-
Notifications
You must be signed in to change notification settings - Fork 5
/
ems.py
executable file
·176 lines (156 loc) · 7.44 KB
/
ems.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
#!/usr/bin/env python
from pymongo import MongoClient
from os import listdir
import datetime, os, tarfile, time, subprocess, shutil, smtplib, logging, signal, sys, pytz, email
from email.mime.text import MIMEText
from email.header import Header
from gwsconfig import gwsconf
serv_dl_addr = gwsconf['serv_addr'] + gwsconf['download_endpoint']
base_working_path = gwsconf['base_working_path']
base_upload_path = os.path.join(base_working_path, 'Experiments')
base_graple_path = os.path.join(base_working_path, 'GRAPLE_SCRIPTS')
base_filter_path = os.path.join(base_working_path, 'Filters')
base_result_path = os.path.join(base_working_path, 'Results')
db_client = MongoClient() # running at default port
db = db_client[gwsconf['graple_db_name']]
collection = db[gwsconf['graple_coll_name']]
api_collection = db[gwsconf['api_coll_name']]
refresh_delay = gwsconf['refresh_delay']
compression_cores = str(gwsconf['compression_cores'])
email_template = '''
Dear {username},
Your experiment {expname} has completed processing and is available for download.
Please download your experiment results before it expires.
Details:
Experiment Name: {expname}
Experiment ID: {expid}
Submitted: {subtime}
Completed: {comptime}
Expiry: {exptime}
Thanks!
NOTE:
All times are according to {time_zone}.
This will be the only email sent to you for this experiment. No more notifications will be sent.
Replies to this email are not monitored.
'''
#while(True)
# last_time = now()
# query status == 2
# for each cluster ID set
# condor_q for each cluster ID set
# if complete:
# consolidate to output.tar.gz
# delete experiment files (base_upload_path/uid)
# set 'expiry' in DB
# set 'status' = 3
# set 'progress' in DB (all sets in one shot, to avoid concurrency issues)
#
# query status == 5
# condor_rm all cluster IDs in all sets
# delete experiment files
# delete uid from base_result_path
# set status = 6
#
# query 'expiry' <= current time
# delete uid from base_result_path
# set status = 6
#
# if now() < last_time + refresh_delay
# sleep(last_time + refresh_delay - now())
class ignoreKbInt():
def __enter__(self):
self.KbIntWaiting = False
self.prevhand = signal.getsignal(signal.SIGTERM)
signal.signal(signal.SIGTERM, self.dummyhandler)
def dummyhandler(self, sig, frame):
self.KbIntWaiting = (sig, frame)
print "Kb interrupt waiting"
def __exit__(self, type, value, traceback):
signal.signal(signal.SIGTERM, self.prevhand)
if self.KbIntWaiting:
print "Exiting..."
self.prevhand(*self.KbIntWaiting)
def convert_tz(local_time, new_tz):
if new_tz == '':
return local_time
local_tz = pytz.timezone("US/Eastern")
return local_tz.localize(local_time).astimezone(pytz.timezone(new_tz))
def process_graple_results(dbdoc):
global base_upload_path, base_result_path
uid = dbdoc['key']
apidbdoc = api_collection.find_one({'key':dbdoc['apikey']})
res_dir = os.path.join(base_result_path, uid) # can change uid to random folder name for security
tarfn = os.path.join(res_dir, 'output.tar.gz')
if not os.path.isfile(tarfn):
os.mkdir(res_dir)
exp_res_dir = os.path.join(base_upload_path, uid, 'Results')
bzlist = [bzfn for bzfn in listdir(exp_res_dir) if bzfn.endswith('.tar.bz2')]
subprocess.call(['parallel', '-P', compression_cores, 'tar', 'jxf', ':::'] + bzlist, cwd = exp_res_dir)
subprocess.call(['rm'] + bzlist, cwd = exp_res_dir)
cons_script = os.path.join(exp_res_dir, 'ConsolidateResults.py')
if os.path.isfile(cons_script):
subprocess.call(['python', cons_script])
if apidbdoc['debug']:
shutil.copytree(os.path.join(base_upload_path, uid, 'Logs'), os.path.join(exp_res_dir, 'Logs'))
shutil.copy(os.path.join(base_upload_path, uid, 'graple.log'), os.path.join(exp_res_dir, 'Logs'))
subprocess.call(['tar', 'I', 'pigz -p ' + compression_cores, '-cf', tarfn] + listdir(exp_res_dir), cwd = exp_res_dir)
if not apidbdoc['debug'] and os.path.exists(os.path.join(base_upload_path, uid)):
shutil.rmtree(os.path.join(base_upload_path, uid))
comp_time = datetime.datetime.now()
update_doc = {'status':3, 'progress':100.0, 'completed':comp_time}
if dbdoc['retention'] != 0:
update_doc['expiry'] = (gwsconf['retention_unit'] * dbdoc['retention']) + comp_time
collection.update_one({'key':uid}, {'$set':update_doc})
if 'email' in dbdoc and len(dbdoc['email']) > 0:
dbdoc = collection.find_one({'key':uid})
expName = dbdoc['expname'] if len(dbdoc['expname']) > 0 else dbdoc['key']
emailmsg = MIMEText(email_template.format(expname = expName,
username = apidbdoc['name'].split()[0],
time_zone = apidbdoc['tz'],
expid = dbdoc['key'],
subtime = convert_tz(dbdoc['submitted'], apidbdoc['tz']).ctime(),
comptime = convert_tz(dbdoc['completed'], apidbdoc['tz']).ctime(),
exptime = convert_tz(dbdoc['expiry'], apidbdoc['tz']).ctime() if 'expiry' in dbdoc else 'On first download'))
emailmsg['From'] = email.utils.formataddr((str(Header('Graple Notifier', 'utf-8')), gwsconf['smtp_user']))
emailmsg['To'] = dbdoc['email']
emailmsg['Subject'] = "GRAPLE Experiment " + expName + " complete"
smtpserv = smtplib.SMTP(gwsconf['smtp_server'])
#smtpserv.ehlo()
#smtpserv.starttls()
#smtpserv.login(gwsconf['smtp_user'], gwsconf['smtp_pass'])
smtpserv.sendmail(gwsconf['smtp_user'], [emailmsg['To']], emailmsg.as_string())
smtpserv.quit()
return os.path.join(uid, 'output.tar.gz')
def process_once():
for dbdoc in collection.find({'status':2}):
condor_command = ['condor_history'] + map(str, dbdoc['payload']) + ['-format', '%d', 'JobStatus']
cout = subprocess.check_output(condor_command)
prog = round(float(cout.count('4'))/len(dbdoc['payload'])*100, 2)
if prog == 100:
process_graple_results(dbdoc)
elif dbdoc['progress'] != prog:
collection.update_one({'key':dbdoc['key']}, {'$set':{'progress':prog}})
for dbdoc in collection.find({'status':5}):
if 'payload' in dbdoc:
condor_command = ['condor_rm'] + map(str, dbdoc['payload'])
subprocess.call(condor_command)
if os.path.isdir(os.path.join(base_upload_path, dbdoc['key'])):
shutil.rmtree(os.path.join(base_upload_path, dbdoc['key']))
if os.path.isdir(os.path.join(base_result_path, dbdoc['key'])):
shutil.rmtree(os.path.join(base_result_path, dbdoc['key']))
collection.update_one({'key':dbdoc['key']}, {'$set':{'status':6}})
for dbdoc in collection.find({'expiry':{'$lt':datetime.datetime.now()}, 'status':{'$ne':6}}):
if os.path.isdir(os.path.join(base_result_path, dbdoc['key'])):
shutil.rmtree(os.path.join(base_result_path, dbdoc['key']))
collection.update_one({'key':dbdoc['key']}, {'$set':{'status':6}})
while True:
last_check_time = datetime.datetime.now()
with ignoreKbInt():
process_once()
try:
if datetime.datetime.now() < last_check_time + refresh_delay:
sleep_time = last_check_time + refresh_delay - datetime.datetime.now()
time.sleep(sleep_time.total_seconds())
except:
print "Exited while sleeping.."
sys.exit()