Name fNNKDmm4UHvnShfckohDCDFpABFKDmABFKDmDVxZDmABFKDmWSTHMm_0
Workunit 1916816
Created 12 Aug 2019, 19:22:44 UTC
Sent 12 Aug 2019, 20:44:21 UTC
Report deadline 19 Aug 2019, 20:44:21 UTC
Received 13 Aug 2019, 8:39:20 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 4132
Run time 1 hours 49 min 58 sec
CPU time 11 hours 21 min 35 sec
Validate state Valid
Credit 432.87
Device peak FLOPS 28.34 GFLOPS
Application version ATLAS Simulation v0.71 (native_mt)
x86_64-pc-linux-gnu
Peak working set size 1.85 GB
Peak swap size 2.55 GB
Peak disk usage 544.22 MB

Stderr output

<core_client_version>7.6.31</core_client_version>
<![CDATA[
<stderr_txt>
00:47:22 (25630): wrapper (7.7.26015): starting
00:47:22 (25630): wrapper: running run_atlas (--nthreads 8)
singularity image is /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6
sys.argv = ['run_atlas', '--nthreads', '8']
THREADS=8
Checking for CVMFS
CVMFS is installed
OS:cat: /etc/redhat-release: No such file or directory

This is not SLC6, need to run with Singularity....
Checking Singularity...
Singularity is installed, version 2.4.2-dist
Testing the function of Singularity...
Checking singularity with cmd:singularity exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6 hostname
Singularity Works...

copy /var/lib/boinc2/slots/6/shared/RTE.tar.gz
copy /var/lib/boinc2/slots/6/shared/ATLAS.root_0
copy /var/lib/boinc2/slots/6/shared/input.tar.gz
copy /var/lib/boinc2/slots/6/shared/start_atlas.sh
export ATHENA_PROC_NUMBER=8;start atlas job with PandaID=4443186309
cmd = singularity exec --pwd /var/lib/boinc2/slots/6 -B /cvmfs,/var /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6 sh start_atlas.sh > runtime_log 2> runtime_log.err
running cmd return value is 0
Moving ./HITS.18722398._023361.pool.root.1 to shared/HITS.pool.root.1
*****************The last 100 lines of the pilot log******************
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | 
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | job summary report
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | --------------------------------------------------
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | PanDA job id: 4443186309
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | task id: 18722398
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | errors: (none)
2019-08-13 08:36:34,867 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | status: LOG_TRANSFER = DONE 
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | pilot state: finished 
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | transexitcode: 0
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | exeerrorcode: 0
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | exeerrordiag: 
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | exitcode: 0
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | exitmsg: OK
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | cpuconsumptiontime: 41319 s
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | nevents: 200
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | neventsw: 0
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | pid: 4497
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | pgrp: 4497
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | corecount: 8
2019-08-13 08:36:34,868 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | event service: False
2019-08-13 08:36:34,869 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | --------------------------------------------------
2019-08-13 08:36:34,869 | INFO     | retrieve            | pilot.util.auxiliary             | make_job_report           | 
2019-08-13 08:36:34,869 | INFO     | retrieve            | pilot.control.job                | has_job_completed         | job 4443186309 has completed
2019-08-13 08:36:34,869 | INFO     | retrieve            | pilot.util.processes             | cleanup                   | overall cleanup function is called
2019-08-13 08:36:34,874 | DEBUG    | retrieve            | pilot.util.processes             | cleanup                   | work directory was removed: /var/lib/boinc2/slots/6/PanDA_Pilot-4443186309
2019-08-13 08:36:35,879 | INFO     | retrieve            | pilot.info.jobdata               | collect_zombies           | --- collectZombieJob: --- 10, [4497]
2019-08-13 08:36:35,879 | INFO     | retrieve            | pilot.info.jobdata               | collect_zombies           | zombie collector trying to kill pid 4497
2019-08-13 08:36:35,879 | INFO     | retrieve            | pilot.info.jobdata               | collect_zombies           | harmless exception when collecting zombies: [Errno 10] No child processes
2019-08-13 08:36:36,881 | INFO     | retrieve            | pilot.util.processes             | cleanup                   | collected zombie processes
2019-08-13 08:36:36,881 | INFO     | retrieve            | pilot.util.processes             | cleanup                   | will now attempt to kill all subprocesses of pid=4497
2019-08-13 08:36:37,019 | INFO     | retrieve            | pilot.util.processes             | kill_processes            | process IDs to be killed: [4497] (in reverse order)
2019-08-13 08:36:37,116 | WARNING  | retrieve            | pilot.util.processes             | kill_processes            | found no corresponding commands to process id(s)
2019-08-13 08:36:37,117 | INFO     | retrieve            | pilot.util.processes             | kill_orphans              | Do not look for orphan processes in BOINC jobs
2019-08-13 08:36:37,117 | INFO     | retrieve            | pilot.control.job                | retrieve                  | ready for new job
2019-08-13 08:36:37,117 | INFO     | retrieve            | root                             | retrieve                  | pilot has finished for previous job - re-establishing logging
No handlers could be found for logger "pilot.util.mpi"
2019-08-13 08:36:37,623 | DEBUG    | retrieve            | pilot.control.job                | retrieve                  | getjob_requests=1
2019-08-13 08:36:47,653 | DEBUG    | retrieve            | pilot.control.job                | proceed_with_getjob       | proceed_with_getjob called with getjob_requests=1
2019-08-13 08:36:47,654 | DEBUG    | retrieve            | pilot.util.monitoring            | check_local_space         | checking local space on /var/lib/boinc2/slots/6
2019-08-13 08:36:47,681 | INFO     | retrieve            | pilot.util.monitoring            | check_local_space         | sufficient remaining disk space (274314821632 B)
2019-08-13 08:36:47,682 | WARNING  | retrieve            | pilot.control.job                | proceed_with_getjob       | since timefloor is set to 0, pilot was only allowed to run one job
2019-08-13 08:36:47,682 | DEBUG    | retrieve            | pilot.control.job                | retrieve                  | [job] retrieve thread has finished
2019-08-13 08:36:47,693 | WARNING  | copytool_out        | pilot.util.common                | should_abort              | data:copytool_out:received graceful stop - abort after this iteration
2019-08-13 08:36:47,698 | DEBUG    | create_data_payload | pilot.control.job                | create_data_payload       | [job] create_data_payload thread has finished
2019-08-13 08:36:47,863 | WARNING  | queue_monitoring    | pilot.util.common                | should_abort              | data:queue_monitoring:received graceful stop - abort after this iteration
2019-08-13 08:36:48,012 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 15 threads
2019-08-13 08:36:48,012 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(job, started 139806557796096)>, <ExcThread(queue_monitor, started 139805413340928)>, <ExcThread(failed_post, started 139805983749888)>, <ExcThread(payload, started 139806524225280)>, <ExcThread(job_monitor, started 139805975357184)>, <ExcThread(copytool_out, started 139806532617984)>, <ExcThread(execute_payloads, started 139805966964480)>, <ExcThread(data, started 139806541010688)>, <ExcThread(copytool_in, started 139806008928000)>, <ExcThread(validate_pre, started 139806017320704)>, <ExcThread(monitor, started 139806499047168)>, <ExcThread(queue_monitoring, started 139806507439872)>, <ExcThread(validate_post, started 139805992142592)>, <ExcThread(validate, started 139806549403392)>]
2019-08-13 08:36:48,151 | INFO     | validate_pre        | pilot.control.payload            | validate_pre              | [payload] validate_pre thread has finished
2019-08-13 08:36:48,295 | INFO     | validate_post       | pilot.control.payload            | validate_post             | [payload] validate_post thread has finished
2019-08-13 08:36:48,410 | INFO     | failed_post         | pilot.control.payload            | failed_post               | [payload] failed_post thread has finished
2019-08-13 08:36:48,415 | INFO     | monitor             | pilot.control.monitor            | control                   | [monitor] control thread has ended
2019-08-13 08:36:48,417 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 11 threads
2019-08-13 08:36:48,417 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(job, started 139806557796096)>, <ExcThread(queue_monitor, started 139805413340928)>, <ExcThread(payload, started 139806524225280)>, <ExcThread(job_monitor, started 139805975357184)>, <ExcThread(copytool_out, started 139806532617984)>, <ExcThread(execute_payloads, started 139805966964480)>, <ExcThread(data, started 139806541010688)>, <ExcThread(copytool_in, started 139806008928000)>, <ExcThread(queue_monitoring, started 139806507439872)>, <ExcThread(validate, started 139806549403392)>]
2019-08-13 08:36:48,535 | DEBUG    | payload             | pilot.control.payload            | control                   | payload control ending since graceful_stop has been set
2019-08-13 08:36:48,535 | DEBUG    | payload             | pilot.control.payload            | control                   | [payload] control thread has finished
2019-08-13 08:36:48,554 | INFO     | execute_payloads    | pilot.control.payload            | execute_payloads          | [payload] execute_payloads thread has finished
2019-08-13 08:36:48,602 | DEBUG    | copytool_in         | pilot.control.data               | copytool_in               | [data] copytool_in thread has finished
2019-08-13 08:36:48,694 | DEBUG    | copytool_out        | pilot.control.data               | copytool_out              | [data] copytool_out thread has finished
2019-08-13 08:36:48,703 | DEBUG    | data                | pilot.control.data               | control                   | data control ending since graceful_stop has been set
2019-08-13 08:36:48,703 | DEBUG    | data                | pilot.control.data               | control                   | [data] control thread has finished
2019-08-13 08:36:48,719 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 6 threads
2019-08-13 08:36:48,719 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(job, started 139806557796096)>, <ExcThread(queue_monitor, started 139805413340928)>, <ExcThread(job_monitor, started 139805975357184)>, <ExcThread(queue_monitoring, started 139806507439872)>, <ExcThread(validate, started 139806549403392)>]
2019-08-13 08:36:48,791 | DEBUG    | job                 | pilot.control.job                | control                   | job control ending since graceful_stop has been set
2019-08-13 08:36:48,791 | DEBUG    | job                 | pilot.control.job                | control                   | [job] control thread has finished
2019-08-13 08:36:48,820 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 5 threads
2019-08-13 08:36:48,820 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(queue_monitor, started 139805413340928)>, <ExcThread(job_monitor, started 139805975357184)>, <ExcThread(queue_monitoring, started 139806507439872)>, <ExcThread(validate, started 139806549403392)>]
2019-08-13 08:36:48,831 | DEBUG    | validate            | pilot.control.job                | validate                  | [job] validate thread has finished
2019-08-13 08:36:48,921 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 4 threads
2019-08-13 08:36:48,921 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(queue_monitor, started 139805413340928)>, <ExcThread(job_monitor, started 139805975357184)>, <ExcThread(queue_monitoring, started 139806507439872)>]
2019-08-13 08:36:49,222 | WARNING  | queue_monitor       | pilot.util.common                | should_abort              | job:queue_monitor:received graceful stop - abort after this iteration
2019-08-13 08:36:49,222 | DEBUG    | queue_monitor       | pilot.control.job                | queue_monitor             | [job] queue monitor thread has finished
2019-08-13 08:36:49,223 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 3 threads
2019-08-13 08:36:49,223 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(job_monitor, started 139805975357184)>, <ExcThread(queue_monitoring, started 139806507439872)>]
2019-08-13 08:36:50,864 | DEBUG    | queue_monitoring    | pilot.control.data               | queue_monitoring          | [data] queue_monitor thread has finished
2019-08-13 08:36:50,934 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | thread count now at 2 threads
2019-08-13 08:36:50,934 | DEBUG    | MainThread          | pilot.workflow.generic           | run                       | enumerate: [<_MainThread(MainThread, started 139806773278464)>, <ExcThread(job_monitor, started 139805975357184)>]
2019-08-13 08:37:18,099 | WARNING  | job_monitor         | pilot.control.job                | check_job_monitor_waiting_time | no jobs in monitored_payloads queue (waited for 62 s)
2019-08-13 08:37:18,099 | DEBUG    | job_monitor         | pilot.control.job                | job_monitor               | [job] job monitor thread has finished
2019-08-13 08:37:18,179 | INFO     | MainThread          | pilot.workflow.generic           | run                       | end of generic workflow (traces error code: 0)
2019-08-13 08:37:18,179 | INFO     | MainThread          | root                             | wrap_up                   | traces error code: 0
2019-08-13 08:37:18,179 | INFO     | MainThread          | root                             | wrap_up                   | pilot has finished
2019-08-13 08:37:18 UTC [wrapper] ==== pilot stdout END ====
2019-08-13 08:37:18 UTC [wrapper] ==== wrapper stdout RESUME ====
2019-08-13 08:37:18 UTC [wrapper] Pilot exit status: 0
2019-08-13 08:37:18 UTC [wrapper] STATUSCODE: 0
2019-08-13 08:37:18 UTC [wrapper] apfmon messages muted
---- find pandaID.out ----
total 48
-rw-rw-r--  1 320 320 11357 Jul 25 08:38 LICENSE
drwxrwxr-x 14 320 320  4096 Aug 13 00:47 pilot
-rwxrwxr-x  1 320 320 20463 Jul 25 08:38 pilot.py
-rw-r--r--  1 320 320     8 Aug  7 05:02 PILOTVERSION
-rw-rw-r--  1 320 320  2251 Jul 25 08:38 README.md
-rw-rw-r--  1 320 320   221 Jul 25 08:38 TODO.md

2019-08-13 08:37:18 UTC [wrapper] Test setup, not cleaning
2019-08-13 08:37:18 UTC [wrapper] ==== wrapper stdout END ====
2019-08-13 08:37:18 UTC [wrapper] ==== wrapper stderr END ====
2019-08-13 08:37:18 UTC [wrapper] wrapper wrapperexiting ec=0, duration=6590
2019-08-13 08:37:18 UTC [wrapper] apfmon messages muted
***************diag file************
runtimeenvironments=APPS/HEP/ATLAS-SITE;
Processors=1
WallTime=6589.90s
KernelTime=551.74s
UserTime=40895.48s
CPUUsage=628%
MaxResidentMemory=2033400kB
AverageResidentMemory=0kB
AverageTotalMemory=0kB
AverageUnsharedMemory=0kB
AverageUnsharedStack=0kB
AverageSharedMemory=0kB
PageSize=4096B
MajorPageFaults=409302
MinorPageFaults=16920322
Swaps=0
ForcedSwitches=297459
WaitSwitches=7076945
Inputs=72790560
Outputs=642864
SocketReceived=0
SocketSent=0
Signals=0

nodename=wHewitt@d8
exitcode=0
******************************WorkDir***********************
total 215164
drwxrwx--x  6 root root      4096 Aug 13 02:37 .
drwxrwxrwx 33 root root      4096 Aug 12 15:18 ..
-rw-------  1 root root   7409065 Aug 13 00:47 agis_ddmendpoints.json
-rw-------  1 root root   4517767 Aug 13 00:47 agis_schedconf.cvmfs.json
drwx------  2 root root      4096 Aug 13 00:47 .alrb
drwxr-xr-x  3 root root      4096 Aug 13 00:47 APPS
-rw-------  1 root root       543 Aug 13 00:47 .asetup
-rw-------  1 root root       829 Aug 13 00:48 .asetup.save
-rw-r--r--  1 root root         0 Aug 13 00:47 boinc_lockfile
-rw-r--r--  1 root root      8192 Aug 13 02:36 boinc_mmap_file
-rw-r--r--  1 root root       536 Aug 13 02:28 boinc_task_state.xml
-rw-r--r--  1 root root 205943587 Aug 13 00:47 EVNT.18605775._000462.pool.root.1
-rw-------  1 root root       493 Aug 13 02:37 fNNKDmm4UHvnShfckohDCDFpABFKDmABFKDmDVxZDmABFKDmWSTHMm.diag
-rw-------  1 root root     88182 Aug 13 02:36 heartbeat.json
-rw-r--r--  1 root root      8513 Aug 13 00:47 init_data.xml
-rw-r--r--  1 root root    261616 Aug 13 00:47 input.tar.gz
-rw-r--r--  1 root root       112 Aug 13 00:47 job.xml
-rw-------  1 root root    486388 Aug 13 02:37 log.18722398._023361.job.log.1
-rw-------  1 root root   1173514 Aug 13 02:36 log.18722398._023361.job.log.tgz.1
-rw-------  1 root root       391 Aug 13 02:37 output.list
-rw-------  1 4871 1028      2957 Aug 12 13:22 pandaJobData.out
drwxr-xr-x  3  320  320      4096 Aug  7 05:02 pilot2
-rw-r--r--  1 root root    253018 Aug 12 12:23 pilot2.tar.gz
-rw-------  1 root root      9517 Aug 13 02:37 pilotlog.txt
-rw-r--r--  1 root root      4468 Aug 12 13:22 queuedata.json
-rw-r--r--  1 root root       815 Aug 13 00:47 RTE.tar.gz
-rwxr-xr-x  1 root root      8779 Aug 13 00:47 run_atlas
-rwx------  1 4871 1028     12641 Aug 12 13:22 runpilot2-wrapper.sh
-rw-r--r--  1 root root       692 Aug 13 02:37 runtime_log
-rw-r--r--  1 root root      6844 Aug 13 02:37 runtime_log.err
drwxrwx--x  2 root root      4096 Aug 13 02:37 shared
-rw-r--r--  1 root root      8688 Aug 13 00:47 start_atlas.sh
-rw-r--r--  1 root root     17595 Aug 13 02:37 stderr.txt
-rw-r--r--  1 root root       107 Aug 13 00:47 wrapper_26015_x86_64-pc-linux-gnu
-rw-r--r--  1 root root        27 Aug 13 02:36 wrapper_checkpoint.txt

running start_atlas return value is 0
Parent exit 0
child process exit 0
02:37:18 (25630): run_atlas exited; CPU time 40895.684000
02:37:18 (25630): called boinc_finish(0)

</stderr_txt>
]]>


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