| Name | dFoKDmZssIvnShfckohDCDFpABFKDmABFKDmQoaKDmABFKDmy36Hun_0 |
| Workunit | 1918186 |
| Created | 16 Aug 2019, 15:00:01 UTC |
| Sent | 16 Aug 2019, 15:18:00 UTC |
| Report deadline | 23 Aug 2019, 15:18:00 UTC |
| Received | 16 Aug 2019, 21:44:47 UTC |
| Server state | Over |
| Outcome | Validate error |
| Client state | Done |
| Exit status | 0 (0x00000000) |
| Computer ID | 4008 |
| Run time | 3 min 39 sec |
| CPU time | 1 min 45 sec |
| Validate state | Invalid |
| Credit | 0.00 |
| Device peak FLOPS | 6.13 GFLOPS |
| Application version | ATLAS Simulation v0.72 (native_mt) x86_64-pc-linux-gnu |
| Peak working set size | 211.37 MB |
| Peak swap size | 4.96 GB |
| Peak disk usage | 217.68 MB |
Stderr output
<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
23:41:00 (13396): wrapper (7.7.26015): starting
23:41:00 (13396): wrapper: running run_atlas (--nthreads 3)
2019-08-16 23:41:00,545: singularity image is /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6
2019-08-16 23:41:00,546: sys.argv = ['run_atlas', '--nthreads', '3']
2019-08-16 23:41:00,560: THREADS=3
2019-08-16 23:41:00,564: Checking for CVMFS
2019-08-16 23:41:07,807: CVMFS is installed
2019-08-16 23:41:07,812: OS:CentOS Linux release 7.4.1708 (Core)
2019-08-16 23:41:07,812: This is not SLC6, need to run with Singularity....
2019-08-16 23:41:07,812: Checking Singularity...
2019-08-16 23:41:07,833: Singularity is installed, version 2.6.1-dist
2019-08-16 23:41:07,833: Testing the function of Singularity...
2019-08-16 23:41:07,833: Checking singularity with cmd:singularity exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6 hostname
2019-08-16 23:41:07,996: Singularity Works...
2019-08-16 23:41:07,996: copy /root/slots/0/shared/ATLAS.root_0
2019-08-16 23:41:08,421: copy /root/slots/0/shared/input.tar.gz
2019-08-16 23:41:08,422: copy /root/slots/0/shared/RTE.tar.gz
2019-08-16 23:41:08,423: copy /root/slots/0/shared/start_atlas.sh
2019-08-16 23:41:08,425: export ATHENA_PROC_NUMBER=3;
2019-08-16 23:41:08,472: start atlas job with PandaID=4448356729
2019-08-16 23:41:08,472: cmd = singularity exec --pwd /root/slots/0 -B /cvmfs,/root /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6 sh start_atlas.sh > runtime_log 2> runtime_log.err
2019-08-16 23:44:36,674: running cmd return value is 0
2019-08-16 23:44:36,676: *****************The last 100 lines of the pilot log******************
2019-08-16 23:44:36,685: 2019-08-16 21:44:02,335 | INFO | retrieve | pilot.util.auxiliary | make_job_report | event service: False
2019-08-16 21:44:02,335 | INFO | retrieve | pilot.util.auxiliary | make_job_report | --------------------------------------------------
2019-08-16 21:44:02,335 | INFO | retrieve | pilot.util.auxiliary | make_job_report |
2019-08-16 21:44:02,335 | INFO | retrieve | pilot.control.job | has_job_completed | job 4448356729 has completed
2019-08-16 21:44:02,336 | INFO | retrieve | pilot.util.processes | cleanup | overall cleanup function is called
2019-08-16 21:44:02,336 | DEBUG | retrieve | pilot.util.processes | cleanup | work directory was removed: /root/slots/0/PanDA_Pilot-4448356729
2019-08-16 21:44:03,343 | INFO | retrieve | pilot.info.jobdata | collect_zombies | --- collectZombieJob: --- 10, [None]
2019-08-16 21:44:03,343 | INFO | retrieve | pilot.info.jobdata | collect_zombies | zombie collector trying to kill pid None
File "/root/slots/0/pilot2/pilot/common/exception.py", line 413, in run
self._Thread__target(**self._Thread__kwargs)
File "/root/slots/0/pilot2/pilot/control/job.py", line 1351, in retrieve
if has_job_completed(queues):
File "/root/slots/0/pilot2/pilot/control/job.py", line 1431, in has_job_completed
cleanup(job)
File "/root/slots/0/pilot2/pilot/util/processes.py", line 565, in cleanup
job.collect_zombies(tn=10)
File "/root/slots/0/pilot2/pilot/info/jobdata.py", line 776, in collect_zombies
_id, rc = os.waitpid(x, os.WNOHANG)
exception caught by thread run() function: (<type 'exceptions.TypeError'>, TypeError('an integer is required',), <traceback object at 0x13ce0e0>)
Traceback (most recent call last):
File "/root/slots/0/pilot2/pilot/common/exception.py", line 413, in run
self._Thread__target(**self._Thread__kwargs)
File "/root/slots/0/pilot2/pilot/control/job.py", line 1351, in retrieve
if has_job_completed(queues):
File "/root/slots/0/pilot2/pilot/control/job.py", line 1431, in has_job_completed
cleanup(job)
File "/root/slots/0/pilot2/pilot/util/processes.py", line 565, in cleanup
job.collect_zombies(tn=10)
File "/root/slots/0/pilot2/pilot/info/jobdata.py", line 776, in collect_zombies
_id, rc = os.waitpid(x, os.WNOHANG)
TypeError: an integer is required
None
exception has been put in bucket queue belonging to thread 'retrieve'
setting graceful stop in 10 s since there is no point in continuing
2019-08-16 21:44:03,903 | WARNING | job | pilot.control.job | control | thread 'retrieve' received an exception from bucket: an integer is required
2019-08-16 21:44:13,373 | WARNING | queue_monitoring | pilot.util.common | should_abort | data:queue_monitoring:received graceful stop - abort after this iteration
2019-08-16 21:44:13,387 | WARNING | queue_monitor | pilot.util.common | should_abort | job:queue_monitor:received graceful stop - abort after this iteration
2019-08-16 21:44:13,387 | WARNING | queue_monitor | pilot.control.job | pause_queue_monitor | since job:queue_monitor is responsible for sending job updates, we sleep for 20 s
2019-08-16 21:44:13,391 | WARNING | copytool_out | pilot.util.common | should_abort | data:copytool_out:received graceful stop - abort after this iteration
2019-08-16 21:44:13,771 | DEBUG | data | pilot.control.data | control | data control ending since graceful_stop has been set
2019-08-16 21:44:13,771 | DEBUG | data | pilot.control.data | control | [data] control thread has finished
2019-08-16 21:44:13,797 | DEBUG | payload | pilot.control.payload | control | payload control ending since graceful_stop has been set
2019-08-16 21:44:13,797 | DEBUG | payload | pilot.control.payload | control | [payload] control thread has finished
2019-08-16 21:44:13,811 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 14 threads
2019-08-16 21:44:13,814 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(job, started 140426825897728)>, <ExcThread(failed_post, started 140425893504768)>, <ExcThread(execute_payloads, started 140425885112064)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(validate_pre, started 140426421982976)>, <ExcThread(copytool_out, started 140426800719616)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(validate, started 140426817505024)>, <ExcThread(copytool_in, started 140426413590272)>, <ExcThread(validate_post, started 140425901897472)>, <ExcThread(queue_monitor, started 140426388412160)>, <ExcThread(monitor, started 140426405197568)>, <ExcThread(create_data_payload, started 140426792326912)>]
2019-08-16 21:44:13,878 | INFO | failed_post | pilot.control.payload | failed_post | [payload] failed_post thread has finished
2019-08-16 21:44:14,118 | INFO | monitor | pilot.control.monitor | control | [monitor] control thread has ended
2019-08-16 21:44:14,121 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 12 threads
2019-08-16 21:44:14,122 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(job, started 140426825897728)>, <ExcThread(execute_payloads, started 140425885112064)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(validate_pre, started 140426421982976)>, <ExcThread(copytool_out, started 140426800719616)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(validate, started 140426817505024)>, <ExcThread(copytool_in, started 140426413590272)>, <ExcThread(validate_post, started 140425901897472)>, <ExcThread(queue_monitor, started 140426388412160)>, <ExcThread(create_data_payload, started 140426792326912)>]
2019-08-16 21:44:14,218 | DEBUG | create_data_payload | pilot.control.job | create_data_payload | [job] create_data_payload thread has finished
2019-08-16 21:44:14,305 | DEBUG | job | pilot.control.job | control | job control ending since graceful_stop has been set
2019-08-16 21:44:14,305 | DEBUG | job | pilot.control.job | control | [job] control thread has finished
2019-08-16 21:44:14,337 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 10 threads
2019-08-16 21:44:14,337 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(execute_payloads, started 140425885112064)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(validate_pre, started 140426421982976)>, <ExcThread(copytool_out, started 140426800719616)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(validate, started 140426817505024)>, <ExcThread(copytool_in, started 140426413590272)>, <ExcThread(validate_post, started 140425901897472)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:14,375 | INFO | validate_pre | pilot.control.payload | validate_pre | [payload] validate_pre thread has finished
2019-08-16 21:44:14,393 | DEBUG | copytool_out | pilot.control.data | copytool_out | [data] copytool_out thread has finished
2019-08-16 21:44:14,439 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 8 threads
2019-08-16 21:44:14,439 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(execute_payloads, started 140425885112064)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(validate, started 140426817505024)>, <ExcThread(copytool_in, started 140426413590272)>, <ExcThread(validate_post, started 140425901897472)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:14,455 | INFO | validate_post | pilot.control.payload | validate_post | [payload] validate_post thread has finished
2019-08-16 21:44:14,543 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 7 threads
2019-08-16 21:44:14,543 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(execute_payloads, started 140425885112064)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(validate, started 140426817505024)>, <ExcThread(copytool_in, started 140426413590272)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:14,766 | DEBUG | copytool_in | pilot.control.data | copytool_in | [data] copytool_in thread has finished
2019-08-16 21:44:14,771 | DEBUG | validate | pilot.control.job | validate | [job] validate thread has finished
2019-08-16 21:44:14,847 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 5 threads
2019-08-16 21:44:14,848 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(execute_payloads, started 140425885112064)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:14,880 | INFO | execute_payloads | pilot.control.payload | execute_payloads | [payload] execute_payloads thread has finished
2019-08-16 21:44:14,950 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 4 threads
2019-08-16 21:44:14,951 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(queue_monitoring, started 140426430375680)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:16,390 | DEBUG | queue_monitoring | pilot.control.data | queue_monitoring | [data] queue_monitor thread has finished
2019-08-16 21:44:16,408 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 3 threads
2019-08-16 21:44:16,409 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(job_monitor, started 140426396804864)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:19,467 | WARNING | job_monitor | pilot.control.job | check_job_monitor_waiting_time | no jobs in monitored_payloads queue (waited for 112 s)
2019-08-16 21:44:19,469 | DEBUG | job_monitor | pilot.control.job | job_monitor | [job] job monitor thread has finished
2019-08-16 21:44:19,502 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 2 threads
2019-08-16 21:44:19,502 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140427042170624)>, <ExcThread(queue_monitor, started 140426388412160)>]
2019-08-16 21:44:35,435 | DEBUG | queue_monitor | pilot.control.job | queue_monitor | [job] queue monitor thread has finished
2019-08-16 21:44:35,489 | INFO | MainThread | pilot.workflow.generic | run | end of generic workflow (traces error code: 1186)
2019-08-16 21:44:35,490 | INFO | MainThread | root | wrap_up | traces error code: 1186
2019-08-16 21:44:35,490 | INFO | MainThread | root | wrap_up | an exit code was already set: 1186 (will be converted to a standard shell code)
2019-08-16 21:44:35,491 | INFO | MainThread | root | wrap_up | pilot has finished
2019-08-16 21:44:35 UTC [wrapper] ==== pilot stdout END ====
2019-08-16 21:44:35 UTC [wrapper] ==== wrapper stdout RESUME ====
2019-08-16 21:44:35 UTC [wrapper] Pilot exit status: 73
2019-08-16 21:44:35 UTC [wrapper] STATUSCODE: 73
2019-08-16 21:44:35 UTC [wrapper] apfmon messages muted
---- find pandaID.out ----
insgesamt 44
-rw-rw-r--. 1 320 320 11357 25. Jul 16:38 LICENSE
drwxrwxr-x. 14 320 320 216 16. Aug 23:42 pilot
-rwxrwxr-x. 1 320 320 20463 25. Jul 16:38 pilot.py
-rw-r--r--. 1 320 320 8 7. Aug 13:02 PILOTVERSION
-rw-rw-r--. 1 320 320 2251 25. Jul 16:38 README.md
-rw-rw-r--. 1 320 320 221 25. Jul 16:38 TODO.md
2019-08-16 21:44:36 UTC [wrapper] Test setup, not cleaning
2019-08-16 21:44:36 UTC [wrapper] ==== wrapper stdout END ====
2019-08-16 21:44:36 UTC [wrapper] ==== wrapper stderr END ====
2019-08-16 21:44:36 UTC [wrapper] wrapper wrapperexiting ec=0, duration=207
2019-08-16 21:44:36 UTC [wrapper] apfmon messages muted
2019-08-16 23:44:36,702: ***************diag file************
2019-08-16 23:44:36,703: runtimeenvironments=APPS/HEP/ATLAS-SITE;
Processors=1
WallTime=207.39s
KernelTime=19.67s
UserTime=105.00s
CPUUsage=60%
MaxResidentMemory=216492kB
AverageResidentMemory=0kB
AverageTotalMemory=0kB
AverageUnsharedMemory=0kB
AverageUnsharedStack=0kB
AverageSharedMemory=0kB
PageSize=4096B
MajorPageFaults=30338
MinorPageFaults=1181877
Swaps=0
ForcedSwitches=4017
WaitSwitches=779728
Inputs=7387776
Outputs=28456
SocketReceived=0
SocketSent=0
Signals=0
nodename=maeax@HPi7COS7
exitcode=0
2019-08-16 23:44:36,737: ******************************WorkDir***********************
2019-08-16 23:44:36,737: insgesamt 235040
drwxrwx--x. 6 root root 4096 16. Aug 23:44 .
drwxrwx--x. 7 root root 69 15. Aug 06:27 ..
-rw-------. 1 root root 7411700 16. Aug 23:42 agis_ddmendpoints.json
-rw-------. 1 root root 4399548 16. Aug 23:42 agis_schedconf.cvmfs.json
drwx------. 2 root root 6 16. Aug 23:41 .alrb
drwxr-xr-x. 3 root root 17 16. Aug 23:41 APPS
-rw-------. 1 root root 533 16. Aug 23:41 .asetup
-rw-r--r--. 1 root root 0 16. Aug 23:41 boinc_lockfile
-rw-r--r--. 1 root root 8192 16. Aug 23:44 boinc_mmap_file
-rw-r--r--. 1 root root 531 16. Aug 23:44 boinc_task_state.xml
-rw-------. 1 root root 484 16. Aug 23:44 dFoKDmZssIvnShfckohDCDFpABFKDmABFKDmQoaKDmABFKDmy36Hun.diag
-rw-r--r--. 1 root root 227960782 16. Aug 23:41 EVNT.18605785._000214.pool.root.1
-rw-------. 1 root root 1958 16. Aug 23:44 heartbeat.json
-rw-r--r--. 1 root root 5868 16. Aug 23:41 init_data.xml
-rw-r--r--. 1 root root 261623 16. Aug 23:41 input.tar.gz
-rw-r--r--. 1 root root 112 16. Aug 23:41 job.xml
-rw-------. 1 root root 101337 16. Aug 23:44 log.18722465._011174.job.log.1
-rw-------. 1 root root 7792 16. Aug 23:43 log.18722465._011174.job.log.tgz.1
-rw-------. 1 root root 205 16. Aug 23:44 output.list
-rw-------. 1 4871 1028 2956 16. Aug 16:59 pandaJobData.out
drwxr-xr-x. 3 320 320 174 7. Aug 13:02 pilot2
-rw-r--r--. 1 root root 253018 16. Aug 16:26 pilot2.tar.gz
-rw-------. 1 root root 80391 16. Aug 23:44 pilotlog.txt
-rw-r--r--. 1 root root 4468 16. Aug 16:56 queuedata.json
-rw-r--r--. 1 root root 815 16. Aug 23:41 RTE.tar.gz
-rwxr-xr-x. 1 root root 8466 16. Aug 23:41 run_atlas
-rwx------. 1 4871 1028 12641 16. Aug 16:59 runpilot2-wrapper.sh
-rw-r--r--. 1 root root 692 16. Aug 23:44 runtime_log
-rw-r--r--. 1 root root 6568 16. Aug 23:44 runtime_log.err
drwxrwx--x. 2 root root 107 16. Aug 23:44 shared
-rw-r--r--. 1 root root 8688 16. Aug 23:41 start_atlas.sh
-rw-r--r--. 1 root root 16713 16. Aug 23:44 stderr.txt
-rw-r--r--. 1 root root 107 16. Aug 23:41 wrapper_26015_x86_64-pc-linux-gnu
-rw-r--r--. 1 root root 23 16. Aug 23:44 wrapper_checkpoint.txt
2019-08-16 23:44:36,737: running start_atlas return value is 0
2019-08-16 23:44:36,737: Parent exit 0
2019-08-16 23:44:36,739: child process exit 0
23:44:37 (13396): run_atlas exited; CPU time 105.702629
23:44:37 (13396): called boinc_finish(0)
</stderr_txt>
]]>
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