shell = True
res.run()
comb_ok = True
except Exception:
pass
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(style.host(slugify(comb)) + ' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(
style.host(slugify(comb)) + ' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def define_parameters(self):
"""
Define the parametters used by the L2C application
"""
parameters = {
'cluster': [
cluster for site in ['grenoble', 'nancy']
for cluster in get_site_clusters(site) if cluster != 'graphite'
],
'cores': {i: {
'px': expRange(1, i)
}
for i in expRange(4, 64)},
'datasize':
expRange(256, 256),
'transposition': ['XYZ', 'XZY', 'YXZ', 'YZX', 'ZXY', 'ZYX']
}
logger.info(pformat(parameters))
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def get_nodes(self, comb):
"""
Perform a submission for a given comb and
retrieve the submission node list
"""
logger.info('Performing submission')
n_core = get_host_attributes(comb['cluster'] +
'-1')['architecture']['smt_size']
submission = OarSubmission(
resources="nodes=%d" % (max(1, comb['cores'] / n_core), ),
sql_properties="cluster='%s'" % comb['cluster'],
job_type="besteffort",
name="l2c_fft_eval")
self.oar_job_id, self.frontend = oarsub([
(submission, get_cluster_site(comb['cluster']))
])[0]
logger.info("Waiting for job start")
wait_oar_job_start(self.oar_job_id, self.frontend)
logger.info("Retrieving hosts list")
nodes = get_oar_job_nodes(self.oar_job_id, self.frontend)
self.hosts = [host for host in nodes for i in range(n_core)]
def generate_machine_file(self):
"""
Generate a machine file used by MPI
to know which nodes use during the computation
"""
fd, mfile = mkstemp(dir='/tmp/', prefix='mfile_')
f = os.fdopen(fd, 'w')
f.write('\n'.join([host.address for host in self.hosts]))
f.close()
return mfile
class paasage_simu(Engine):
JVM = 'java'
SGCBJAR = 'SGCB_nTier.jar'
PJDUMP = 'pj_dump'
RSCRIPT = 'Rscript'
def __init__(self):
"""Overloading class initialization with parent and adding options"""
super(paasage_simu, self).__init__()
self.options_parser.set_usage("usage: %prog ")
self.options_parser.set_description("Execo Engine that can be used to" + \
"perform automatic virtual machines experiments")
self.options_parser.add_option("-n",
dest="n_nodes",
help="maximum number of nodes used",
type="int",
default=200)
self.options_parser.add_option("-w",
dest="walltime",
help="walltime for the reservation",
type="string",
default="05:00:00")
self.options_parser.add_option(
"-j",
dest="oargrid_job_id",
help="oargrid_job_id to relaunch an engine",
type=int)
self.options_parser.add_option("-k",
dest="keep_alive",
help="keep reservation alive ..",
action="store_true")
def run(self):
""" """
if self.options.oargrid_job_id:
self.oargrid_job_id = self.options.oargrid_job_id
else:
self.oargrid_job_id = None
try:
# Creation of the main iterator which is used for the first control loop.
self.define_parameters()
job_is_dead = False
# While there are combinations to treat
while len(self.sweeper.get_remaining()) > 0:
# If no job, we make a reservation and prepare the hosts for the experiments
if self.oargrid_job_id is None:
self.make_reservation()
# Wait that the job starts
logger.info('Waiting that the job start')
wait_oargrid_job_start(self.oargrid_job_id)
# Retrieving the hosts and subnets parameters
self.hosts = get_oargrid_job_nodes(self.oargrid_job_id)
# Hosts deployment and configuration
default_connection_params['user'] = '******'
logger.info("Start hosts configuration")
ex_log.setLevel('INFO')
deployment = Deployment(
hosts=self.hosts,
env_file='/home/sirimie/env/mywheezy-x64-base.env')
self.hosts, _ = deploy(deployment)
Remote("rm -f /home/Work/sgcbntier/paasage_demo/csv/REQTASK_*",
self.hosts).run()
Remote(
"rm -f /home/Work/sgcbntier/paasage_demo/platform_aws.xml",
self.hosts).run()
Remote("rm -f /home/Work/sgcbntier/paasage_demo/cloud_ec2.xml",
self.hosts).run()
Put(self.hosts, [
"run_all_execo.py", "xml_gen_execo.py", "conf.xml",
"platform_aws.xml", "cloud_ec2.xml"
],
remote_location="/home/Work/sgcbntier/paasage_demo/").run(
)
logger.info("Done")
if len(self.hosts) == 0:
break
# Initializing the resources and threads
available_hosts = [
host for host in self.hosts for i in range(
get_host_attributes(host)['architecture']['smt_size'])
]
threads = {}
# Creating the unique folder for storing the results
comb_dir = self.result_dir + '/csv_results'
if not os.path.exists(comb_dir):
os.mkdir(comb_dir)
# Checking that the job is running and not in Error
while self.is_job_alive() or len(threads.keys()) > 0:
job_is_dead = False
while self.options.n_nodes > len(available_hosts):
tmp_threads = dict(threads)
for t in tmp_threads:
if not t.is_alive():
available_hosts.append(tmp_threads[t]['host'])
del threads[t]
sleep(5)
if not self.is_job_alive():
job_is_dead = True
break
if job_is_dead:
break
# Getting the next combination
comb = self.sweeper.get_next()
if not comb:
while len(threads.keys()) > 0:
tmp_threads = dict(threads)
for t in tmp_threads:
if not t.is_alive():
del threads[t]
logger.info('Waiting for threads to complete')
sleep(20)
break
host = available_hosts[0]
available_hosts = available_hosts[1:]
t = Thread(target=self.workflow,
args=(comb, host, comb_dir))
threads[t] = {'host': host}
t.daemon = True
t.start()
if not self.is_job_alive():
job_is_dead = True
if job_is_dead:
self.oargrid_job_id = None
finally:
if self.oargrid_job_id is not None:
if not self.options.keep_alive:
logger.info('Deleting job')
oargriddel([self.oargrid_job_id])
else:
logger.info('Keeping job alive for debugging')
def define_parameters(self):
""" """
parameters = self.get_parameters("conf.xml")
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def make_reservation(self):
""" """
logger.info('Performing reservation')
starttime = int(time.time() +
timedelta_to_seconds(datetime.timedelta(minutes=1)))
planning = get_planning(elements=['grid5000'], starttime=starttime)
slots = compute_slots(planning, self.options.walltime)
wanted = {"grid5000": 0}
start_date, end_date, resources = find_first_slot(slots, wanted)
wanted['grid5000'] = min(resources['grid5000'], self.options.n_nodes)
actual_resources = distribute_hosts(resources, wanted)
job_specs = get_jobs_specs(actual_resources, name='Paasage_Simu')
logger.info("try to reserve " + str(actual_resources))
self.oargrid_job_id, _ = oargridsub(job_specs,
start_date,
walltime=end_date - start_date,
job_type="deploy")
logger.info("Reservation done")
def create_string(self, param):
res_str = ""
for key, value in param.iteritems():
res_str += key + "_" + str(value) + "_"
return res_str
def workflow(self, comb, host, comb_dir):
""" """
comb_ok = False
thread_name = style.Thread(host.split('.')[0]) + ': '
logger.info(thread_name + 'Starting combination ' + slugify(comb))
try:
logger.info(thread_name + 'Generate conf file')
param_str = self.create_string(comb)
Remote(
"python /home/Work/sgcbntier/paasage_demo/xml_gen_execo.py --cb "
+ param_str, [host]).run()
logger.info(thread_name + 'Run code')
Remote(
"cd /home/Work/sgcbntier/paasage_demo/ ; python run_all_execo.py --cb %s"
% param_str, [host]).run()
logger.info(thread_name + 'Get results')
traceFile = "ntier_" + param_str
get_results = Get([host], [
"/home/Work/sgcbntier/paasage_demo/csv/REQTASK_" + traceFile +
".csv"
],
local_location=comb_dir).run()
for p in get_results.processes:
if not p.ok:
logger.error(
host +
': Unable to retrieve the files for combination %s',
slugify(comb))
exit()
comb_ok = True
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(thread_name + ': ' + slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(thread_name + ': ' + slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def is_job_alive(self):
rez = get_oargrid_job_info(self.oargrid_job_id)
return (rez["start_date"] + rez["walltime"] > time.time())
def get_parameters(self, file_name):
"""Get the parameters to sweep, from the configuration file"""
tree = ET.parse(file_name)
rootSrc = tree.getroot()
param = dict()
for inst in rootSrc.iter("instance"):
ty = inst.get("type")
qt = inst.get("quantity")
if (qt.isdigit()):
param[ty] = qt
else:
ends = qt.split("-")
param[ty] = range(int(ends[0]), int(ends[1]) + 1)
return param
"nbr_clients"] * 1000 * params["pause"]
#Function to pass in parameter to ParamSweeper.get_next()
#Give the illusion that the Set of params is sorted by nbr_clients
def sort_params_by_nbr_clients(set):
return sorted((list(set)), key=lambda k: k['nbr_clients'])
if __name__ == "__main__":
logging.basicConfig(level=logging.DEBUG)
sweeps = sweep(PARAMETERS)
sweeper = ParamSweeper(
# Maybe puts the sweeper under the experimentation directory
# This should be current/sweeps
persistence_dir=os.path.join("%s/sweeps" % TEST_DIR),
sweeps=sweeps,
save_sweeps=True,
name="test_case_1")
#Get the next parameter in the set of all remaining params
#This set is temporary viewed as sorted List with this filter function.
params = sweeper.get_next(sort_params_by_nbr_clients)
while params:
if not accept(params):
# skipping element
# Note that the semantic of sweeper.skip is different
sweeper.done(params)
params = sweeper.get_next(sort_params_by_nbr_clients)
continue
# cleaning old backup_dir
class mpi_bench(Engine):
def run(self):
"""Inherited method, put here the code for running the engine"""
self.define_parameters()
if self.prepare_bench():
logger.info('Bench prepared on all frontends')
self.run_xp()
def define_parameters(self):
"""Create the iterator on the parameters combinations to be explored"""
# fixed number of nodes
self.n_nodes = 4
# choose a list of clusters
clusters = ['graphene', 'petitprince', 'edel', 'paradent', 'stremi']
#clusters = ['petitprince', 'paradent']
# compute the maximum number of cores among all clusters
max_core = self.n_nodes * max([
get_host_attributes(cluster + '-1')['architecture']['smt_size']
for cluster in clusters])
# define the parameters
self.parameters = {
'cluster' : clusters,
'n_core': filter(lambda i: i >= self.n_nodes,
list(takewhile(lambda i: i<max_core,
(2**i for i in count(0, 1))))),
'size' : ['A', 'B', 'C']
}
logger.info(self.parameters)
# define the iterator over the parameters combinations
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s' % len(self.sweeper.get_remaining()))
def prepare_bench(self):
"""bench configuration and compilation, copy binaries to frontends
return True if preparation is ok
"""
logger.info("preparation: configure and compile benchmark")
# the involved sites. We will do the compilation on the first of these.
sites = list(set(map(get_cluster_site, self.parameters['cluster'])))
# generate the bench compilation configuration
bench_list = '\n'.join([ 'lu\t%s\t%s' % (size, n_core)
for n_core in self.parameters['n_core']
for size in self.parameters['size'] ])
# Reserving a node because compiling on the frontend is forbidden
# and because we need mpif77
jobs = oarsub([(OarSubmission(resources = "nodes=1",
job_type = 'allow_classic_ssh',
walltime ='0:10:00'), sites[0])])
if jobs[0][0]:
try:
logger.info("copying bench archive to %s" % (sites[0],))
copy_bench = Put([sites[0]], ['NPB3.3-MPI.tar.bz2']).run()
logger.info("extracting bench archive on %s" % (sites[0],))
extract_bench = Remote('tar -xjf NPB3.3-MPI.tar.bz2', [sites[0]]).run()
logger.info("waiting job start %s" % (jobs[0],))
wait_oar_job_start(*jobs[0], prediction_callback = pred_cb)
logger.info("getting nodes of %s" % (jobs[0],))
nodes = get_oar_job_nodes(*jobs[0])
logger.info("configure bench compilation")
conf_bench = Remote('echo "%s" > ~/NPB3.3-MPI/config/suite.def' % bench_list, nodes).run()
logger.info("compil bench")
compilation = Remote('cd NPB3.3-MPI && make clean && make suite', nodes).run()
logger.info("compil finished")
except:
logger.error("unable to compile bench")
return False
finally:
oardel(jobs)
# Copying binaries to all other frontends
frontends = sites[1:]
rsync = Remote('rsync -avuP ~/NPB3.3-MPI/ {{frontends}}:NPB3.3-MPI',
[get_host_site(nodes[0])] * len(frontends))
rsync.run()
return compilation.ok and rsync.ok
def run_xp(self):
"""Iterate over the parameters and execute the bench"""
while len(self.sweeper.get_remaining()) > 0:
comb = self.sweeper.get_next()
if comb['n_core'] > get_host_attributes(comb['cluster']+'-1')['architecture']['smt_size'] * self.n_nodes:
self.sweeper.skip(comb)
continue
logger.info('Processing new combination %s' % (comb,))
site = get_cluster_site(comb['cluster'])
jobs = oarsub([(OarSubmission(resources = "{cluster='" + comb['cluster']+"'}/nodes=" + str(self.n_nodes),
job_type = 'allow_classic_ssh',
walltime ='0:10:00'),
site)])
if jobs[0][0]:
try:
wait_oar_job_start(*jobs[0])
nodes = get_oar_job_nodes(*jobs[0])
bench_cmd = 'mpirun -H %s -n %i %s ~/NPB3.3-MPI/bin/lu.%s.%i' % (
",".join([node.address for node in nodes]),
comb['n_core'],
get_mpi_opts(comb['cluster']),
comb['size'],
comb['n_core'])
lu_bench = SshProcess(bench_cmd, nodes[0])
lu_bench.stdout_handlers.append(self.result_dir + '/' + slugify(comb) + '.out')
lu_bench.run()
if lu_bench.ok:
logger.info("comb ok: %s" % (comb,))
self.sweeper.done(comb)
continue
finally:
oardel(jobs)
logger.info("comb NOT ok: %s" % (comb,))
self.sweeper.cancel(comb)
class raevol_matrix(Engine):
def __init__(self):
"""Overloading class initialization with parent and adding options"""
super(raevol_matrix, self).__init__()
self.options_parser.set_usage("usage: %prog ")
self.options_parser.set_description("Execo Engine that can be used to" + \
"perform automatic virtual machines experiments")
self.options_parser.add_option("-n",
dest="n_nodes",
help="maximum number of nodes used",
type="int",
default=200)
self.options_parser.add_option("-w",
dest="walltime",
help="walltime for the reservation",
type="string",
default="02:00:00")
self.options_parser.add_option(
"-j",
dest="oargrid_job_id",
help="oargrid_job_id to relaunch an engine",
type=int,
default=None)
self.options_parser.add_option("-k",
dest="keep_alive",
help="keep reservation alive ..",
action="store_true")
self.options_parser.add_option("-u",
dest="selected_cluster",
help="run on a specific cluster.",
type="string",
default="taurus")
self.options_parser.add_option("-o",
dest="outofchart",
help="Run the engine outside days",
action="store_true")
self.options_parser.add_option(
"-s",
dest="storage5k_job_id",
help="storage5k_job_id to store the data",
type=int)
def run(self):
""" """
if self.options.oargrid_job_id is not None:
self.oar_job_id = self.options.oargrid_job_id
else:
self.oar_job_id = None
self.list_of_clusters = [
'parasilo', 'paravance', 'parapluie', 'paranoia'
]
try:
# Creation of the main iterator which is used for the first control loop.
self.define_parameters()
self.working_dir = '/data/jorouzaudcornabas_' + str(
self.options.storage5k_job_id)
job_is_dead = False
# While there are combinations to treat
while len(self.sweeper.get_remaining()) > 0:
# If no job, we make a reservation and prepare the hosts for the experiments
if self.oar_job_id is None:
self.submit_all_available_best_effort(
self.list_of_clusters, self.options.walltime)
# self.make_reservation_local()
# Wait that the job starts
logger.info('Waiting that the job start ' +
str(self.oar_job_id))
wait_oar_job_start(self.oar_job_id)
# Retrieving the hosts and subnets parameters
self.hosts = get_oar_job_nodes(self.oar_job_id)
# Hosts deployment and configuration
default_connection_params['user'] = '******'
logger.info("Start hosts configuration")
ex_log.setLevel('INFO')
#===============================================================
# deployment = Deployment(hosts = self.hosts,
# env_file='/home/sirimie/env/mywheezy-x64-base.env')
# self.hosts, _ = deploy(deployment)
#===============================================================
if len(self.hosts) == 0:
break
# Initializing the resources and threads
available_hosts = self.hosts
threads = {}
# Creating the unique folder for storing the results
comb_dir = self.result_dir + '/logs'
if not os.path.exists(comb_dir):
os.mkdir(comb_dir)
logger.info("Starting the thread " + str(self.is_job_alive()) +
" " + str(len(threads.keys())))
# Checking that the job is running and not in Error
while self.is_job_alive() or len(threads.keys()) > 0:
job_is_dead = False
while self.options.n_nodes > len(available_hosts):
tmp_threads = dict(threads)
for t in tmp_threads:
if not t.is_alive():
available_hosts.append(tmp_threads[t]['host'])
del threads[t]
sleep(5)
if not self.is_job_alive():
job_is_dead = True
break
if job_is_dead:
break
# Getting the next combination
comb = self.sweeper.get_next()
if not comb:
while len(threads.keys()) > 0:
tmp_threads = dict(threads)
for t in tmp_threads:
if not t.is_alive():
del threads[t]
logger.info('Waiting for threads to complete')
sleep(20)
break
host = available_hosts[0]
available_hosts = available_hosts[1:]
logger.info("Launching thread")
t = Thread(target=self.workflow,
args=(comb, host, comb_dir))
threads[t] = {'host': host}
t.daemon = True
t.start()
if not self.is_job_alive():
job_is_dead = True
if job_is_dead:
self.oar_job_id = None
finally:
if self.oar_job_id is not None:
if not self.options.keep_alive:
logger.info('Deleting job')
oardel([self.oar_job_id])
else:
logger.info('Keeping job alive for debugging')
def define_parameters(self):
""" """
parameters = {
'seed': [
51456165, 33263658, 7158785, 456847894, 1223144, 878944,
121145, 3587842
],
'mutation': ['5e-4', '1e-4', '5e-5', '5e-6'],
'env': ['const', 'lat_3', 'lat_all'],
'selection': [750, 2000, 4000]
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
logger.info('Number of parameters combinations %s',
len(self.sweeper.get_remaining()))
def make_reservation(self):
""" """
logger.info('Performing reservation')
starttime = int(time.time() +
timedelta_to_seconds(datetime.timedelta(minutes=1)))
planning = get_planning(elements=[self.options.selected_cluster],
starttime=starttime)
slots = compute_slots(planning, self.options.walltime)
wanted = {self.options.selected_cluster: 0}
start_date, end_date, resources = find_first_slot(slots, wanted)
wanted[self.options.selected_cluster] = resources[
self.options.selected_cluster]
actual_resources = distribute_hosts(resources, wanted)
job_specs = get_jobs_specs(actual_resources, name='Aevol_diff_area')
logger.info("try to reserve " + str(actual_resources))
self.oargrid_job_id, _ = oargridsub(
job_specs,
walltime=end_date - start_date,
job_type=['besteffort"'
'allow_classic_ssh'])
logger.info("Reservation done")
def make_reservation_local(self):
"""Perform a reservation of the required number of nodes, with 4000 IP.
"""
logger.info('Performing reservation')
starttime = int(time.time() +
timedelta_to_seconds(datetime.timedelta(minutes=1)))
endtime = int(
starttime +
timedelta_to_seconds(datetime.timedelta(days=3, minutes=1)))
self.cluster = self.options.selected_cluster
startdate, n_nodes = self._get_nodes(starttime, endtime)
while not n_nodes:
logger.info('No enough nodes found between %s and %s, ' + \
'increasing time window',
format_date(starttime), format_date(endtime))
starttime = endtime
endtime = int(
starttime +
timedelta_to_seconds(datetime.timedelta(days=3, minutes=1)))
startdate, n_nodes = self._get_nodes(starttime, endtime)
if starttime > int(time.time() +
timedelta_to_seconds(datetime.timedelta(
weeks=6))):
logger.error('There are not enough nodes on %s for your ' + \
'experiments, abort ...', self.cluster)
exit()
startdate = []
jobs_specs = get_jobs_specs({self.cluster: n_nodes},
name=self.__class__.__name__)
sub = jobs_specs[0][0]
tmp = str(sub.resources).replace('\\', '')
sub.resources = tmp.replace('"', '')
sub.walltime = self.options.walltime
sub.additional_options = '-t allow_classic_ssh -t besteffort'
(self.oar_job_id, self.frontend) = oarsub(jobs_specs)[0]
logger.info('Startdate: besteffort, n_nodes: %s', str(n_nodes))
def _get_nodes(self, starttime, endtime):
""" """
planning = get_planning(elements=[self.cluster],
starttime=starttime,
endtime=endtime,
out_of_chart=self.options.outofchart)
slots = compute_slots(planning, self.options.walltime)
startdate = slots[0][0]
i_slot = 0
n_nodes = slots[i_slot][2][self.cluster]
logger.info("nodes %s in %s at %s", str(n_nodes), str(self.cluster),
format_date(startdate))
while n_nodes < self.options.n_nodes:
logger.debug(slots[i_slot])
startdate = slots[i_slot][0]
n_nodes = slots[i_slot][2][self.cluster]
i_slot += 1
if i_slot == len(slots) - 1:
return False, False
return startdate, n_nodes
def workflow(self, comb, host, comb_dir):
""" """
comb_ok = False
thread_name = style.Thread(str(host).split('.')[0]) + ': '
logger.info(thread_name + 'Starting combination ' + slugify(comb))
try:
self.export = "source ~/aevol_binary/intel/linux/mkl/bin/mklvars.sh intel64; "
bucketname = self.working_dir + '/raevol_5_mut_lat/' + slugify(
comb) + '/'
if os.path.isdir(bucketname) and os.path.exists(bucketname +
'/last_gener.txt'):
logger.info(thread_name + "Resuming AEVOL from NFS backup")
gen_file = open(bucketname + '/last_gener.txt', 'r')
last_gen = gen_file.read()
if int(last_gen) < 500000:
logger.info(thread_name + "Resuming AEVOL Run from " +
str(int(last_gen)))
rem = Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_binary/aevol/src/aevol_run -p 16'
+ ' -e 300000 -r ' + last_gen + ' >> aevol_run.log',
[host]).run()
if rem.ok:
comb_ok = True
else:
comb_ok = True
else:
Remote('mkdir -p ' + bucketname, [host]).run()
param_file = '/home/jorouzaudcornabas/aevol_binary/execo/mut_lat/param_tmpl.in'
logger.info(thread_name + 'Generate config file ' + param_file)
f_template = open(param_file)
fd, outfile = mkstemp(dir='/tmp/',
prefix=slugify(comb) + '_param')
f = os.fdopen(fd, 'w')
for line in f_template:
line = line.replace('SEED_NUMBER', str(comb['seed']))
line = line.replace('FUZZY_VERSION', str(comb['fuzzy']))
if comb['move']:
line = line.replace('FIRST_GAUSSIAN_MEDIAN', '0.25')
line = line.replace('THIRD_GAUSSIAN_MEDIAN', '0.65')
else:
line = line.replace('FIRST_GAUSSIAN_MEDIAN', '0.2')
line = line.replace('THIRD_GAUSSIAN_MEDIAN', '0.6')
line = line.replace('GAUSSIAN_HEIGHT', str(comb['height']))
f.write(line)
f_template.close()
f.close()
put_file = Put([host], [outfile],
remote_location=bucketname).run()
if not put_file.ok:
exit()
os.remove(outfile)
Remote(
'cd ' + bucketname + '; cp ' + outfile.split('/')[-1] +
' param.in', [host]).run()
logger.info(thread_name + "Launching AEVOL Create")
Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_diff_area/aevol/src/aevol_create > aevol_create.log',
[host]).run()
logger.info(thread_name + "Launching AEVOL Run")
rem = Remote(
self.export + 'cd ' + bucketname +
'; /home/jorouzaudcornabas/aevol_diff_area/aevol/src/aevol_run -p 16 -n 500000 > aevol_run.log',
[host]).run()
if rem.ok:
comb_ok = True
logger.info(thread_name + 'Get results ' + comb_dir + "/" +
slugify(comb))
#try:
#os.mkdir(comb_dir + "/" + slugify(comb))
#except:
#logger.warning(thread_name +
#'%s already exists, removing existing files', comb_dir + "/" + slugify(comb))
#shutil.rmtree(comb_dir+ "/" + slugify(comb))
#try:
#os.mkdir(comb_dir + "/" + slugify(comb))
#except:
#logger.warning(thread_name +
#'%s already exists, recreating directory', comb_dir + "/" + slugify(comb))
#get_results = Get([host], [bucketname+ "/aevol_create.log", bucketname+ "/aevol_run.log", bucketname+'/stats/'],
#local_location=comb_dir + "/" + slugify(comb)).run()
#for p in get_results.processes:
#if not p.ok:
#logger.error(thread_name +
#': Unable to retrieve the files for combination %s',
#slugify(comb))
#exit()
finally:
if comb_ok:
self.sweeper.done(comb)
# shutil.rmtree(bucketname)
logger.info(thread_name + ': ' + slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(thread_name + ': ' + slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def is_job_alive(self):
rez = get_oar_job_info(self.oar_job_id)
if rez['state'] == 'Error':
return False
if (rez["start_date"] + rez["walltime"] > time.time()):
return True
else:
return False
def get_immediately_available_nodes(self,
list_of_clusters,
walltime,
ignore_besteffort=False):
planning = get_planning(list_of_clusters, ignore_besteffort=False)
slots = compute_slots(planning, walltime)
wanted = {cluster: 0 for cluster in list_of_clusters}
start_date, end_date, resources = find_first_slot(slots, wanted)
actual_resources = {
resource: n_nodes
for resource, n_nodes in resources.iteritems()
if resource in list_of_clusters and n_nodes > 0
}
return start_date, end_date, actual_resources
def submit_all_available_best_effort(self, list_of_clusters, walltime):
start_date, end_date, resources = self.get_immediately_available_nodes(
list_of_clusters, walltime, ignore_besteffort=False)
job_specs = get_jobs_specs(resources)
for j, f in job_specs:
j.job_type = "besteffort"
j.additional_options = "-t allow_classic_ssh"
#jobs = oarsub(job_specs)
(self.oar_job_id, self.frontend) = oarsub(job_specs)[0]
print job_specs
return self.oar_job_id
def run(self):
"""Run the experiment"""
already_configured = self.options.already_configured
reservation_job_id = int(self.options.reservation_id) \
if self.options.reservation_id is not None else None
is_a_test = self.options.is_a_test
if is_a_test:
logger.warn('THIS IS A TEST! This run will use only a few '
'resources')
# make the result folder writable for all
os.chmod(self.result_dir, 0o777)
# Import configuration
with open(self.args[0]) as config_file:
config = json.load(config_file)
# backup configuration
copy(self.args[0], self.result_dir)
site = config["grid5000_site"]
resources = config["resources"]
nb_experiment_nodes = config["nb_experiment_nodes"]
walltime = str(config["walltime"])
env_name = config["kadeploy_env_name"]
workloads = config["workloads"]
# check if workloads exists (Suppose that the same NFS mount point
# is present on the remote and the local environment
for workload_file in workloads:
with open(workload_file):
pass
# copy the workloads files to the results dir
copy(workload_file, self.result_dir)
# define the workloads parameters
self.parameters = {'workload_filename': workloads}
logger.info('Workloads: {}'.format(workloads))
# define the iterator over the parameters combinations
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
# Due to previous (using -c result_dir) run skip some combination
logger.info('Skipped parameters:' +
'{}'.format(str(self.sweeper.get_skipped())))
logger.info('Number of parameters combinations {}'.format(
str(len(self.sweeper.get_remaining()))))
logger.info('combinations {}'.format(str(
self.sweeper.get_remaining())))
if reservation_job_id is not None:
jobs = [(reservation_job_id, site)]
else:
jobs = oarsub([(OarSubmission(resources=resources,
job_type='deploy',
walltime=walltime), site)])
job_id, site = jobs[0]
if job_id:
try:
logger.info("waiting job start %s on %s" % (job_id, site))
wait_oar_job_start(job_id,
site,
prediction_callback=prediction_callback)
logger.info("getting nodes of %s on %s" % (job_id, site))
nodes = get_oar_job_nodes(job_id, site)
# sort the nodes
nodes = sorted(nodes, key=lambda node: node.address)
# get only the necessary nodes under the switch
if nb_experiment_nodes > len(nodes):
raise RuntimeError('The number of given node in the '
'reservation ({}) do not match the '
'requested resources '
'({})'.format(len(nodes),
nb_experiment_nodes))
nodes = nodes[:nb_experiment_nodes]
logger.info("deploying nodes: {}".format(str(nodes)))
deployed, undeployed = deploy(
Deployment(nodes, env_name=env_name),
check_deployed_command=already_configured)
if undeployed:
logger.warn("NOT deployed nodes: {}".format(
str(undeployed)))
raise RuntimeError('Deployement failed')
if not already_configured:
# install OAR
install_cmd = "apt-get update; apt-get install -y "
node_packages = "oar-node"
logger.info("installing OAR nodes: {}".format(
str(nodes[1:])))
install_oar_nodes = Remote(
install_cmd + node_packages,
nodes[1:],
connection_params={'user': '******'})
install_oar_nodes.start()
server_packages = (
"oar-server oar-server-pgsql oar-user "
"oar-user-pgsql postgresql python3-pip "
"libjson-perl postgresql-server-dev-all")
install_oar_sched_cmd = """
mkdir -p /opt/oar_sched; \
cd /opt/oar_sched; \
git clone https://github.com/oar-team/oar3.git; \
cd oar3; \
git checkout dce942bebc2; \
pip3 install -e .; \
cd /usr/lib/oar/schedulers; \
ln -s /usr/local/bin/kamelot; \
pip3 install psycopg2
"""
logger.info("installing OAR server node: {}".format(
str(nodes[0])))
install_master = SshProcess(
install_cmd + server_packages + ";" +
install_oar_sched_cmd,
nodes[0],
connection_params={'user': '******'})
install_master.run()
install_oar_nodes.wait()
if not install_master.ok:
Report(install_master)
configure_oar_cmd = """
sed -i \
-e 's/^\(DB_TYPE\)=.*/\\1="Pg"/' \
-e 's/^\(DB_HOSTNAME\)=.*/\\1="localhost"/' \
-e 's/^\(DB_PORT\)=.*/\\1="5432"/' \
-e 's/^\(DB_BASE_PASSWD\)=.*/\\1="oar"/' \
-e 's/^\(DB_BASE_LOGIN\)=.*/\\1="oar"/' \
-e 's/^\(DB_BASE_PASSWD_RO\)=.*/\\1="oar_ro"/' \
-e 's/^\(DB_BASE_LOGIN_RO\)=.*/\\1="oar_ro"/' \
-e 's/^\(SERVER_HOSTNAME\)=.*/\\1="localhost"/' \
-e 's/^\(SERVER_PORT\)=.*/\\1="16666"/' \
-e 's/^\(LOG_LEVEL\)\=\"2\"/\\1\=\"3\"/' \
-e 's#^\(LOG_FILE\)\=.*#\\1="{result_dir}/oar.log"#' \
-e 's/^\(JOB_RESOURCE_MANAGER_PROPERTY_DB_FIELD\=\"cpuset\".*\)/#\\1/' \
-e 's/^#\(CPUSET_PATH\=\"\/oar\".*\)/\\1/' \
-e 's/^\(FINAUD_FREQUENCY\)\=.*/\\1="0"/' \
/etc/oar/oar.conf
""".format(result_dir=self.result_dir)
configure_oar = Remote(configure_oar_cmd,
nodes,
connection_params={'user': '******'})
configure_oar.run()
logger.info("OAR is configured on all nodes")
# Configure server
create_db = "oar-database --create --db-is-local"
config_oar_sched = (
"oarnotify --remove-queue default;"
"oarnotify --add-queue default,1,kamelot")
start_oar = "systemctl start oar-server.service"
logger.info("configuring OAR database: {}".format(
str(nodes[0])))
config_master = SshProcess(
create_db + ";" + config_oar_sched + ";" + start_oar,
nodes[0],
connection_params={'user': '******'})
config_master.run()
# propagate SSH keys
logger.info("configuring OAR SSH")
oar_key = "/tmp/.ssh"
Process('rm -rf ' + oar_key).run()
Process(
'scp -o BatchMode=yes -o PasswordAuthentication=no '
'-o StrictHostKeyChecking=no -o UserKnownHostsFile=/dev/null '
'-o ConnectTimeout=20 -rp -o User=root ' +
nodes[0].address + ":/var/lib/oar/.ssh"
' ' + oar_key).run()
# Get(nodes[0], "/var/lib/oar/.ssh", [oar_key], connection_params={'user': '******'}).run()
Put(nodes[1:], [oar_key],
"/var/lib/oar/",
connection_params={
'user': '******'
}).run()
add_resources_cmd = """
oarproperty -a cpu || true; \
oarproperty -a core || true; \
oarproperty -c -a host || true; \
oarproperty -a mem || true; \
"""
for node in nodes[1:]:
add_resources_cmd = add_resources_cmd + "oarnodesetting -a -h {node} -p host={node} -p cpu=1 -p core=4 -p cpuset=0 -p mem=16; \\\n".format(
node=node.address)
add_resources = SshProcess(
add_resources_cmd,
nodes[0],
connection_params={'user': '******'})
add_resources.run()
if add_resources.ok:
logger.info("oar is now configured!")
else:
raise RuntimeError(
"error in the OAR configuration: Abort!")
# TODO backup de la config de OAR
# Do the replay
logger.info('begining the replay')
while len(self.sweeper.get_remaining()) > 0:
combi = self.sweeper.get_next()
workload_file = os.path.basename(
combi['workload_filename'])
oar_replay = SshProcess(
script_path + "/oar_replay.py " +
combi['workload_filename'] + " " + self.result_dir +
" oar_gant_" + workload_file, nodes[0])
oar_replay.stdout_handlers.append(self.result_dir + '/' +
workload_file + '.out')
logger.info("replaying workload: {}".format(combi))
oar_replay.run()
if oar_replay.ok:
logger.info("Replay workload OK: {}".format(combi))
self.sweeper.done(combi)
else:
logger.info("Replay workload NOT OK: {}".format(combi))
self.sweeper.cancel(combi)
raise RuntimeError("error in the OAR replay: Abort!")
except:
traceback.print_exc()
ipdb.set_trace()
finally:
if is_a_test:
ipdb.set_trace()
if reservation_job_id is None:
logger.info("delete job: {}".format(jobs))
oardel(jobs)
class l2c_fft(Engine):
workingPath = '/home/jrichard/l2c-fft-new-distrib/bin'
genLadScript = '/home/jrichard/l2c-fft-new-distrib/src/utils/gen-lad/genPencil.py'
def run(self):
"""
Main engine method to perform the experiment
"""
self.define_parameters()
while len(self.sweeper.get_remaining()) > 0:
# Getting the next combination
comb = self.sweeper.get_next()
logger.info(style.host(slugify(comb)) + ' has been started')
self.get_nodes(comb)
# If the job is broken, the program is stopped
if get_oar_job_info(self.oar_job_id, self.frontend)['state'] == 'Error':
break
try:
self.workflow(comb)
# Process all combinations that can use the same submission
while True:
# Find the next combination combinations that can use the same submission
subcomb = self.sweeper.get_next(lambda r:
filter(lambda x: x['cores'] == comb['cores']
and x['cluster'] == comb['cluster'], r))
if not subcomb:
logger.info('No more combination for cluster=%s and cores=%s',
comb['cluster'], comb['cores'])
break
else:
logger.info(style.host(slugify(subcomb)) + ' has been started')
if get_oar_job_info(self.oar_job_id, self.frontend)['state'] != 'Error':
self.workflow(subcomb)
else:
break
# Whatever happens (errors, end of loop), the job is deleted
finally:
logger.info('Deleting job...')
oardel([(self.oar_job_id, self.frontend)])
def workflow(self, comb):
"""
Compute one application launch
using a given parameter group
"""
comb_ok = False
try:
# Generate configuration file needed by MPI processes
logger.info("Generating assembly file...")
py = comb['cores'] / comb['px']
prepare = Process('cd %s && python %s %d %d %d %d %d %s app.lad' %
(self.workingPath, self.genLadScript, comb['datasize'], comb['datasize'],
comb['datasize'], comb['px'], py, comb['transposition']))
prepare.shell = True
prepare.run()
# Generate the MPI host file
mfile = self.generate_machine_file()
# Start L2C
lad = "./app.lad"
logger.info("Computing...")
res = Process("export OAR_JOB_KEY_FILE=~/.oar_key ; cd %s && l2c_loader -M,-machinefile,%s --mpi -c %d %s" % (self.workingPath, mfile, comb['cores'], lad))
res.shell = True
res.stdout_handlers.append(os.path.join(self.result_dir, slugify(comb) + '.out'))
res.stdout_handlers.append(sys.stdout)
res.stderr_handlers.append(os.path.join(self.result_dir, slugify(comb) + '.err'))
res.stderr_handlers.append(sys.stderr)
res.run()
if not res.ok:
logger.error('Bad L2C termination')
raise Exception('Bad L2C termination')
if len(res.stderr) > 0: # WARNING: when L2C cannot find the LAD file or something strange like this
logger.warning('Not empty error output')
# Clean configuration files
logger.info("Removing assembly files...")
res = Process('cd %s && rm -f app.lad*' % self.workingPath)
res.shell = True
res.run()
comb_ok = True
except Exception:
pass
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(style.host(slugify(comb)) + ' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(style.host(slugify(comb)) + ' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def define_parameters(self):
"""
Define the parametters used by the L2C application
"""
parameters = {
'cluster': [cluster for site in ['grenoble', 'nancy']
for cluster in get_site_clusters(site) if cluster != 'graphite'],
'cores': {i: {'px': expRange(1, i)}
for i in expRange(4, 64)},
'datasize': expRange(256, 256),
'transposition': ['XYZ', 'XZY', 'YXZ', 'YZX', 'ZXY', 'ZYX']}
logger.info(pformat(parameters))
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"), sweeps)
logger.info('Number of parameters combinations %s', len(self.sweeper.get_remaining()))
def get_nodes(self, comb):
"""
Perform a submission for a given comb and
retrieve the submission node list
"""
logger.info('Performing submission')
n_core = get_host_attributes(comb['cluster'] + '-1')['architecture']['smt_size']
submission = OarSubmission(resources="nodes=%d" % (max(1, comb['cores']/n_core), ),
sql_properties="cluster='%s'"%comb['cluster'],
job_type="besteffort",
name="l2c_fft_eval")
self.oar_job_id, self.frontend = oarsub([(submission, get_cluster_site(comb['cluster']))])[0]
logger.info("Waiting for job start")
wait_oar_job_start(self.oar_job_id, self.frontend)
logger.info("Retrieving hosts list")
nodes = get_oar_job_nodes(self.oar_job_id, self.frontend)
self.hosts = [host for host in nodes for i in range(n_core)]
def generate_machine_file(self):
"""
Generate a machine file used by MPI
to know which nodes use during the computation
"""
fd, mfile = mkstemp(dir='/tmp/', prefix='mfile_')
f = os.fdopen(fd, 'w')
f.write('\n'.join([host.address for host in self.hosts]))
f.close()
return mfile
def run(self):
# Defining experiment parameters
self.parameters = {
'n_clients': [400, 450, 500, 550, 600],
'n_transitions': [10000]
}
cluster = 'griffon'
sweeps = sweep(self.parameters)
sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"), sweeps)
server_out_path = os.path.join(self.result_dir, "server.out")
self._updateStat(sweeper.stats())
# Loop on the number of nodes
while True:
# Taking the next parameter combinations
comb = sweeper.get_next()
if not comb: break
# Performing the submission on G5K
site = get_cluster_site(cluster)
self._log("Output will go to " + self.result_dir)
n_nodes = int(
math.ceil(
float(comb['n_clients']) / EX5.get_host_attributes(
cluster + '-1')['architecture']['smt_size'])) + 1
self._log("Reserving {0} nodes on {1}".format(n_nodes, site))
resources = "{cluster=\\'" + cluster + "\\'}/nodes=" + str(n_nodes)
submission = EX5.OarSubmission(resources=resources,
job_type='allow_classic_ssh',
walltime='00:10:00')
job = EX5.oarsub([(submission, site)])
self.__class__._job = job
# Sometimes oarsub fails silently
if job[0][0] is None:
print("\nError: no job was created")
sys.exit(1)
# Wait for the job to start
self._log(
"Waiting for job {0} to start...\n".format(BOLD_MAGENTA +
str(job[0][0]) +
NORMAL))
EX5.wait_oar_job_start(job[0][0],
job[0][1],
prediction_callback=prediction)
nodes = EX5.get_oar_job_nodes(job[0][0], job[0][1])
# Deploying nodes
#deployment = EX5.Deployment(hosts = nodes, env_file='path_to_env_file')
#run_deploy = EX5.deploy(deployment)
#nodes_deployed = run_deploy.hosts[0]
# Copying active_data program on all deployed hosts
EX.Put([nodes[0]],
'../dist/active-data-lib-0.1.2.jar',
connexion_params={
'user': '******'
}).run()
EX.Put([nodes[0]],
'../server.policy',
connexion_params={
'user': '******'
}).run()
# Loop on the number of requests per client process
while True:
# Split the nodes
clients = nodes[1:]
server = nodes[0]
self._log(
"Running experiment with {0} nodes and {1} transitions per client"
.format(len(clients), comb['n_transitions']))
# Launching Server on one node
out_handler = FileOutputHandler(server_out_path)
launch_server = EX.Remote(
'java -jar active-data-lib-0.1.2.jar', [server],
stdout_handler=out_handler,
stderr_handler=out_handler).start()
self._log("Server started on " + server.address)
time.sleep(2)
# Launching clients
rank = 0
n_cores = EX5.get_host_attributes(
clients[0])['architecture']['smt_size']
cores = nodes * n_cores
cores = cores[
0:comb['n_clients']] # Cut out the additional cores
client_connection_params = {
'taktuk_gateway': 'lyon.grid5000.fr',
'host_rewrite_func': None
}
self._log("Launching {0} clients...".format(len(cores)))
client_cmd = "/usr/bin/env java -cp /home/ansimonet/active-data-lib-0.1.2.jar org.inria.activedata.examples.perf.TransitionsPerSecond " + \
"{0} {1} {2} {3} {4}".format(server.address, 1200, "{{range(len(cores))}}", len(cores), comb['n_transitions'])
client_out_handler = FileOutputHandler(
os.path.join(self.result_dir, "clients.out"))
client_request = EX.TaktukRemote(client_cmd, cores, connexion_params = client_connection_params, \
stdout_handler = client_out_handler, stderr_handler = client_out_handler)
client_request.run()
if not client_request.ok():
# Some client failed, please panic
self._log(
"One or more client process failed. Enjoy reading their outputs."
)
self._log(
"OUTPUT STARTS -------------------------------------------------\n"
)
for process in client_request.processes():
print("----- {0} returned {1}".format(
process.host().address, process.exit_code()))
if not process.stdout() == "":
print(GREEN + process.stdout() + NORMAL)
if not process.stderr() == "":
print(RED + process.stderr() + NORMAL)
print("")
self._log(
"OUTPUT ENDS ---------------------------------------------------\n"
)
sweeper.skip(comb)
launch_server.kill()
launch_server.wait()
else:
# Waiting for server to end
launch_server.wait()
# Getting log files
distant_path = OUT_FILE_FORMAT.format(
len(cores), comb['n_transitions'])
local_path = distant_path
EX.Get([server], distant_path).run()
EX.Local('mv ' + distant_path + ' ' +
os.path.join(self.result_dir, local_path)).run()
EX.Get([server],
'client_*.out',
local_location=self.result_dir)
EX.Remote('rm -f client_*.out', [server])
self._log(
"Finishing experiment with {0} clients and {1} transitions per client"
.format(comb['n_clients'], comb['n_transitions']))
sweeper.done(comb)
sub_comb = sweeper.get_next(filtr=lambda r: filter(
lambda s: s["n_clients"] == comb['n_clients'], r))
self._updateStat(sweeper.stats())
if not sub_comb:
# Killing job
EX5.oar.oardel(job)
self.__class__._job = None
break
else:
comb = sub_comb
print ""
class overturn(Engine):
def create_sweeper(self):
"""Define the parameter space and return a sweeper."""
parameters = {
'RA': ['1.e5', '1.e6', '1.e7'],
'RCMB' : [2.],
'KFe' : [0.85, 0.9, 0.95, 0.99]
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
def create_par_file(self, comb):
"""Create Run directory on remote server and upload par file"""
logger.info('Creating and uploading par file')
comb_dir = parent_dir + slugify(comb) + '/'
logger.info('comb_dir = ' + comb_dir)
# Create remote directories
make_dirs = SshProcess('mkdir -p ' + comb_dir + 'Img ; mkdir -p ' +
comb_dir + 'Op ; ', jobserver).run()
# Generate par file
par_file = 'par_' + slugify(comb)
logger.info('par_file = %s', style.emph(par_file))
nml = f90nml.read('template.nml')
nml['refstate']['ra0'] = float(comb['RA'])
nml['tracersin']['K_Fe'] = comb['KFe']
nml['geometry']['r_cmb'] = comb['RCMB']
nztot = min(int(2**(math.log10(float(comb['RA']))+1)), 128)
nml['geometry']['nztot'] = nztot
nml['geometry']['nytot'] = int(math.pi*(comb['RCMB']+0.5)*nztot)
nml.write(par_file, force=True)
logger.info('Created par file ' + par_file)
# Upload par file to remote directory
Put([jobserver], [par_file], remote_location=comb_dir).run()
SshProcess('cd ' + comb_dir + ' ; mv ' + par_file+ ' par', jobserver).run()
logger.info('Done')
def submit_job(self, comb):
"""Use the batch script on psmn"""
logger.info('Submit job on '+ jobserver)
comb_dir = parent_dir + slugify(comb) + '/'
job_sub = SshProcess('cd ' + comb_dir +
' ; /usr/local/bin/qsub /home/stephane/ExamplePBS/batch_single',
jobserver).run()
return job_sub.stdout.splitlines()[-1].split('.')[0]
def is_job_running(self, job_id=None):
""" """
get_state = SshProcess('qstat -f ' + str(job_id), jobserver)
get_state.ignore_exit_code = True
get_state.run()
return get_state.ok
def retrieve(self):
""" """
SshProcess('')
def workflow(self, comb):
self.create_par_file(comb)
job_id = self.submit_job(comb)
logger.info('Combination %s will be treated by job %s',
slugify(comb), str(job_id))
while self.is_job_running(job_id):
sleep(10)
self.sweeper.done(comb)
def run(self):
self.create_sweeper()
logger.info('%s parameters combinations to be treated', len(self.sweeper.get_sweeps()))
threads = []
while len(self.sweeper.get_remaining()) > 0:
comb = self.sweeper.get_next()
logger.info('comb = %s', comb)
t = Thread(target=self.workflow, args=(comb,))
t.daemon = True
threads.append(t)
t.start()
for t in threads:
t.join()
@enostask()
def backup(env=None):
LOG.info(f"Running backup on {env['roles']}")
@enostask()
def destroy(env=None):
LOG.info(f"Running destroy on {env['roles']}")
# Iterate over a set of parameters
parameters = {"param1": [1, 4], "param2": ["a", "b"]}
sweeps = sweep(parameters)
sweeper = ParamSweeper(
persistence_dir=str(Path("sweeps")), sweeps=sweeps, save_sweeps=True
)
parameter = sweeper.get_next()
while parameter:
try:
deploy()
bench(parameter)
backup()
sweeper.done(parameter)
except Exception as e:
traceback.print_exc()
sweeper.skip(parameter)
finally:
destroy()
parameter = sweeper.get_next()
class compil_aevol(Engine):
def __init__(self):
"""Overloading class initialization with parent and adding options"""
super(compil_aevol, self).__init__()
def run(self):
""" """
try:
# Creation of the main iterator which is used for the first control loop.
self.define_parameters()
# While there are combinations to treat
while len(self.sweeper.get_remaining()) > 0:
comb = self.sweeper.get_next()
if comb:
self.workflow(comb)
finally:
logger.info("Compilation DONE")
def define_parameters(self):
""" """
parameters = {
'blas' : ['none','mkl','atlas','openblas'],
'experiment' : ['aevol','raevol'],
'compilator' : ['gcc','intel'],
'parallel' : ['openmp','tbb']
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"), sweeps)
logger.info('Number of parameters combinations %s', len(self.sweeper.get_remaining()))
def workflow(self, comb):
""" """
comb_ok = False
logger.info(slugify(comb) + \
' starts to compile')
try:
export = "source /opt/intel/bin/compilervars.sh intel64; "
src_directory = "/home/arrouan/workspace/aevol/git/world/aevol/"
bin_directory = "/home/arrouan/workspace/aevol/compiled_binary/"
configure_option = "--with-tracing --without-x"
if comb['parallel'] == 'tbb':
configure_option += " --with-tbb"
if comb['blas'] == 'openblas':
configure_option += " --with-blas"
elif comb['blas'] == 'mkl':
configure_option += " --with-mkl"
elif comb['blas'] == 'atlas':
configure_option += " --with-atlas"
if comb['experiment'] == 'raevol':
configure_option += " --with-raevol"
if comb['compilator'] == 'intel':
configure_option += " CXX=icc"
full_bin_directory = bin_directory + comb['experiment']+'_'+comb['compilator']+'_'+comb['parallel']+'_'+comb['blas']
try:
os.mkdir(full_bin_directory)
except:
for f in os.listdir(full_bin_directory):
os.remove(full_bin_directory + "/" + f)
p = Process(export+'cd '+src_directory+'; autoreconf; ./configure '+configure_option+'; make clean; make; cp src/aevol_run '+full_bin_directory+'/; cp src/aevol_create '+full_bin_directory+'/')
p.shell = True
#
p.run()
print p.stdout
comb_ok = True
finally:
if comb_ok:
self.sweeper.done(comb)
logger.info(slugify(comb) + \
' has been done')
else:
self.sweeper.cancel(comb)
logger.warning(slugify(comb) + \
' has been canceled')
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def is_job_alive(self):
rez=get_oar_job_info(self.oar_job_id)
if (rez["start_date"]+rez["walltime"] > time.time()):
return True
else:
return False
def campaign(broker, provider, conf, test, env):
def generate_id(params):
def clean(s):
return str(s).replace("/", "_sl_") \
.replace(":", "_sc_")
return "-".join([
"%s__%s" % (clean(k), clean(v)) for k, v in sorted(params.items())
])
def accept(params):
call_ratio_max = 3
cast_ratio_max = 3
call_type = params["call_type"]
if params["nbr_servers"] > params["nbr_clients"]:
return False
if call_type == "rpc-call":
if not params["pause"]:
# maximum rate
return call_ratio_max * params["nbr_servers"] >= params[
"nbr_clients"]
else:
# we can afford more clients
# based on our estimation a client sends 200msgs at full rate
return call_ratio_max * params["nbr_servers"] >= params[
"nbr_clients"] * 200 * params["pause"]
else:
if not params["pause"]:
# maximum rate
return cast_ratio_max * params["nbr_servers"] >= params[
"nbr_clients"]
else:
# we can afford more clients
# based on our estimation a client sends 200msgs at full rate
return cast_ratio_max * params["nbr_servers"] >= params[
"nbr_clients"] * 1000 * params["pause"]
# Function to pass in parameter to ParamSweeper.get_next()
# Give the illusion that the Set of params is sorted by nbr_clients
def sort_params_by_nbr_clients(set):
return sorted((list(set)), key=lambda k: k['nbr_clients'])
# Dump each params in the backup dir
def dump_param(params):
if not os.path.exists("%s/params.json" % test):
with open("%s/params.json" % test, 'w') as outfile:
json.dump([], outfile)
#Add the current params to the json
with open("%s/params.json" % test, 'r') as outfile:
all_params = json.load(outfile)
all_params.append(params)
with open("%s/params.json" % test, 'w') as outfile:
json.dump(all_params, outfile)
# Loading the conf
config = {}
with open(conf) as f:
config = yaml.load(f)
parameters = config["campaign"][test]
sweeps = sweep(parameters)
filtered_sweeps = [param for param in sweeps if accept(param)]
sweeper = ParamSweeper(
# Maybe puts the sweeper under the experimentation directory
# This should be current/sweeps
persistence_dir=os.path.join("%s/sweeps" % test),
sweeps=filtered_sweeps,
save_sweeps=True,
name=test)
params = sweeper.get_next(sort_params_by_nbr_clients)
PROVIDERS[provider](broker=broker, config=config, env=test)
t.inventory()
while params:
params.pop("backup_dir", None)
params.update({"backup_dir": generate_id(params)})
t.prepare(broker=broker)
t.test_case_1(**params)
sweeper.done(params)
dump_param(params)
params = sweeper.get_next(sort_params_by_nbr_clients)
t.destroy()
class overturn(Engine):
def create_sweeper(self):
"""Define the parameter space and return a sweeper."""
parameters = {
'RA': ['1.e5', '1.e6'],
'RCMB' : [1.19, 3.29],
'KFe' : [0.85, 0.9]
}
sweeps = sweep(parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweeps)
def create_par_file(self, comb):
"""Create Run directory on remote server and upload par file"""
logger.info('Creating par file')
comb_dir = parent_dir + slugify(comb) + '/'
logger.info('comb_dir = ' + comb_dir)
# Create remote directories
mdir = sp.call('mkdir -p ' + comb_dir + 'Img ; mkdir -p ' + comb_dir + 'Op ; ', shell=True)
# Generate par file
par_file = 'par_' + slugify(comb)
nml = f90nml.read('template.nml')
nml['refstate']['ra0'] = float(comb['RA'])
nml['tracersin']['K_Fe'] = comb['KFe']
nml['geometry']['r_cmb'] = comb['RCMB']
nztot = min(int(2**(math.log10(float(comb['RA']))+1)), 128)
nml['geometry']['nztot'] = nztot
nml['geometry']['nytot'] = int(math.pi*(comb['RCMB']+0.5)*nztot)
nml.write(par_file, force=True)
logger.info('Created par file ' + par_file)
# Upload par file to remote directory
cpar = sp.call('cp ' + par_file + ' ' + comb_dir, shell=True)
mpar = sp.call('cd ' + comb_dir + ' ; mv ' + par_file+ ' par', shell=True)
logger.info('Done')
def submit_job(self, comb):
"""Use the batch script"""
logger.info('Submiting job on '+ jobserver)
comb_dir = parent_dir + slugify(comb) + '/'
job_sub = sp.Popen('cd ' + comb_dir +
' ; /usr/local/bin/qsub /home/stephane/ExamplePBS/batch_single',
shell=True,
stdout=sp.PIPE, stderr=sp.STDOUT)
return job_sub.stdout.readlines()[-1].split('.')[0]
def workflow(self, comb):
self.create_par_file(comb)
job_id = self.submit_job(comb)
logger.info('Combination %s will be treated by job %s',
slugify(comb), str(job_id))
self.sweeper.done(comb)
def run(self):
self.create_sweeper()
logger.info('%s parameters combinations to be treated', len(self.sweeper.get_sweeps()))
threads = []
while len(self.sweeper.get_remaining()) > 0:
comb = self.sweeper.get_next()
t = Thread(target=self.workflow, args=(comb,))
t.daemon = True
threads.append(t)
t.start()
for t in threads:
t.join()
def run(self):
"""Run the experiment"""
already_configured = self.options.already_configured
reservation_job_id = int(self.options.reservation_id) \
if self.options.reservation_id is not None else None
is_a_test = self.options.is_a_test
if is_a_test:
logger.warn('THIS IS A TEST! This run will use only a few '
'resources')
# make the result folder writable for all
os.chmod(self.result_dir, 0o777)
# Import configuration
with open(self.args[0]) as config_file:
config = json.load(config_file)
# backup configuration
copy(self.args[0], self.result_dir)
site = config["grid5000_site"]
resources = config["resources"]
nb_experiment_nodes = config["nb_experiment_nodes"]
walltime = str(config["walltime"])
env_name = config["kadeploy_env_name"]
workloads = config["workloads"]
# check if workloads exists (Suppose that the same NFS mount point
# is present on the remote and the local environment
for workload_file in workloads:
with open(workload_file):
pass
# copy the workloads files to the results dir
copy(workload_file, self.result_dir)
# define the workloads parameters
self.parameters = {
'workload_filename': workloads
}
logger.info('Workloads: {}'.format(workloads))
# define the iterator over the parameters combinations
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
# Due to previous (using -c result_dir) run skip some combination
logger.info('Skipped parameters:' +
'{}'.format(str(self.sweeper.get_skipped())))
logger.info('Number of parameters combinations {}'.format(
str(len(self.sweeper.get_remaining()))))
logger.info('combinations {}'.format(
str(self.sweeper.get_remaining())))
if reservation_job_id is not None:
jobs = [(reservation_job_id, site)]
else:
jobs = oarsub([(OarSubmission(resources=resources,
job_type='deploy',
walltime=walltime), site)])
job_id, site = jobs[0]
if job_id:
try:
logger.info("waiting job start %s on %s" % (job_id, site))
wait_oar_job_start(
job_id, site, prediction_callback=prediction_callback)
logger.info("getting nodes of %s on %s" % (job_id, site))
nodes = get_oar_job_nodes(job_id, site)
# sort the nodes
nodes = sorted(nodes, key=lambda node: node.address)
# get only the necessary nodes under the switch
if nb_experiment_nodes > len(nodes):
raise RuntimeError('The number of given node in the '
'reservation ({}) do not match the '
'requested resources '
'({})'.format(len(nodes),
nb_experiment_nodes))
nodes = nodes[:nb_experiment_nodes]
logger.info("deploying nodes: {}".format(str(nodes)))
deployed, undeployed = deploy(
Deployment(nodes, env_name=env_name),
check_deployed_command=already_configured)
if undeployed:
logger.warn(
"NOT deployed nodes: {}".format(str(undeployed)))
raise RuntimeError('Deployement failed')
if not already_configured:
# install OAR
install_cmd = "apt-get update; apt-get install -y "
node_packages = "oar-node"
logger.info(
"installing OAR nodes: {}".format(str(nodes[1:])))
install_oar_nodes = Remote(
install_cmd + node_packages,
nodes[1:],
connection_params={'user': '******'})
install_oar_nodes.start()
server_packages = ("oar-server oar-server-pgsql oar-user "
"oar-user-pgsql postgresql python3-pip "
"libjson-perl postgresql-server-dev-all")
install_oar_sched_cmd = """
mkdir -p /opt/oar_sched; \
cd /opt/oar_sched; \
git clone https://github.com/oar-team/oar3.git; \
cd oar3; \
git checkout dce942bebc2; \
pip3 install -e .; \
cd /usr/lib/oar/schedulers; \
ln -s /usr/local/bin/kamelot; \
pip3 install psycopg2
"""
logger.info("installing OAR server node: {}".format(str(nodes[0])))
install_master = SshProcess(install_cmd + server_packages +
";" + install_oar_sched_cmd, nodes[0],
connection_params={'user': '******'})
install_master.run()
install_oar_nodes.wait()
if not install_master.ok:
Report(install_master)
configure_oar_cmd = """
sed -i \
-e 's/^\(DB_TYPE\)=.*/\\1="Pg"/' \
-e 's/^\(DB_HOSTNAME\)=.*/\\1="localhost"/' \
-e 's/^\(DB_PORT\)=.*/\\1="5432"/' \
-e 's/^\(DB_BASE_PASSWD\)=.*/\\1="oar"/' \
-e 's/^\(DB_BASE_LOGIN\)=.*/\\1="oar"/' \
-e 's/^\(DB_BASE_PASSWD_RO\)=.*/\\1="oar_ro"/' \
-e 's/^\(DB_BASE_LOGIN_RO\)=.*/\\1="oar_ro"/' \
-e 's/^\(SERVER_HOSTNAME\)=.*/\\1="localhost"/' \
-e 's/^\(SERVER_PORT\)=.*/\\1="16666"/' \
-e 's/^\(LOG_LEVEL\)\=\"2\"/\\1\=\"3\"/' \
-e 's#^\(LOG_FILE\)\=.*#\\1="{result_dir}/oar.log"#' \
-e 's/^\(JOB_RESOURCE_MANAGER_PROPERTY_DB_FIELD\=\"cpuset\".*\)/#\\1/' \
-e 's/^#\(CPUSET_PATH\=\"\/oar\".*\)/\\1/' \
-e 's/^\(FINAUD_FREQUENCY\)\=.*/\\1="0"/' \
/etc/oar/oar.conf
""".format(result_dir=self.result_dir)
configure_oar = Remote(configure_oar_cmd, nodes,
connection_params={'user': '******'})
configure_oar.run()
logger.info("OAR is configured on all nodes")
# Configure server
create_db = "oar-database --create --db-is-local"
config_oar_sched = ("oarnotify --remove-queue default;"
"oarnotify --add-queue default,1,kamelot")
start_oar = "systemctl start oar-server.service"
logger.info(
"configuring OAR database: {}".format(str(nodes[0])))
config_master = SshProcess(create_db + ";" + config_oar_sched + ";" + start_oar,
nodes[0],
connection_params={'user': '******'})
config_master.run()
# propagate SSH keys
logger.info("configuring OAR SSH")
oar_key = "/tmp/.ssh"
Process('rm -rf ' + oar_key).run()
Process('scp -o BatchMode=yes -o PasswordAuthentication=no '
'-o StrictHostKeyChecking=no -o UserKnownHostsFile=/dev/null '
'-o ConnectTimeout=20 -rp -o User=root ' +
nodes[0].address + ":/var/lib/oar/.ssh"
' ' + oar_key).run()
# Get(nodes[0], "/var/lib/oar/.ssh", [oar_key], connection_params={'user': '******'}).run()
Put(nodes[1:], [oar_key], "/var/lib/oar/", connection_params={'user': '******'}).run()
add_resources_cmd = """
oarproperty -a cpu || true; \
oarproperty -a core || true; \
oarproperty -c -a host || true; \
oarproperty -a mem || true; \
"""
for node in nodes[1:]:
add_resources_cmd = add_resources_cmd + "oarnodesetting -a -h {node} -p host={node} -p cpu=1 -p core=4 -p cpuset=0 -p mem=16; \\\n".format(node=node.address)
add_resources = SshProcess(add_resources_cmd, nodes[0],
connection_params={'user': '******'})
add_resources.run()
if add_resources.ok:
logger.info("oar is now configured!")
else:
raise RuntimeError("error in the OAR configuration: Abort!")
# TODO backup de la config de OAR
# Do the replay
logger.info('begining the replay')
while len(self.sweeper.get_remaining()) > 0:
combi = self.sweeper.get_next()
workload_file = os.path.basename(combi['workload_filename'])
oar_replay = SshProcess(script_path + "/oar_replay.py " +
combi['workload_filename'] + " " +
self.result_dir + " oar_gant_" +
workload_file,
nodes[0])
oar_replay.stdout_handlers.append(self.result_dir + '/' +
workload_file + '.out')
logger.info("replaying workload: {}".format(combi))
oar_replay.run()
if oar_replay.ok:
logger.info("Replay workload OK: {}".format(combi))
self.sweeper.done(combi)
else:
logger.info("Replay workload NOT OK: {}".format(combi))
self.sweeper.cancel(combi)
raise RuntimeError("error in the OAR replay: Abort!")
except:
traceback.print_exc()
ipdb.set_trace()
finally:
if is_a_test:
ipdb.set_trace()
if reservation_job_id is None:
logger.info("delete job: {}".format(jobs))
oardel(jobs)
class fp_hadoop(Engine):
def __init__(self):
""" Surchargement la methode init pour ajouter des options"""
super(fp_hadoop, self).__init__()
self.options_parser.set_usage("usage: %prog <cluster>")
self.options_parser.add_argument("cluster",
"The cluster on which to run the experiment")
self.options_parser.add_option("-k", dest="keep_alive",
help="keep reservation alive ..",
action="store_true")
self.options_parser.add_option("-j", dest="oar_job_id",
help="oar_job_id to relaunch an engine",
type=int)
self.options_parser.add_option("-o", dest="outofchart",
help="Run the engine outside days",
action="store_true")
self.n_nodes = 10
self.options_parser.add_option("-w", dest="walltime",
help="walltime for the reservation",
type="string",
default="3:00:00")
def xp(self, comb):
comb_ok = False
try:
""" tout ton xp """
comb_ok = True
finally:
if comb_ok:
self.sweeper.done(comb)
else:
self.sweeper.cancel(comb)
logger.info(style.step('%s Remaining'),
len(self.sweeper.get_remaining()))
def run(self):
"""Inherited method, put here the code for running the engine"""
self.define_parameters()
self.cluster = self.args[0]
self.site = get_cluster_site(self.cluster)
if self.options.oar_job_id:
self.oar_job_id = self.options.oar_job_id
else:
self.oar_job_id = None
try:
# Creation of the main iterator which is used for the first control loop.
# You need have a method called define_parameters, that returns a list of parameter dicts
self.define_parameters()
job_is_dead = False
# While they are combinations to treat
while len(self.sweeper.get_remaining()) > 0:
# If no job, we make a reservation and prepare the hosts for the experiments
if job_is_dead or self.oar_job_id is None:
self.make_reservation()
# Retrieving the hosts and subnets parameters
self.hosts = get_oar_job_nodes(self.oar_job_id, self.frontend)
# Hosts deployment
deployed, undeployed = deploy(Deployment(self.hosts,
env_file="/home/mliroz/deploys/hadoop6.env"))
logger.info("%i deployed, %i undeployed" % (len(deployed),
len(undeployed)))
if len(deployed) == 0:
break
# Configuration du systeme => look at the execo_g5k.topology module
attr = get_host_attributes(self.cluster + '-1')
## SETUP FINISHED
# Getting the next combination
comb = self.sweeper.get_next()
self.prepare_dataset(comb)
self.xp(comb)
# subloop over the combinations that have the same sizes
while True:
newcomb = self.sweeper.get_next(lambda r:
filter(lambda subcomb: subcomb['sizes'] == comb['sizes'], r))
if newcomb:
try:
self.xp(newcomb)
except:
break
else:
break
if get_oar_job_info(self.oar_job_id, self.frontend)['state'] == 'Error':
job_is_dead = True
finally:
if self.oar_job_id is not None:
if not self.options.keep_alive:
logger.info('Deleting job')
oardel([(self.oar_job_id, self.frontend)])
else:
logger.info('Keeping job alive for debugging')
def define_parameters(self):
"""Create the iterator that contains the parameters to be explored """
self.parameters = {
'sizes': [100],
'zipf': [1],
'pop_keys': [100],
'min_size': [500, 1000],
'int_phases': [1, 2, 3, 4, 5, 10],
'iosf': [100]
}
logger.info(self.parameters)
self.sweeper = ParamSweeper(os.path.join(self.result_dir, "sweeps"),
sweep(self.parameters))
logger.info('Number of parameters combinations %s', len(self.sweeper.get_remaining()))
def _get_nodes(self, starttime, endtime):
""" """
planning = get_planning(elements=[self.cluster],
starttime=starttime,
endtime=endtime,
out_of_chart=self.options.outofchart)
slots = compute_slots(planning, self.options.walltime)
startdate = slots[0][0]
i_slot = 0
n_nodes = slots[i_slot][2][self.cluster]
while n_nodes < self.n_nodes:
logger.debug(slots[i_slot])
startdate = slots[i_slot][0]
n_nodes = slots[i_slot][2][self.cluster]
i_slot += 1
if i_slot == len(slots) - 1:
return False, False
return startdate, self.n_nodes
def make_reservation(self):
"""Perform a reservation of the required number of nodes"""
logger.info('Performing reservation')
starttime = int(time.time() + timedelta_to_seconds(datetime.timedelta(minutes=1)))
endtime = int(starttime + timedelta_to_seconds(datetime.timedelta(days=3,
minutes=1)))
startdate, n_nodes = self._get_nodes(starttime, endtime)
while not n_nodes:
logger.info('No enough nodes found between %s and %s, ' + \
'increasing time window',
format_date(starttime), format_date(endtime))
starttime = endtime
endtime = int(starttime + timedelta_to_seconds(datetime.timedelta(days=3,
minutes=1)))
startdate, n_nodes = self._get_nodes(starttime, endtime)
if starttime > int(time.time() + timedelta_to_seconds(
datetime.timedelta(weeks=6))):
logger.error('There are not enough nodes on %s for your ' + \
'experiments, abort ...', self.cluster)
exit()
jobs_specs = get_jobs_specs({self.cluster: n_nodes},
name=self.__class__.__name__)
sub = jobs_specs[0][0]
sub.walltime = self.options.walltime
sub.additional_options = '-t deploy'
sub.reservation_date = startdate
(self.oar_job_id, self.frontend) = oarsub(jobs_specs)[0]
logger.info('Startdate: %s, n_nodes: %s', format_date(startdate),
str(n_nodes))
