-
Notifications
You must be signed in to change notification settings - Fork 0
/
IceCubeSyncSite.py
367 lines (317 loc) · 15 KB
/
IceCubeSyncSite.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
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
#! /bin/env python
"""
Command line tool for registering an IceCube dataset into rucio
Based on Brian Bockelman's for CMS
"""
from __future__ import absolute_import, division, print_function
import json
import multiprocessing
import re
from argparse import ArgumentParser
from subprocess import Popen, PIPE
from gfal2 import Gfal2Context, GError
import rucio.rse.rsemanager as rsemgr
from rucio.client.didclient import DIDClient
from rucio.client.replicaclient import ReplicaClient
from rucio.common.exception import DataIdentifierAlreadyExists
from rucio.common.exception import RucioException
from rucio.common.exception import FileAlreadyExists
from rucio.common.exception import DuplicateRule
from rucio.common.exception import InvalidObject
from rucio.client import RuleClient
import gfal2
DEFAULT_SCOPE = 'exp'
DEBUG_FLAG = False
DEFAULT_LIMIT = 10
DEFAULT_ORIGIN_RSE = 'WIPAC-ORIGINAL2'
#Default dataset like IceCube/2016/filtered/level2pass2/0101/Run00127347
class RunSync(object):
"""
Synchronize the replica of a given run at WIPAC-ORIG
the corresponding Rucio site.
"""
def __init__(self, run, originrse=DEFAULT_ORIGIN_RSE, destrse=None, scope=DEFAULT_SCOPE,
check=True, lifetime=None, dry_run=False, container=None):
"""
:param dataset: Name of the PhEDEx dataset to synchronize with Rucio.
:param pnn: PhEDEx node name to filter on for replica information.
"""
self.run = run
self.originrse = originrse
self.destrse = destrse
self.scope = scope
self.check = check
self.lifetime = lifetime
self.dry_run = dry_run
self.container = container
self.rucio_datasets = {}
self.run_files = {}
self.existent_replica_files = {}
self.url = ''
self.gfal = Gfal2Context()
self.run_Number = None
self.get_run_Number()
self.files_storage = {}
self.get_global_url()
self.didc = DIDClient()
self.repc = ReplicaClient()
self.rulesClient = RuleClient()
# Right now obtaining the Metadata from the storage at WIPAC
# Hopefully in the future from JADE # TODO
self.get_run_Files()
self.get_rucio_metadata()
self.update_run_Files()
self.get_files_metadata()
def update_run_Files(self):
"""
Updating the run files wiht only the files that have not been registered
"""
for f in self.existent_replica_files:
file_name = f.split('/')[-1:][0]
if file_name in self.run_files:
print("File: %s already registered. Skipping it" % file_name)
self.run_files.pop(file_name)
def get_files_metadata(self):
for f in self.run_files:
if self.run + '/' + f not in self.existent_replica_files:
self.obtain_metadata(f)
print("Metadat initialization done")
def obtain_metadata(self, filename):
"""
Get the size and checksum for every file in the run from the gftp server
"""
url = self.get_file_url(filename)
print("checking metadata for url %s" % url)
try:
size = self.gfal.stat(str(url)).st_size
adler32 = self.gfal.checksum(str(url), 'adler32')
print("got size and adler 32checksum of file: pfn=%s size=%s checksum=%s"% (url, size, adler32))
self.run_files[filename] = {'size':size, 'adler32':adler32, 'name': self.run + '/' + filename}
except GError:
print("no file found at %s" % url)
return False
def get_file_url(self, filename):
return self.url + '/' + self.run + '/' + filename
def get_global_url(self):
"""
Return the base path of the rucio url
"""
print("Getting parameters for rse %s" % self.originrse)
rse = rsemgr.get_rse_info(self.originrse)
proto = rse['protocols'][0]
schema = proto['scheme']
prefix = proto['prefix'] + self.scope.replace('.', '/')
if schema == 'srm':
prefix = proto['extended_attributes']['web_service_path'] + prefix
url = schema + '://' + proto['hostname']
if proto['port'] != 0:
url = url + ':' + str(proto['port'])
self.url = url + prefix
print("Determined base url %s" % self.url)
def get_run_Number(self):
"""
Obtain the run number out of whole run IceCube/2016/filtered/level2pass2/0101/Run00127347
"""
print("Obtaining run number out of run(dataset): %s" % self.run)
self.run_Number = self.run.split("/")[-1]
print("Run number (dataset): %s" % self.run_Number)
def get_run_Files(self):
"""
Gets the list of files for a given run and their checksums from the storage
"""
self.run_url = self.url + '/' + self.run
print("Listin files from url : %s" % self.run_url)
run_files = []
try:
run_files = self.gfal.listdir(str(self.run_url))
except GError:
print("No files found at %s" % str(self.run_url))
print("Files found in storage:")
count = 0
for f in run_files:
if len(f) > 3:
if count < 5000:
self.run_files[f] = {}
count = count + 1
else:
break
def get_rucio_metadata(self):
"""
Gets the list of datasets at the Rucio RSE, the files, and the metadata.
"""
print("Initializing Rucio... getting the list of blocks and files at %s"
% self.originrse)
registered_datasets = self.repc.list_datasets_per_rse(self.originrse)
for dataset in registered_datasets:
self.rucio_datasets[dataset] = {}
replica_info = self.repc.list_replicas([{"scope": self.scope,
"name": '/'+self.run_Number}],
rse_expression="rse=%s" % self.originrse)
replica_files = set()
for file_info in replica_info:
name = file_info['name']
if self.originrse in file_info['rses']:
replica_files.add(name)
self.existent_replica_files = replica_files
print("Rucio initialization done.")
def register(self):
"""
Create the container, the datasets and attach them to the container.
"""
print("Registering...")
self.register_dataset(self.run_Number)
self.register_replicas(self.run_files)
self.register_container(self.container)
self.attach_dataset_to_container(self.run_Number, self.container)
self.add_replica_rule(dataset=self.run_Number, destRSE=self.destrse)
def register_container(self, container):
"""
Registering the container
"""
print("Registering the container %s with scope: %s" % (container,self.scope))
if container is None:
print ('No container added, not registering any container')
return
if self.dry_run:
print ('Dry run only, not registering the container')
return
try:
self.didc.add_container(scope=self.scope, name=container, lifetime=self.lifetime)
except DataIdentifierAlreadyExists:
print("Container %s already exists" % container)
except InvalidObject:
print("Problem with container name: %s" % container)
def attach_dataset_to_container(self, dataset, container):
"""
Attaching the dataset to a container
"""
print("Attaching dataset %s, to container: %s" % (dataset, container))
if container is None:
print ('No container added, not registering dataset in container')
return
if self.dry_run:
print ('Dry run only, not attaching dataset container')
return
try:
self.didc.attach_dids(scope=self.scope, name=container,
dids=[{'scope': self.scope, 'name': '/'+dataset}])
except RucioException:
print("dataset already attached to container")
return
def register_dataset(self, run):
"""
Registering a dataset in the rucio database
"""
print("registering dataset %s"% run)
if self.dry_run:
print(' Dry run only. Not creating dataset.')
return
try:
self.didc.add_dataset(scope=self.scope, name=run, lifetime=self.lifetime)
except DataIdentifierAlreadyExists:
print(" Dataset %s already exists" % run)
def register_replicas(self, replicas):
"""
Register file replica.
"""
if not replicas:
return
print("registering files in Rucio: %s" % ", ".join([replicas[filemd]['name'] for filemd in replicas]))
if self.dry_run:
print(' Dry run only. Not registering files.')
return
try:
self.repc.add_replicas(rse=self.originrse, files=[{
'scope': self.scope,
'name': replicas[filemd]['name'],
'adler32': replicas[filemd]['adler32'],
'bytes': replicas[filemd]['size'],
} for filemd in replicas])
print("Adding files to dataset: %s" % self.run_Number)
except InvalidObject:
print("Problem with file name does not match pattern")
for filemd in replicas:
try:
self.didc.attach_dids(scope=self.scope, name=self.run_Number, dids=[{
'scope': self.scope,
'name': replicas[filemd]['name']}])
except FileAlreadyExists:
print("File already attached")
def add_replica_rule(self, destRSE, dataset):
"""
Create a replication rule for one dataset "Run" at an RSE
"""
print("Creating replica rule for dataset %s at rse: %s" % (dataset, destRSE))
if self.dry_run:
print(' Dry run only. Not creating rules')
return
if destRSE:
try:
self.rulesClient.add_replication_rule([{"scope":self.scope,"name":"/"+dataset}],copies=1, rse_expression=destRSE)
except DuplicateRule:
print('Rule already exists')
def sync_one_dataset(dataset, originrse, destrse, scope, check, dry_run, container):
"""
Helper function for DatasetSync
"""
instance = RunSync(
run=dataset,
originrse=originrse,
destrse=destrse,
scope=scope,
check=check,
dry_run=dry_run,
container=container,
)
instance.register()
def getDatasetListFromFile(datasetFile):
with open(datasetFile) as f:
content = f.readlines()
content = [x[9:].strip() for x in content]
return content
def main():
"""
Main function.
"""
parser = ArgumentParser(description="Given a Dataset (Run), like 2016/filtered/level2pass2/0101/Run00127347 "
"register files in Rucio in case they are not there")
parser.add_argument('--scope', dest='scope', help='scope of the dataset (default %s).'
% DEFAULT_SCOPE, default=DEFAULT_SCOPE)
parser.add_argument('--originrse', dest='originrse', help='Origin RSE the default is WIPAC-ORIGINAL', default=DEFAULT_ORIGIN_RSE)
parser.add_argument('--destrse', dest='destrse', help='Destination RSE where the files should be rpelicated')
parser.add_argument('--nocheck', dest='check', action='store_false',
help='do not check size and checksum of files replicas on storage.')
parser.add_argument('--limit', dest='limit', default=DEFAULT_LIMIT, type=int,
help="limit on the number of datasets to attempt sync. default %s. -1 for unlimited" % DEFAULT_LIMIT)
parser.add_argument('--pool', dest='pool', default=5, type=int,
help="number of helper processes to use.")
parser.add_argument('--dryrun', dest='dry_run', action='store_true',
help='do not change anything in rucio, checking only')
parser.add_argument('--dataset', dest='dataset', action='append',
help='specific dataset or runs to sync')
parser.add_argument('--container', dest='container', action='store', help='Container to attach the dataset to')
parser.add_argument('--datasetFile', dest='datasetFile', action='store', help='File with the list of runs')
options = parser.parse_args()
pool = multiprocessing.Pool(options.pool)
datasets = options.dataset
datasetFile = options.datasetFile
limit = options.limit
count = 0
futures = []
if datasetFile:
if datasets:
datasets = datasets.extend(getDatasetListFromFile(datasetFile))
else:
datasets = getDatasetListFromFile(datasetFile)
for dataset in datasets:
count += 1
if limit > 0 and count >= limit:
break
future = pool.apply_async(sync_one_dataset,(dataset, options.originrse, options.destrse,options.scope, options.check, options.dry_run, options.container))
futures.append((dataset, future))
pool.close()
for dataset, future in futures:
future.get()
print("Finished processing dataset %s" % dataset)
if __name__ == '__main__':
main()