def getBlocksNormed(self):
activity = Activity('Retrieving %s' % self._datasetExpr)
try:
# Validation, Naming:
for block in self._getBlocksInternal():
assert (block[DataProvider.Dataset])
block.setdefault(DataProvider.BlockName, '0')
block.setdefault(DataProvider.Provider,
self.__class__.__name__)
block.setdefault(DataProvider.Locations, None)
events = sum(
imap(lambda x: x[DataProvider.NEntries],
block[DataProvider.FileList]))
block.setdefault(DataProvider.NEntries, events)
if self._datasetNick:
block[DataProvider.Nickname] = self._datasetNick
elif self._nickProducer:
block = self._nickProducer.processBlock(block)
if not block:
raise DatasetError('Nickname producer failed!')
yield block
except Exception:
raise DatasetError('Unable to retrieve dataset %s' %
repr(self._datasetExpr))
activity.finish()
def do_transfer(self, desc_source_target_list):
for (desc, source, target) in desc_source_target_list:
if not self._storage_paths:
raise ConfigError(
"%s can't be transferred because '%s path wasn't set" %
(desc, self._storage_channel))
for idx, se_path in enumerate(set(self._storage_paths)):
activity = Activity('Copy %s to SE %d ' % (desc, idx + 1))
proc = se_copy(source, os.path.join(se_path, target),
self._storage_force)
proc.status(timeout=5 * 60, terminate=True)
activity.finish()
if proc.status(timeout=0) == 0:
self._log.info('Copy %s to SE %d finished', desc, idx + 1)
else:
self._log.info('Copy %s to SE %d failed', desc, idx + 1)
self._log.log_process(proc)
self._log.critical(
'Unable to copy %s! You can try to copy it manually.',
desc)
msg = 'Is %s (%s) available on SE %s?' % (desc, source,
se_path)
if not UserInputInterface().prompt_bool(msg, False):
raise StorageError('%s is missing on SE %s!' %
(desc, se_path))
def _get_jobs_output(self, gc_id_jobnum_list):
# retrieve task output files from sandbox directory
if not len(gc_id_jobnum_list):
raise StopIteration
activity = Activity('retrieving job outputs')
for gc_id, jobnum in gc_id_jobnum_list:
sandpath = self._get_sandbox_dn(jobnum)
if sandpath is None:
yield (jobnum, None)
continue
# when working with a remote spool schedd, tell condor to return files
if self._remote_type == PoolType.SPOOL:
self._check_and_log_proc(
self._proc_factory.logged_execute(
self._transfer_exec,
self._split_gc_id(gc_id)[1]))
# when working with a remote [gsi]ssh schedd, manually return files
elif self._remote_type in (PoolType.SSH, PoolType.GSISSH):
self._check_and_log_proc(
self._proc_factory.logged_copy_from_remote(
self._get_remote_output_dn(jobnum),
self._get_sandbox_dn()))
# clean up remote working directory
self._check_and_log_proc(
self._proc_factory.logged_execute(
'rm -rf %s' % self._get_remote_output_dn(jobnum)))
# eventually extract wildcarded output files from the tarball
unpack_wildcard_tar(self._log, sandpath)
yield (jobnum, sandpath)
# clean up if necessary
activity.finish()
self._cleanup_remote_output_dn()
def _read_jobs(self, job_limit):
ensure_dir_exists(self._path_db, 'job database directory', JobError)
candidates = []
for job_fn in fnmatch.filter(os.listdir(self._path_db), 'job_*.txt'):
try: # 2xsplit is faster than regex
jobnum = int(job_fn.split(".")[0].split("_")[1])
except Exception:
clear_current_exception()
continue
candidates.append((jobnum, job_fn))
(job_map, max_job_len) = ({}, len(candidates))
activity = Activity('Reading job infos')
idx = 0
for (jobnum, job_fn) in sorted(candidates):
idx += 1
if jobnum >= job_limit >= 0:
self._log.info(
'Stopped reading job infos at job #%d out of %d available job files, '
+ 'since the limit of %d jobs is reached', jobnum,
len(candidates), job_limit)
break
try:
job_fn_full = os.path.join(self._path_db, job_fn)
data = self._fmt.parse(SafeFile(job_fn_full).iter_close())
job_obj = self._create_job_obj(job_fn_full, data)
except Exception:
raise JobError('Unable to process job file %r' % job_fn_full)
job_map[jobnum] = job_obj
activity.update('Reading job infos %d [%d%%]' %
(idx, (100.0 * idx) / max_job_len))
activity.finish()
return job_map
def _readJobs(self, jobLimit):
utils.ensureDirExists(self._dbPath, 'job database directory', JobError)
candidates = []
for jobFile in fnmatch.filter(os.listdir(self._dbPath), 'job_*.txt'):
try: # 2xsplit is faster than regex
jobNum = int(jobFile.split(".")[0].split("_")[1])
except Exception:
continue
candidates.append((jobNum, jobFile))
(jobMap, maxJobs) = ({}, len(candidates))
activity = Activity('Reading job infos')
idx = 0
for (jobNum, jobFile) in sorted(candidates):
idx += 1
if (jobLimit >= 0) and (jobNum >= jobLimit):
self._log.info('Stopped reading job infos at job #%d out of %d available job files, since the limit of %d jobs is reached',
jobNum, len(candidates), jobLimit)
break
jobObj = self._load_job(os.path.join(self._dbPath, jobFile))
jobMap[jobNum] = jobObj
if idx % 100 == 0:
activity.update('Reading job infos %d [%d%%]' % (idx, (100.0 * idx) / maxJobs))
activity.finish()
return jobMap
def execute(self, wmsIDs, wmsName): # yields list of (wmsID,)
marked_wmsIDs = lmap(lambda result: result[0], self._cancel_executor.execute(wmsIDs, wmsName))
time.sleep(5)
activity = Activity('Purging jobs')
for result in self._purge_executor.execute(marked_wmsIDs, wmsName):
yield result
activity.finish()
def _submitJob(self, jobNum, module):
fd, jdl = tempfile.mkstemp('.jdl')
try:
jdlData = self.makeJDL(jobNum, module)
utils.safeWrite(os.fdopen(fd, 'w'), jdlData)
except Exception:
utils.removeFiles([jdl])
raise BackendError('Could not write jdl data to %s.' % jdl)
try:
submitArgs = []
for key_value in utils.filterDict(self._submitParams, vF = lambda v: v).items():
submitArgs.extend(key_value)
submitArgs.append(jdl)
activity = Activity('submitting job %d' % jobNum)
proc = LocalProcess(self._submitExec, '--nomsg', '--noint', '--logfile', '/dev/stderr', *submitArgs)
gcID = None
for line in ifilter(lambda x: x.startswith('http'), imap(str.strip, proc.stdout.iter(timeout = 60))):
gcID = line
retCode = proc.status(timeout = 0, terminate = True)
activity.finish()
if (retCode != 0) or (gcID is None):
if self.explainError(proc, retCode):
pass
else:
self._log.log_process(proc, files = {'jdl': SafeFile(jdl).read()})
finally:
utils.removeFiles([jdl])
return (jobNum, utils.QM(gcID, self._createId(gcID), None), {'jdl': str.join('', jdlData)})
def iter_blocks_normed(self):
activity = Activity('Retrieving %s' % self._dataset_expr)
try:
# Validation, Naming:
for block in self._iter_blocks_raw():
if not block.get(DataProvider.Dataset):
raise DatasetError(
'Block does not contain the dataset name!')
block.setdefault(DataProvider.BlockName, '0')
block.setdefault(DataProvider.Provider,
self.__class__.__name__)
block.setdefault(DataProvider.Query, self._dataset_expr)
block.setdefault(DataProvider.Locations, None)
events = sum(
imap(itemgetter(DataProvider.NEntries),
block[DataProvider.FileList]))
block.setdefault(DataProvider.NEntries, events)
if self._dataset_nick_override:
block[DataProvider.Nickname] = self._dataset_nick_override
elif self._nick_producer:
block = self._nick_producer.process_block(block)
if not block:
raise DatasetError('Nickname producer failed!')
yield block
except Exception:
raise DatasetRetrievalError('Unable to retrieve dataset %s' %
repr(self._dataset_expr))
activity.finish()
def _resync(self):
if self._data_provider:
activity = Activity('Performing resync of datasource %r' % self._name)
# Get old and new dataset information
ds_old = DataProvider.loadFromFile(self._getDataPath('cache.dat')).getBlocks(show_stats = False)
self._data_provider.clearCache()
ds_new = self._data_provider.getBlocks(show_stats = False)
self._data_provider.saveToFile(self._getDataPath('cache-new.dat'), ds_new)
# Use old splitting information to synchronize with new dataset infos
old_maxN = self._data_splitter.getMaxJobs()
jobChanges = self._data_splitter.resyncMapping(self._getDataPath('map-new.tar'), ds_old, ds_new)
activity.finish()
if jobChanges is not None:
# Move current splitting to backup and use the new splitting from now on
def backupRename(old, cur, new):
if self._keepOld:
os.rename(self._getDataPath(cur), self._getDataPath(old))
os.rename(self._getDataPath(new), self._getDataPath(cur))
backupRename( 'map-old-%d.tar' % time.time(), 'map.tar', 'map-new.tar')
backupRename('cache-old-%d.dat' % time.time(), 'cache.dat', 'cache-new.dat')
self._data_splitter.importPartitions(self._getDataPath('map.tar'))
self._maxN = self._data_splitter.getMaxJobs()
self._log.debug('Dataset resync finished: %d -> %d partitions', old_maxN, self._maxN)
return (set(jobChanges[0]), set(jobChanges[1]), old_maxN != self._maxN)
def _cleanup_remote_output_dn(self):
# active remote submission should clean up when no jobs remain
if self._remote_type in (PoolType.SSH, PoolType.GSISSH):
activity = Activity('clearing remote work directory')
# check whether there are any remote working directories remaining
check_proc = self._proc_factory.logged_execute(
'find %s -maxdepth 1 -type d | wc -l' %
self._get_remote_output_dn())
try:
if int(check_proc.get_output()) <= 1:
cleanup_cmd = 'rm -rf %s' % self._get_remote_output_dn()
cleanup_proc = self._proc_factory.logged_execute(
cleanup_cmd)
if cleanup_proc.wait() != 0:
if self._explain_error(cleanup_proc,
cleanup_proc.wait()):
return
cleanup_proc.log_error(self._error_log_fn)
raise BackendError(
'Cleanup process %s returned: %s' %
(cleanup_proc.cmd, cleanup_proc.get_message()))
except Exception:
self._log.warning(
'There might be some junk data left in: %s @ %s',
self._get_remote_output_dn(),
self._proc_factory.get_domain())
raise BackendError(
'Unable to clean up remote working directory')
activity.finish()
def doTransfer(self, listDescSourceTarget):
for (desc, source, target) in listDescSourceTarget:
if not self.smPaths:
raise ConfigError(
"%s can't be transferred because '%s path wasn't set" %
(desc, self.smOptPrefix))
for idx, sePath in enumerate(set(self.smPaths)):
activity = Activity('Copy %s to SE %d ' % (desc, idx + 1))
proc = se_copy(source, os.path.join(sePath, target),
self.smForce)
proc.status(timeout=5 * 60, terminate=True)
activity.finish()
if proc.status(timeout=0) == 0:
self._log.info('Copy %s to SE %d finished', desc, idx + 1)
else:
self._log.info('Copy %s to SE %d failed', desc, idx + 1)
self._log.critical(proc.stderr.read(timeout=0))
self._log.critical(
'Unable to copy %s! You can try to copy it manually.',
desc)
if not utils.getUserBool(
'Is %s (%s) available on SE %s?' %
(desc, source, sePath), False):
raise StorageError('%s is missing on SE %s!' %
(desc, sePath))
def _fill_cms_fi_list(self, block, block_path):
activity_fi = Activity('Getting file information')
lumi_used = False
lumi_info_dict = {}
if self._lumi_query: # central lumi query
lumi_info_dict = self._get_cms_lumi_dict(block_path)
fi_list = []
for (fi,
lumi_info_list) in self._iter_cms_files(block_path,
self._only_valid,
self._lumi_query):
self._raise_on_abort()
if lumi_info_dict and not lumi_info_list:
lumi_info_list = lumi_info_dict.get(fi[DataProvider.URL], [])
if lumi_info_list:
(run_list_result, lumi_list_result) = ([], [])
for (run, lumi_list) in sorted(lumi_info_list):
run_list_result.extend([run] * len(lumi_list))
lumi_list_result.extend(lumi_list)
assert len(run_list_result) == len(lumi_list_result)
fi[DataProvider.Metadata] = [run_list_result, lumi_list_result]
lumi_used = True
fi_list.append(fi)
if lumi_used:
block.setdefault(DataProvider.Metadata,
[]).extend(['Runs', 'Lumi'])
block[DataProvider.FileList] = fi_list
activity_fi.finish()
def _read_jobs(self, job_limit):
ensure_dir_exists(self._path_db, 'job database directory', JobError)
candidates = []
for job_fn in fnmatch.filter(os.listdir(self._path_db), 'job_*.txt'):
try: # 2xsplit is faster than regex
jobnum = int(job_fn.split(".")[0].split("_")[1])
except Exception:
clear_current_exception()
continue
candidates.append((jobnum, job_fn))
(job_map, max_job_len) = ({}, len(candidates))
activity = Activity('Reading job infos')
idx = 0
for (jobnum, job_fn) in sorted(candidates):
idx += 1
if jobnum >= job_limit >= 0:
self._log.info('Stopped reading job infos at job #%d out of %d available job files, ' +
'since the limit of %d jobs is reached', jobnum, len(candidates), job_limit)
break
try:
job_fn_full = os.path.join(self._path_db, job_fn)
data = self._fmt.parse(SafeFile(job_fn_full).iter_close())
job_obj = self._create_job_obj(job_fn_full, data)
except Exception:
raise JobError('Unable to process job file %r' % job_fn_full)
job_map[jobnum] = job_obj
activity.update('Reading job infos %d [%d%%]' % (idx, (100.0 * idx) / max_job_len))
activity.finish()
return job_map
def _get_jobs_output(self, gc_id_jobnum_list):
# Get output of jobs and yield output dirs
if len(gc_id_jobnum_list) == 0:
raise StopIteration
root_dn = os.path.join(self._path_output, 'tmp')
try:
if len(gc_id_jobnum_list) == 1:
# For single jobs create single subdir
tmp_dn = os.path.join(root_dn,
md5_hex(gc_id_jobnum_list[0][0]))
else:
tmp_dn = root_dn
ensure_dir_exists(tmp_dn)
except Exception:
raise BackendError(
'Temporary path "%s" could not be created.' % tmp_dn,
BackendError)
map_gc_id2jobnum = dict(gc_id_jobnum_list)
jobs = self._write_wms_id_list(gc_id_jobnum_list)
activity = Activity('retrieving %d job outputs' %
len(gc_id_jobnum_list))
proc = LocalProcess(self._output_exec, '--noint', '--logfile',
'/dev/stderr', '-i', jobs, '--dir', tmp_dn)
# yield output dirs
todo = map_gc_id2jobnum.values()
current_jobnum = None
for line in imap(str.strip, proc.stdout.iter(timeout=60)):
if line.startswith(tmp_dn):
todo.remove(current_jobnum)
output_dn = line.strip()
unpack_wildcard_tar(self._log, output_dn)
yield (current_jobnum, output_dn)
current_jobnum = None
else:
current_jobnum = map_gc_id2jobnum.get(self._create_gc_id(line),
current_jobnum)
exit_code = proc.status(timeout=0, terminate=True)
activity.finish()
if exit_code != 0:
if 'Keyboard interrupt raised by user' in proc.stderr.read(
timeout=0):
remove_files([jobs, root_dn])
raise StopIteration
else:
self._log.log_process(proc,
files={'jobs': SafeFile(jobs).read()})
self._log.error('Trying to recover from error ...')
for dn in os.listdir(root_dn):
yield (None, os.path.join(root_dn, dn))
# return unretrievable jobs
for jobnum in todo:
yield (jobnum, None)
remove_files([jobs, tmp_dn])
def _submit_jobs(self, jobnum_list, task):
# submit_jobs: Submit a number of jobs and yield (jobnum, WMS ID, other data) sequentially
# >>jobnum: internal ID of the Job
# JobNum is linked to the actual *task* here
(jdl_fn, submit_jdl_fn) = self._submit_jobs_prepare(jobnum_list, task)
try:
# submit all jobs simultaneously and temporarily store verbose (ClassAdd) output
activity = Activity('queuing jobs at scheduler')
submit_args = ' -verbose -batch-name ' + task.get_description().task_name + ' ' + submit_jdl_fn
proc = self._proc_factory.logged_execute(self._submit_exec, submit_args)
# extract the Condor ID (WMS ID) of the jobs from output ClassAds
jobnum_gc_id_list = []
for line in proc.iter():
if 'GridControl_GCIDtoWMSID' in line:
jobnum_wms_id = line.split('=')[1].strip(' "\n').split('@')
jobnum, wms_id = int(jobnum_wms_id[0]), jobnum_wms_id[1].strip()
# Condor creates a default job then overwrites settings on any subsequent job
# i.e. skip every second, but better be sure
if (not jobnum_gc_id_list) or (jobnum not in lzip(*jobnum_gc_id_list)[0]):
jobnum_gc_id_list.append((jobnum, self._create_gc_id(wms_id)))
exit_code = proc.wait()
activity.finish()
if (exit_code != 0) or (len(jobnum_gc_id_list) < len(jobnum_list)):
if not self._explain_error(proc, exit_code):
self._log.error('Submitted %4d jobs of %4d expected',
len(jobnum_gc_id_list), len(jobnum_list))
proc.log_error(self._error_log_fn, jdl=jdl_fn)
finally:
remove_files([jdl_fn])
for (jobnum, gc_id) in jobnum_gc_id_list:
yield (jobnum, gc_id, {})
def submit_jobs(self, jobnum_list, task):
requestLen = len(jobnum_list)
activity = Activity('Submitting jobs (--%)')
while jobnum_list:
jobSubmitNumList = jobnum_list[-self._schedd.getSubmitScale():]
del jobnum_list[-self._schedd.getSubmitScale():]
activity = Activity('Submitting jobs (%2d%%)'%(100*(requestLen-len(jobnum_list))/requestLen))
for jobnum in jobSubmitNumList:
self._write_job_config(
self.getJobCfgPath(jobnum)[0],
jobnum,
task, {}
)
rawJobInfoMaps = self._schedd.submit_jobs(
jobSubmitNumList,
task,
self._getQueryArgs()
)
# Yield (jobnum, gc_id, other data) per jobZ
jobInfoMaps = self._digestQueueInfoMaps(rawJobInfoMaps)
for htcID in jobInfoMaps:
yield (
htcID.gcJobNum,
self._createGcId(htcID),
jobInfoMaps[htcID]
)
activity.finish()
def create_tarball(match_info_iter, **kwargs):
tar = tarfile.open(mode='w:gz', **kwargs)
activity = Activity('Generating tarball')
for match_info in match_info_iter:
if isinstance(match_info, tuple):
(path_source, path_target) = match_info
else:
(path_source, path_target) = (match_info, None)
if isinstance(path_source, str):
if not os.path.exists(path_source):
raise PathError('File %s does not exist!' % path_source)
tar.add(path_source, path_target or os.path.basename(path_source), recursive=False)
elif path_source is None: # Update activity
activity.update('Generating tarball: %s' % path_target)
else: # File handle
info, handle = path_source.get_tar_info()
if path_target:
info.name = path_target
info.mtime = time.time()
info.mode = stat.S_IRUSR + stat.S_IWUSR + stat.S_IRGRP + stat.S_IROTH
if info.name.endswith('.sh') or info.name.endswith('.py'):
info.mode += stat.S_IXUSR + stat.S_IXGRP + stat.S_IXOTH
tar.addfile(info, handle)
handle.close()
activity.finish()
tar.close()
def _resync_psrc(self):
activity = Activity('Performing resync of datasource %r' % self.get_datasource_name())
# Get old and new dataset information
provider_old = DataProvider.load_from_file(self._get_data_path('cache.dat'))
block_list_old = provider_old.get_block_list_cached(show_stats=False)
self._provider.clear_cache()
block_list_new = self._provider.get_block_list_cached(show_stats=False)
self._provider.save_to_file(self._get_data_path('cache-new.dat'), block_list_new)
# Use old splitting information to synchronize with new dataset infos
partition_len_old = self.get_parameter_len()
partition_changes = self._resync_partitions(
self._get_data_path('map-new.tar'), block_list_old, block_list_new)
activity.finish()
if partition_changes is not None:
# Move current splitting to backup and use the new splitting from now on
def _rename_with_backup(new, cur, old):
if self._keep_old:
os.rename(self._get_data_path(cur), self._get_data_path(old))
os.rename(self._get_data_path(new), self._get_data_path(cur))
_rename_with_backup('map-new.tar', 'map.tar', 'map-old-%d.tar' % time.time())
_rename_with_backup('cache-new.dat', 'cache.dat', 'cache-old-%d.dat' % time.time())
self._set_reader(DataSplitter.load_partitions(self._get_data_path('map.tar')))
self._log.debug('Dataset resync finished: %d -> %d partitions', partition_len_old, self._len)
(pnum_list_redo, pnum_list_disable) = partition_changes
return (set(pnum_list_redo), set(pnum_list_disable), partition_len_old != self._len)
def _set_proxy_lifetime(self):
activity = Activity('Get proxy lifetime...')
proc = LocalProcess(resolve_install_path('voms-proxy-info'))
output = proc.get_output(timeout=10, raise_errors=False)
end_of_proxy = 0
proxy_key = None
for l in output.split('\n'):
if 'subject' in l:
proxy_key = l.encode("hex")[-15:]
if 'timeleft' in l:
h, m, s = int(l.split(':')[-3]), int(l.split(':')[-2]), int(
l.split(':')[-1])
end_of_proxy = time.time() + h * 60 * 60 + m * 60 + s
break
if end_of_proxy == 0:
self._log.warning('couldnt evaluate end of proxy. Output was:')
self._log.warning(output)
time.sleep(300)
self._set_proxy_lifetime()
else:
self._end_of_proxy_lifetime = end_of_proxy
if proxy_key is not None:
self._delegated_proxy_filename = os.path.join(
os.path.expanduser("~"), ".gcDelegatedProxy" + proxy_key)
left_time_str = datetime.fromtimestamp(
self._end_of_proxy_lifetime).strftime("%A, %B %d, %Y %I:%M:%S")
self._log.info('End of current proxy lifetime: %s' % left_time_str)
activity.finish()
return 0
def delete_job(opts, work_dn, status_mon, job_db, job_obj, jobnum):
activity = Activity('Deleting output files')
try:
if (job_obj.get('deleted') == 'True') and not opts.mark_ignore_rm:
return status_mon.register_job_result(
jobnum, 'Files are already deleted',
JobDownloadStatus.JOB_ALREADY)
if (job_obj.get('download') != 'True') and not opts.mark_ignore_dl:
return status_mon.register_job_result(
jobnum, 'Files are not yet downloaded',
JobDownloadStatus.JOB_INCOMPLETE)
fi_list = FileInfoProcessor().process(
os.path.join(work_dn, 'output', 'job_%d' % jobnum)) or []
if not fi_list:
return status_mon.register_job_result(
jobnum, 'Job has no output files',
JobDownloadStatus.JOB_NO_OUTPUT)
job_successful = job_obj.state != Job.SUCCESS
delete_files(opts,
jobnum,
fi_list,
download_failed=job_successful,
show_se_skip=True)
set_job_prop(job_db, jobnum, job_obj, 'deleted', 'True')
status_mon.register_job_result(jobnum, 'All files deleted',
JobDownloadStatus.JOB_OK)
finally:
activity.finish()
def _read_jobs(self, job_limit):
job_map = {}
max_job_len = 0
if os.path.exists(self._db_fn):
try:
tar = zipfile.ZipFile(self._db_fn, 'r', zipfile.ZIP_DEFLATED)
tar.testzip()
except Exception: # Try to recover job archive
clear_current_exception()
self._log.warning('Job database is corrupted - starting recovery')
self._recover_jobs()
self._log.info('Recover completed!')
activity = Activity('Reading job transactions')
max_job_len = len(tar.namelist())
map_jobnum2tarfn = {}
for idx, tar_info_fn in enumerate(tar.namelist()):
(jobnum, tid) = tuple(imap(lambda s: int(s[1:]), tar_info_fn.split('_', 1)))
if tid < map_jobnum2tarfn.get(jobnum, 0):
continue
try:
data = self._fmt.parse(tar.open(tar_info_fn).read())
except Exception:
clear_current_exception()
continue
job_map[jobnum] = self._create_job_obj(tar_info_fn, data)
map_jobnum2tarfn[jobnum] = tid
if idx % 100 == 0:
activity.update('Reading job transactions %d [%d%%]' % (idx, (100.0 * idx) / max_job_len))
activity.finish()
self._serial = max_job_len
return job_map
def _get_jobs_output(self, gc_id_jobnum_list):
# retrieve task output files from sandbox directory
if not len(gc_id_jobnum_list):
raise StopIteration
activity = Activity('retrieving job outputs')
for gc_id, jobnum in gc_id_jobnum_list:
sandpath = self._get_sandbox_dn(jobnum)
if sandpath is None:
yield (jobnum, None)
continue
# when working with a remote spool schedd, tell condor to return files
if self._remote_type == PoolType.SPOOL:
self._check_and_log_proc(self._proc_factory.logged_execute(
self._transfer_exec, self._split_gc_id(gc_id)[1]))
# when working with a remote [gsi]ssh schedd, manually return files
elif self._remote_type in (PoolType.SSH, PoolType.GSISSH):
self._check_and_log_proc(self._proc_factory.logged_copy_from_remote(
self._get_remote_output_dn(jobnum), self._get_sandbox_dn()))
# clean up remote working directory
self._check_and_log_proc(self._proc_factory.logged_execute(
'rm -rf %s' % self._get_remote_output_dn(jobnum)))
# eventually extract wildcarded output files from the tarball
unpack_wildcard_tar(self._log, sandpath)
yield (jobnum, sandpath)
# clean up if necessary
activity.finish()
self._cleanup_remote_output_dn()
def _readJobs(self, jobLimit):
utils.ensureDirExists(self._dbPath, 'job database directory', JobError)
candidates = []
for jobFile in fnmatch.filter(os.listdir(self._dbPath), 'job_*.txt'):
try: # 2xsplit is faster than regex
jobNum = int(jobFile.split(".")[0].split("_")[1])
except Exception:
continue
candidates.append((jobNum, jobFile))
(jobMap, maxJobs) = ({}, len(candidates))
activity = Activity('Reading job infos')
idx = 0
for (jobNum, jobFile) in sorted(candidates):
idx += 1
if (jobLimit >= 0) and (jobNum >= jobLimit):
self._log.info(
'Stopped reading job infos at job #%d out of %d available job files, since the limit of %d jobs is reached',
jobNum, len(candidates), jobLimit)
break
jobObj = self._load_job(os.path.join(self._dbPath, jobFile))
jobMap[jobNum] = jobObj
if idx % 100 == 0:
activity.update('Reading job infos %d [%d%%]' %
(idx, (100.0 * idx) / maxJobs))
activity.finish()
return jobMap
def _submit_jobs(self, jobnum_list, task):
# submit_jobs: Submit a number of jobs and yield (jobnum, WMS ID, other data) sequentially
# >>jobnum: internal ID of the Job
# JobNum is linked to the actual *task* here
(jdl_fn, submit_jdl_fn) = self._submit_jobs_prepare(jobnum_list, task)
try:
# submit all jobs simultaneously and temporarily store verbose (ClassAdd) output
activity = Activity('queuing jobs at scheduler')
submit_args = ' -verbose -batch-name ' + task.get_description().task_name + ' ' + submit_jdl_fn
proc = self._proc_factory.logged_execute(self._submit_exec, submit_args)
# extract the Condor ID (WMS ID) of the jobs from output ClassAds
jobnum_gc_id_list = []
for line in proc.iter():
if 'GridControl_GCIDtoWMSID' in line:
jobnum_wms_id = line.split('=')[1].strip(' "\n').split('@')
jobnum, wms_id = int(jobnum_wms_id[0]), jobnum_wms_id[1].strip()
# Condor creates a default job then overwrites settings on any subsequent job
# i.e. skip every second, but better be sure
if (not jobnum_gc_id_list) or (jobnum not in lzip(*jobnum_gc_id_list)[0]):
jobnum_gc_id_list.append((jobnum, self._create_gc_id(wms_id)))
exit_code = proc.wait()
activity.finish()
if (exit_code != 0) or (len(jobnum_gc_id_list) < len(jobnum_list)):
if not self._explain_error(proc, exit_code):
self._log.error('Submitted %4d jobs of %4d expected',
len(jobnum_gc_id_list), len(jobnum_list))
proc.log_error(self._error_log_fn, jdl=jdl_fn)
finally:
remove_files([jdl_fn])
for (jobnum, gc_id) in jobnum_gc_id_list:
yield (jobnum, gc_id, {})
def _tidyUpWorkingDirectory(self, forceCleanup=False):
# active remote submission should clean up when no jobs remain
if self.remoteType == PoolType.SSH or self.remoteType == PoolType.GSISSH:
self.debugOut(
"Revising remote working directory for cleanup. Forced CleanUp: %s"
% forceCleanup)
activity = Activity('revising remote work directory')
# check whether there are any remote working directories remaining
checkProcess = self.Pool.LoggedExecute(
'find %s -maxdepth 1 -type d | wc -l' % self.getWorkdirPath())
try:
if forceCleanup or (int(checkProcess.getOutput()) <= 1):
cleanupProcess = self.Pool.LoggedExecute(
'rm -rf %s' % self.getWorkdirPath())
if cleanupProcess.wait() != 0:
if self.explainError(cleanupProcess,
cleanupProcess.wait()):
return
cleanupProcess.logError(self.errorLog)
raise BackendError(
'Cleanup process %s returned: %s' %
(cleanupProcess.cmd, cleanupProcess.getMessage()))
except Exception:
self._log.warning(
'There might be some junk data left in: %s @ %s',
self.getWorkdirPath(), self.Pool.getDomain())
raise BackendError(
'Unable to clean up remote working directory')
activity.finish()
def __init__(self, block_list_old, block_list_new):
activity = Activity('Performing resynchronization of dataset')
block_resync_tuple = DataProvider.resync_blocks(block_list_old, block_list_new)
(self.block_list_added, self._block_list_missing, self._block_list_matching) = block_resync_tuple
for block_missing in self._block_list_missing: # Files in matching blocks are already sorted
sort_inplace(block_missing[DataProvider.FileList], key=itemgetter(DataProvider.URL))
activity.finish()
def _saveStateToTar(self, tar, meta, source, sourceLen, message):
# Write the splitting info grouped into subtarfiles
activity = Activity(message)
(jobNum, lastValid, subTar) = (-1, -1, None)
for jobNum, entry in enumerate(source):
if not entry.get(DataSplitter.Invalid, False):
lastValid = jobNum
if jobNum % self._keySize == 0:
self._closeSubTar(tar, subTar)
subTar = self._createSubTar('%03dXX.tgz' % int(jobNum / self._keySize))
activity.update('%s [%d / %d]' % (message, jobNum, sourceLen))
# Determine shortest way to store file list
tmp = entry.pop(DataSplitter.FileList)
savelist = self._getReducedFileList(entry, tmp) # can modify entry
# Write files with infos / filelist
data = str.join('', self._fmt.format(entry, fkt = self._formatFileEntry) + lmap(lambda fn: '=%s\n' % fn, savelist))
self._addToSubTar(subTar, '%05d' % jobNum, data)
# Remove common prefix from info
if DataSplitter.CommonPrefix in entry:
entry.pop(DataSplitter.CommonPrefix)
entry[DataSplitter.FileList] = tmp
self._closeSubTar(tar, subTar)
activity.finish()
# Write metadata to allow reconstruction of data splitter
meta['MaxJobs'] = lastValid + 1
for (fn, data) in [('Metadata', self._fmt.format(meta)), ('Version', '2')]:
self._addToTar(tar, fn, data)
def hash_verify(opts, status_mon, local_se_path, jobnum, fi_idx, fi):
if not opts.verify_md5:
return status_mon.register_file_result(jobnum, fi_idx,
'Download successful',
FileDownloadStatus.FILE_OK)
# Verify => compute md5hash
remote_hash = fi[FileInfo.Hash]
activity = Activity('Verifying checksum')
try:
local_hash = ignore_exception(Exception, None, hash_calc,
local_se_path.replace('file://', ''))
if local_hash is None:
return status_mon.register_file_result(
jobnum, fi_idx, 'Unable to calculate checksum',
FileDownloadStatus.FILE_HASH_FAILED)
finally:
activity.finish()
hash_match = fi[FileInfo.Hash] == local_hash
match_map = {True: 'MATCH', False: 'FAIL'}
if ANSI is not None:
match_map = {
True: ANSI.reset + ANSI.color_green + 'MATCH' + ANSI.reset,
False: ANSI.reset + ANSI.color_red + 'FAIL' + ANSI.reset
}
msg = '\tLocal hash: %s\n' % local_hash + \
log_intro(jobnum, fi_idx) + '\tRemote hash: %s\n' % remote_hash + \
log_intro(jobnum, fi_idx) + 'Checksum comparison: ' + match_map[hash_match]
if hash_match:
return status_mon.register_file_result(jobnum, fi_idx, msg,
FileDownloadStatus.FILE_OK)
return status_mon.register_file_result(jobnum, fi_idx, msg,
FileDownloadStatus.FILE_HASH_FAILED)
def create_tarball(match_info_iter, **kwargs):
tar = tarfile.open(mode='w:gz', **kwargs)
activity = Activity('Generating tarball')
for match_info in match_info_iter:
if isinstance(match_info, tuple):
(path_source, path_target) = match_info
else:
(path_source, path_target) = (match_info, None)
if isinstance(path_source, str):
if not os.path.exists(path_source):
raise PathError('File %s does not exist!' % path_source)
tar.add(path_source,
path_target or os.path.basename(path_source),
recursive=False)
elif path_source is None: # Update activity
activity.update('Generating tarball: %s' % path_target)
else: # File handle
info, handle = path_source.get_tar_info()
if path_target:
info.name = path_target
info.mtime = time.time()
info.mode = stat.S_IRUSR + stat.S_IWUSR + stat.S_IRGRP + stat.S_IROTH
if info.name.endswith('.sh') or info.name.endswith('.py'):
info.mode += stat.S_IXUSR + stat.S_IXGRP + stat.S_IXOTH
tar.addfile(info, handle)
handle.close()
activity.finish()
tar.close()
def hash_verify(opts, status_mon, local_se_path, jobnum, fi_idx, fi):
if not opts.verify_md5:
return status_mon.register_file_result(jobnum, fi_idx, 'Download successful',
FileDownloadStatus.FILE_OK)
# Verify => compute md5hash
remote_hash = fi[FileInfo.Hash]
activity = Activity('Verifying checksum')
try:
local_hash = ignore_exception(Exception, None, hash_calc, local_se_path.replace('file://', ''))
if local_hash is None:
return status_mon.register_file_result(jobnum, fi_idx, 'Unable to calculate checksum',
FileDownloadStatus.FILE_HASH_FAILED)
finally:
activity.finish()
hash_match = fi[FileInfo.Hash] == local_hash
match_map = {True: 'MATCH', False: 'FAIL'}
if ANSI is not None:
match_map = {True: ANSI.reset + ANSI.color_green + 'MATCH' + ANSI.reset,
False: ANSI.reset + ANSI.color_red + 'FAIL' + ANSI.reset}
msg = '\tLocal hash: %s\n' % local_hash + \
log_intro(jobnum, fi_idx) + '\tRemote hash: %s\n' % remote_hash + \
log_intro(jobnum, fi_idx) + 'Checksum comparison: ' + match_map[hash_match]
if hash_match:
return status_mon.register_file_result(jobnum, fi_idx, msg, FileDownloadStatus.FILE_OK)
return status_mon.register_file_result(jobnum, fi_idx, msg, FileDownloadStatus.FILE_HASH_FAILED)
def __init__(self, lockfile):
self._lockfile = lockfile
activity = Activity('Trying to aquire lock file %s ...' % lockfile)
while os.path.exists(self._lockfile):
time.sleep(0.2)
activity.finish()
self._fd = open(self._lockfile, 'w')
fcntl.flock(self._fd, fcntl.LOCK_EX)
def execute(self, wms_id_list, wms_name): # yields list of (wms_id,)
marked_wms_id_list = lmap(lambda result: result[0],
self._cancel_executor.execute(wms_id_list, wms_name))
time.sleep(5)
activity = Activity('Purging jobs')
for result in self._purge_executor.execute(marked_wms_id_list, wms_name):
yield result
activity.finish()
def __init__(self, lockfile):
self._lockfile = lockfile
activity = Activity('Trying to aquire lock file %s ...' % lockfile)
while os.path.exists(self._lockfile):
time.sleep(0.2)
activity.finish()
self._fd = open(self._lockfile, 'w')
fcntl.flock(self._fd, fcntl.LOCK_EX)
def _getJobsOutput(self, ids):
if len(ids) == 0:
raise StopIteration
basePath = os.path.join(self._outputPath, 'tmp')
try:
if len(ids) == 1:
# For single jobs create single subdir
tmpPath = os.path.join(basePath, md5(ids[0][0]).hexdigest())
else:
tmpPath = basePath
utils.ensureDirExists(tmpPath)
except Exception:
raise BackendError('Temporary path "%s" could not be created.' % tmpPath, BackendError)
jobNumMap = dict(ids)
jobs = self.writeWMSIds(ids)
activity = Activity('retrieving %d job outputs' % len(ids))
proc = LocalProcess(self._outputExec, '--noint', '--logfile', '/dev/stderr', '-i', jobs, '--dir', tmpPath)
# yield output dirs
todo = jobNumMap.values()
currentJobNum = None
for line in imap(str.strip, proc.stdout.iter(timeout = 60)):
if line.startswith(tmpPath):
todo.remove(currentJobNum)
outputDir = line.strip()
if os.path.exists(outputDir):
if 'GC_WC.tar.gz' in os.listdir(outputDir):
wildcardTar = os.path.join(outputDir, 'GC_WC.tar.gz')
try:
tarfile.TarFile.open(wildcardTar, 'r:gz').extractall(outputDir)
os.unlink(wildcardTar)
except Exception:
self._log.error('Can\'t unpack output files contained in %s', wildcardTar)
yield (currentJobNum, line.strip())
currentJobNum = None
else:
currentJobNum = jobNumMap.get(self._createId(line), currentJobNum)
retCode = proc.status(timeout = 0, terminate = True)
activity.finish()
if retCode != 0:
if 'Keyboard interrupt raised by user' in proc.stderr.read(timeout = 0):
utils.removeFiles([jobs, basePath])
raise StopIteration
else:
self._log.log_process(proc, files = {'jobs': SafeFile(jobs).read()})
self._log.error('Trying to recover from error ...')
for dirName in os.listdir(basePath):
yield (None, os.path.join(basePath, dirName))
# return unretrievable jobs
for jobNum in todo:
yield (jobNum, None)
utils.removeFiles([jobs, basePath])
def _delete(file_se_path, where, what):
if se_exists(file_se_path).status(timeout=10, terminate=True) == 0:
activity = Activity('Deleting file %s from %s' % (fi[FileInfo.NameDest], where))
rm_proc = se_rm(file_se_path)
if rm_proc.status(timeout=60, terminate=True) == 0:
log.info(log_intro(jobnum, fi_idx) + 'Deleted file %s', file_se_path)
else:
log.log_process(rm_proc, msg=log_intro(jobnum, fi_idx) + 'Unable to remove %s' % what)
activity.finish()
def _get_phedex_replica_list(self, block_path, replicas_dict):
activity_fi = Activity('Getting file replica information from PhEDex')
# Get dataset se list from PhEDex (perhaps concurrent with get_dbs_file_list)
replicas_dict[block_path] = []
for phedex_block in self._pjrc.get(params={'block': block_path})['phedex']['block']:
for replica in phedex_block['replica']:
replica_info = (replica['node'], replica.get('se'), replica['complete'] == 'y')
replicas_dict[block_path].append(replica_info)
activity_fi.finish()
def get_dataset_name_list(self):
if self._cache_dataset is None:
self._cache_dataset = [self._dataset_path]
if '*' in self._dataset_path:
activity = Activity('Getting dataset list for %s' % self._dataset_path)
self._cache_dataset = list(self._get_cms_dataset_list(self._dataset_path))
if not self._cache_dataset:
raise DatasetError('No datasets selected by DBS wildcard %s !' % self._dataset_path)
activity.finish()
return self._cache_dataset
def wait(timeout):
activity = Activity('Waiting', parent='root')
for remaining in irange(timeout, 0, -1):
if abort():
return False
if (remaining == timeout) or (remaining < 5) or (remaining % 5 == 0):
activity.update('Waiting for %d seconds' % remaining)
time.sleep(1)
activity.finish()
return True
def getEntries(self, path, metadata, events, seList, objStore):
metadata['GC_SOURCE_DIR'] = self._path
counter = 0
activity = Activity('Reading source directory')
for fn in self._iter_path():
activity.update('Reading source directory - [%d]' % counter)
yield (os.path.join(self._path, fn.strip()), metadata, events,
seList, objStore)
counter += 1
activity.finish()
def wait(timeout):
activity = Activity('Waiting', parent='root')
for remaining in irange(timeout, 0, -1):
if abort():
return False
if (remaining == timeout) or (remaining < 5) or (remaining % 5 == 0):
activity.update('Waiting for %d seconds' % remaining)
time.sleep(1)
activity.finish()
return True
def __init__(self, block_list_old, block_list_new):
activity = Activity('Performing resynchronization of dataset')
block_resync_tuple = DataProvider.resync_blocks(
block_list_old, block_list_new)
(self.block_list_added, self._block_list_missing,
self._block_list_matching) = block_resync_tuple
for block_missing in self._block_list_missing: # Files in matching blocks are already sorted
sort_inplace(block_missing[DataProvider.FileList],
key=itemgetter(DataProvider.URL))
activity.finish()
def __init__(self, config, source):
self._psrc_raw = source
BasicParameterAdapter.__init__(self, config, source)
self._map_jobnum2pnum = {}
ensure_dir_exists(config.get_work_path(), 'parameter storage directory', ParameterError)
self._path_jobnum2pnum = config.get_work_path('params.map.gz')
self._path_params = config.get_work_path('params.dat.gz')
# Find out if init should be performed - overrides resync_requested!
init_requested = config.get_state('init', detail='parameters')
init_needed = False
if not (os.path.exists(self._path_params) and os.path.exists(self._path_jobnum2pnum)):
init_needed = True # Init needed if no parameter log exists
if init_requested and not init_needed and (source.get_parameter_len() is not None):
self._log.warning('Re-Initialization will overwrite the current mapping ' +
'between jobs and parameter/dataset content! This can lead to invalid results!')
user_msg = ('Do you want to perform a syncronization between ' +
'the current mapping and the new one to avoid this?')
if UserInputInterface().prompt_bool(user_msg, True):
init_requested = False
do_init = init_requested or init_needed
# Find out if resync should be performed
resync_by_user = config.get_state('resync', detail='parameters')
config.set_state(False, 'resync', detail='parameters')
psrc_hash = self._psrc_raw.get_psrc_hash()
self._psrc_hash_stored = config.get('parameter hash', psrc_hash, persistent=True)
psrc_hash_changed = self._psrc_hash_stored != psrc_hash # Resync if parameters have changed
resync_by_psrc = self._psrc_raw.get_resync_request()
if do_init: # Write current state
self._write_jobnum2pnum(self._path_jobnum2pnum)
ParameterSource.get_class('GCDumpParameterSource').write(self._path_params,
self.get_job_len(), self.get_job_metadata(), self.iter_jobs())
elif resync_by_user or resync_by_psrc or psrc_hash_changed: # Perform sync
if psrc_hash_changed:
self._log.info('Parameter hash has changed')
self._log.debug('\told hash: %s', self._psrc_hash_stored)
self._log.debug('\tnew hash: %s', psrc_hash)
self._log.log(logging.DEBUG1, '\tnew src: %s', self._psrc_raw)
config.set_state(True, 'init', detail='config')
elif resync_by_psrc:
self._log.info('Parameter source requested resync')
self._log.debug('\t%r', str.join(', ', imap(repr, resync_by_psrc)))
elif resync_by_user:
self._log.info('User requested resync')
self._psrc_hash_stored = None
self._resync_state = self.resync(force=True)
else: # Reuse old mapping
activity = Activity('Loading cached parameter information')
self._read_jobnum2pnum()
activity.finish()
return # do not set parameter hash in config
config.set('parameter hash', self._psrc_raw.get_psrc_hash())
def execute(self, wms_id_list, wms_name): # yields list of purged (wms_id,)
activity = Activity('waiting for jobs to finish')
time.sleep(5)
for wms_id in wms_id_list:
path = self._sandbox_helper.get_sandbox('WMSID.%s.%s' % (wms_name, wms_id))
if path is None:
self._log.warning('Sandbox for job %r could not be found', wms_id)
continue
with_lock(LocalPurgeJobs.purge_lock, _purge_directory, self._log, path, wms_id)
yield (wms_id,)
activity.finish()
def _get_phedex_replica_list(self, block_path, replicas_dict):
activity_fi = Activity('Getting file replica information from PhEDex')
# Get dataset se list from PhEDex (perhaps concurrent with get_dbs_file_list)
replicas_dict[block_path] = []
for phedex_block in self._pjrc.get(
params={'block': block_path})['phedex']['block']:
for replica in phedex_block['replica']:
replica_info = (replica['node'], replica.get('se'),
replica['complete'] == 'y')
replicas_dict[block_path].append(replica_info)
activity_fi.finish()
def _get_jobs_output(self, gc_id_jobnum_list):
# Get output of jobs and yield output dirs
if len(gc_id_jobnum_list) == 0:
raise StopIteration
root_dn = os.path.join(self._path_output, 'tmp')
try:
if len(gc_id_jobnum_list) == 1:
# For single jobs create single subdir
tmp_dn = os.path.join(root_dn, md5_hex(gc_id_jobnum_list[0][0]))
else:
tmp_dn = root_dn
ensure_dir_exists(tmp_dn)
except Exception:
raise BackendError('Temporary path "%s" could not be created.' % tmp_dn, BackendError)
map_gc_id2jobnum = dict(gc_id_jobnum_list)
jobs = self._write_wms_id_list(gc_id_jobnum_list)
activity = Activity('retrieving %d job outputs' % len(gc_id_jobnum_list))
proc = LocalProcess(self._output_exec, '--noint',
'--logfile', '/dev/stderr', '-i', jobs, '--dir', tmp_dn)
# yield output dirs
todo = map_gc_id2jobnum.values()
current_jobnum = None
for line in imap(str.strip, proc.stdout.iter(timeout=60)):
if line.startswith(tmp_dn):
todo.remove(current_jobnum)
output_dn = line.strip()
unpack_wildcard_tar(self._log, output_dn)
yield (current_jobnum, output_dn)
current_jobnum = None
else:
current_jobnum = map_gc_id2jobnum.get(self._create_gc_id(line), current_jobnum)
exit_code = proc.status(timeout=0, terminate=True)
activity.finish()
if exit_code != 0:
if 'Keyboard interrupt raised by user' in proc.stderr.read(timeout=0):
remove_files([jobs, root_dn])
raise StopIteration
else:
self._log.log_process(proc, files={'jobs': SafeFile(jobs).read()})
self._log.error('Trying to recover from error ...')
for dn in os.listdir(root_dn):
yield (None, os.path.join(root_dn, dn))
# return unretrievable jobs
for jobnum in todo:
yield (jobnum, None)
remove_files([jobs, tmp_dn])
def _submit_job(self, jobnum, task):
# Submit job and yield (jobnum, WMS ID, other data)
activity = Activity('submitting job %d' % jobnum)
try:
sandbox = tempfile.mkdtemp(
'', '%s.%04d.' % (task.get_description().task_id, jobnum),
self._sandbox_helper.get_path())
except Exception:
raise BackendError('Unable to create sandbox directory "%s"!' %
sandbox)
sb_prefix = sandbox.replace(self._sandbox_helper.get_path(),
'').lstrip('/')
def _translate_target(desc, src, target):
return (desc, src, os.path.join(sb_prefix, target))
self._sm_sb_in.do_transfer(
ismap(_translate_target, self._get_in_transfer_info_list(task)))
self._write_job_config(
os.path.join(sandbox, '_jobconfig.sh'), jobnum, task, {
'GC_SANDBOX': sandbox,
'GC_SCRATCH_SEARCH': str.join(' ', self._scratch_path)
})
reqs = self._broker_site.broker(task.get_requirement_list(jobnum),
WMS.SITES)
reqs = dict(self._broker_queue.broker(reqs, WMS.QUEUES))
if (self._memory > 0) and (reqs.get(WMS.MEMORY, 0) < self._memory):
reqs[
WMS.
MEMORY] = self._memory # local jobs need higher (more realistic) memory requirements
job_name = task.get_description(jobnum).job_name
proc = self._get_submit_proc(jobnum, sandbox, job_name, reqs)
exit_code = proc.status(timeout=20, terminate=True)
wms_id_str = proc.stdout.read(timeout=0).strip().strip('\n')
wms_id = ignore_exception(Exception, None, self.parse_submit_output,
wms_id_str)
activity.finish()
if exit_code != 0:
self._log.warning('%s failed:', self._submit_exec)
elif wms_id is None:
self._log.warning('%s did not yield job id:\n%s',
self._submit_exec, wms_id_str)
gc_id = self._create_gc_id(wms_id)
if gc_id is not None:
open(os.path.join(sandbox, gc_id), 'w')
else:
self._log.log_process(proc)
return (jobnum, gc_id, {'sandbox': sandbox})
def _readJobs(self, jobLimit):
jobMap = {}
maxJobs = 0
if os.path.exists(self._dbFile):
try:
tar = zipfile.ZipFile(self._dbFile, 'r', zipfile.ZIP_DEFLATED)
except Exception: # Try to recover job archive
self._log.warning(
'=' * 40 +
'\nStarting recovery of broken job database => Answer "y" if asked "Is this a single-disk archive?"!\n'
+ '=' * 40)
os.system('zip -FF %s --out %s.tmp 2> /dev/null' %
(self._dbFile, self._dbFile))
os.rename(self._dbFile, self._dbFile + '.broken')
os.rename(self._dbFile + '.tmp', self._dbFile)
tar = zipfile.ZipFile(self._dbFile, 'r', zipfile.ZIP_DEFLATED)
removeFiles([self._dbFile + '.broken'])
brokenList = []
for idx, fnTarInfo in enumerate(tar.namelist()):
(jobNum, tid) = tuple(
imap(lambda s: int(s[1:]), fnTarInfo.split('_', 1)))
try:
fp = tar.open(fnTarInfo)
try:
fp.read()
finally:
fp.close()
except Exception:
clear_current_exception()
for broken in brokenList:
os.system('zip %s -d %s' % (self._dbFile, broken))
self._log.info('Recover completed!')
activity = Activity('Reading job transactions')
maxJobs = len(tar.namelist())
tMap = {}
for idx, fnTarInfo in enumerate(tar.namelist()):
(jobNum, tid) = tuple(
imap(lambda s: int(s[1:]), fnTarInfo.split('_', 1)))
if tid < tMap.get(jobNum, 0):
continue
try:
data = self._fmt.parse(tar.open(fnTarInfo).read())
except Exception:
continue
jobMap[jobNum] = self._create_job_obj(fnTarInfo, data)
tMap[jobNum] = tid
if idx % 100 == 0:
activity.update('Reading job transactions %d [%d%%]' %
(idx, (100.0 * idx) / maxJobs))
activity.finish()
self._serial = maxJobs
return jobMap
def getEntries(self, path, metadata, events, seList, objStore):
activity = Activity('Reading job logs')
for jobNum in self._selected:
activity.update('Reading job logs - [%d / %d]' %
(jobNum, self._selected[-1]))
metadata['GC_JOBNUM'] = jobNum
objStore.update({
'GC_TASK': self._extTask,
'GC_WORKDIR': self._extWorkDir
})
yield (os.path.join(self._extWorkDir, 'output', 'job_%d' % jobNum),
metadata, events, seList, objStore)
activity.finish()
def execute(self, wmsIDs, wmsName): # yields list of purged (wmsID,)
activity = Activity('waiting for jobs to finish')
time.sleep(5)
for wmsID in wmsIDs:
path = self._sandbox_helper.get_sandbox('WMSID.%s.%s' % (wmsName, wmsID))
if path is None:
self._log.warning('Sandbox for job %r could not be found', wmsID)
continue
try:
shutil.rmtree(path)
except Exception:
raise BackendError('Sandbox for job %r could not be deleted', wmsID)
yield (wmsID,)
activity.finish()
def _run_executor(self, desc, executor, fmt, gc_id_list, *args):
# Perform some action with the executor, translate wms_id -> gc_id and format the result
activity = Activity(desc)
map_wms_id2gc_id = self._get_map_wms_id2gc_id(gc_id_list)
wms_id_list = sorted(map_wms_id2gc_id.keys())
for result in executor.execute(wms_id_list, *args):
wms_id = result[0] # result[0] is the wms_id by convention
gc_id = map_wms_id2gc_id.pop(wms_id, None)
if gc_id is not None:
yield fmt((gc_id, ) + result[1:])
else:
self._log.debug('unable to find gc_id for wms_id %r', wms_id)
activity.finish()
def _run_executor(self, desc, executor, fmt, gc_id_list, *args):
# Perform some action with the executor, translate wms_id -> gc_id and format the result
activity = Activity(desc)
map_wms_id2gc_id = self._get_map_wms_id2gc_id(gc_id_list)
wms_id_list = sorted(map_wms_id2gc_id.keys())
for result in executor.execute(wms_id_list, *args):
wms_id = result[0] # result[0] is the wms_id by convention
gc_id = map_wms_id2gc_id.pop(wms_id, None)
if gc_id is not None:
yield fmt((gc_id,) + result[1:])
else:
self._log.debug('unable to find gc_id for wms_id %r', wms_id)
activity.finish()
def get_dataset_name_list(self):
if self._cache_dataset is None:
self._cache_dataset = [self._dataset_path]
if '*' in self._dataset_path:
activity = Activity('Getting dataset list for %s' %
self._dataset_path)
self._cache_dataset = list(
self._get_cms_dataset_list(self._dataset_path))
if not self._cache_dataset:
raise DatasetError(
'No datasets selected by DBS wildcard %s !' %
self._dataset_path)
activity.finish()
return self._cache_dataset
def _run_executor(self, desc, executor, fmt, gcIDs, *args):
# Perform some action with the executor, translate wmsID -> gcID and format the result
activity = Activity(desc)
wmsID_gcID_Map = self._get_map_wmsID_gcID(gcIDs)
wmsIDs = sorted(wmsID_gcID_Map.keys())
for result in executor.execute(wmsIDs, *args):
wmsID = result[0] # result[0] is the wmsID by convention
gcID = wmsID_gcID_Map.pop(wmsID, None)
if gcID is not None:
yield fmt((gcID,) + result[1:])
else:
self._log.debug('unable to find gcID for wmsID %r', wmsID)
activity.finish()
def __init__(self, config, jobLimit = -1, jobSelector = None):
dbPath = config.getWorkPath('jobs')
self._dbFile = config.getWorkPath('jobs.zip')
if os.path.exists(dbPath) and os.path.isdir(dbPath) and not os.path.exists(self._dbFile):
activity = Activity('Converting job database')
self._serial = 0
try:
oldDB = TextFileJobDB(config)
for jobNum in oldDB.getJobs():
self.commit(jobNum, oldDB.get(jobNum))
except Exception:
removeFiles([self._dbFile])
raise
activity.finish()
ZippedJobDB.__init__(self, config, jobLimit, jobSelector)
def resync(self, force = False): # Do not overwrite resync results - eg. from external or init trigger
source_hash = self._source.getHash()
if (self._resync_state == ParameterSource.EmptyResyncResult()) and ((source_hash != self._source_hash) or force):
activity = Activity('Syncronizing parameter information')
t_start = time.time()
try:
self._resync_state = self._resync()
except Exception:
raise ParameterError('Unable to resync parameters!')
self._source_hash = self._source.getHash()
activity.finish()
self._log.log(logging.INFO, 'Finished resync of parameter source (%s)', strTimeShort(time.time() - t_start))
result = self._resync_state
self._resync_state = ParameterSource.EmptyResyncResult()
return result
def cancel_jobs(self, gc_id_jobnum_list):
if not len(gc_id_jobnum_list):
raise StopIteration
activity = Activity('Canceling jobs')
assert not bool(lfilter( lambda htcid: htcid.scheddURI != self._schedd.getURI(), self._splitGcRequests(gc_id_jobnum_list))), 'Bug! Got jobs at Schedds %s, but servicing only Schedd %s' % (lfilter( lambda itr: itr.scheddURI != self._schedd.getURI(), self._splitGcRequests(gc_id_jobnum_list)), self._schedd.getURI())
canceledJobs = self._schedd.cancel_jobs(
self._splitGcRequests(gc_id_jobnum_list)
)
# Yield ( jobnum, wms_id) for canceled jobs
for htcJobID in canceledJobs:
yield (
htcJobID.gcJobNum,
self._createGcId(htcJobID)
)
activity.finish()
def _get_jobs_output(self, gc_id_jobnum_list):
if not len(gc_id_jobnum_list):
raise StopIteration
activity = Activity('Fetching jobs')
assert not bool(lfilter( lambda htcid: htcid.scheddURI != self._schedd.getURI(), self._splitGcRequests(gc_id_jobnum_list))), 'Bug! Got jobs at Schedds %s, but servicing only Schedd %s' % (lfilter( lambda itr: itr.scheddURI != self._schedd.getURI(), self._splitGcRequests(gc_id_jobnum_list)), self._schedd.getURI())
returnedJobs = self._schedd.getJobsOutput(
self._splitGcRequests(gc_id_jobnum_list)
)
# Yield (jobnum, path_output) per retrieved job
for htcID in returnedJobs:
yield (
htcID.gcJobNum,
self.getSandboxPath(htcID.gcJobNum)
)
activity.finish()
def doTransfer(self, listDescSourceTarget):
for (desc, source, target) in listDescSourceTarget:
if not self.smPaths:
raise ConfigError("%s can't be transferred because '%s path wasn't set" % (desc, self.smOptPrefix))
for idx, sePath in enumerate(set(self.smPaths)):
activity = Activity('Copy %s to SE %d ' % (desc, idx + 1))
proc = se_copy(source, os.path.join(sePath, target), self.smForce)
proc.status(timeout = 5*60, terminate = True)
activity.finish()
if proc.status(timeout = 0) == 0:
self._log.info('Copy %s to SE %d finished', desc, idx + 1)
else:
self._log.info('Copy %s to SE %d failed', desc, idx + 1)
self._log.critical(proc.stderr.read(timeout = 0))
self._log.critical('Unable to copy %s! You can try to copy it manually.', desc)
if not utils.getUserBool('Is %s (%s) available on SE %s?' % (desc, source, sePath), False):
raise StorageError('%s is missing on SE %s!' % (desc, sePath))
