Name | bFnMDmRJGHvnShfckohDCDFpABFKDmABFKDmY4ZZDmABFKDmQFnP9m_0 |
Workunit | 1916531 |
Created | 12 Aug 2019, 3:36:36 UTC |
Sent | 12 Aug 2019, 20:44:21 UTC |
Report deadline | 19 Aug 2019, 20:44:21 UTC |
Received | 13 Aug 2019, 10:48:48 UTC |
Server state | Over |
Outcome | Success |
Client state | Done |
Exit status | 0 (0x00000000) |
Computer ID | 4132 |
Run time | 1 hours 44 min 11 sec |
CPU time | 9 hours 49 min 40 sec |
Validate state | Valid |
Credit | 410.06 |
Device peak FLOPS | 28.34 GFLOPS |
Application version | ATLAS Simulation v0.71 (native_mt) x86_64-pc-linux-gnu |
Peak working set size | 1.84 GB |
Peak swap size | 16.14 GB |
Peak disk usage | 844.28 MB |
<core_client_version>7.6.31</core_client_version> <![CDATA[ <stderr_txt> 03:02:53 (72348): wrapper (7.7.26015): starting 03:02:53 (72348): 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/1/shared/RTE.tar.gz copy /var/lib/boinc2/slots/1/shared/ATLAS.root_0 copy /var/lib/boinc2/slots/1/shared/input.tar.gz copy /var/lib/boinc2/slots/1/shared/start_atlas.sh export ATHENA_PROC_NUMBER=8;start atlas job with PandaID=4443135958 cmd = singularity exec --pwd /var/lib/boinc2/slots/1 -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.18604976._045727.pool.root.1 to shared/HITS.pool.root.1 *****************The last 100 lines of the pilot log****************** 2019-08-13 10:46:08,546 | DEBUG | queue_monitor | pilot.control.job | send_state | wrote heartbeat to file /var/lib/boinc2/slots/1/heartbeat.json 2019-08-13 10:46:08,546 | INFO | queue_monitor | pilot.control.job | queue_monitor | job 4443135958 was dequeued from the monitored payloads queue 2019-08-13 10:46:09,070 | INFO | retrieve | pilot.util.auxiliary | make_job_report | 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | job summary report 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | -------------------------------------------------- 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | PanDA job id: 4443135958 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | task id: 18604976 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | errors: (none) 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | status: LOG_TRANSFER = DONE 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | pilot state: finished 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | transexitcode: 0 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | exeerrorcode: 0 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | exeerrordiag: 2019-08-13 10:46:09,071 | INFO | retrieve | pilot.util.auxiliary | make_job_report | exitcode: 0 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | exitmsg: OK 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | cpuconsumptiontime: 35775 s 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | nevents: 200 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | neventsw: 0 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | pid: 45305 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | pgrp: 45305 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | corecount: 8 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | event service: False 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | -------------------------------------------------- 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.util.auxiliary | make_job_report | 2019-08-13 10:46:09,072 | INFO | retrieve | pilot.control.job | has_job_completed | job 4443135958 has completed 2019-08-13 10:46:09,073 | INFO | retrieve | pilot.util.processes | cleanup | overall cleanup function is called 2019-08-13 10:46:09,078 | DEBUG | retrieve | pilot.util.processes | cleanup | work directory was removed: /var/lib/boinc2/slots/1/PanDA_Pilot-4443135958 2019-08-13 10:46:10,083 | INFO | retrieve | pilot.info.jobdata | collect_zombies | --- collectZombieJob: --- 10, [45305] 2019-08-13 10:46:10,083 | INFO | retrieve | pilot.info.jobdata | collect_zombies | zombie collector trying to kill pid 45305 2019-08-13 10:46:10,083 | INFO | retrieve | pilot.info.jobdata | collect_zombies | harmless exception when collecting zombies: [Errno 10] No child processes 2019-08-13 10:46:11,087 | INFO | retrieve | pilot.util.processes | cleanup | collected zombie processes 2019-08-13 10:46:11,087 | INFO | retrieve | pilot.util.processes | cleanup | will now attempt to kill all subprocesses of pid=45305 2019-08-13 10:46:11,256 | INFO | retrieve | pilot.util.processes | kill_processes | process IDs to be killed: [45305] (in reverse order) 2019-08-13 10:46:11,348 | WARNING | retrieve | pilot.util.processes | kill_processes | found no corresponding commands to process id(s) 2019-08-13 10:46:11,348 | INFO | retrieve | pilot.util.processes | kill_orphans | Do not look for orphan processes in BOINC jobs 2019-08-13 10:46:11,348 | INFO | retrieve | pilot.control.job | retrieve | ready for new job 2019-08-13 10:46:11,348 | 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 10:46:11,856 | DEBUG | retrieve | pilot.control.job | retrieve | getjob_requests=1 2019-08-13 10:46:21,903 | DEBUG | retrieve | pilot.control.job | proceed_with_getjob | proceed_with_getjob called with getjob_requests=1 2019-08-13 10:46:21,903 | DEBUG | retrieve | pilot.util.monitoring | check_local_space | checking local space on /var/lib/boinc2/slots/1 2019-08-13 10:46:21,925 | INFO | retrieve | pilot.util.monitoring | check_local_space | sufficient remaining disk space (273733910528 B) 2019-08-13 10:46:21,925 | 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 10:46:21,926 | DEBUG | retrieve | pilot.control.job | retrieve | [job] retrieve thread has finished 2019-08-13 10:46:21,927 | INFO | monitor | pilot.control.monitor | control | [monitor] control thread has ended 2019-08-13 10:46:22,043 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 15 threads 2019-08-13 10:46:22,043 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(job, started 140318598678272)>, <ExcThread(validate_post, started 140318015989504)>, <ExcThread(validate, started 140318590285568)>, <ExcThread(failed_post, started 140318007596800)>, <ExcThread(copytool_in, started 140318049560320)>, <ExcThread(job_monitor, started 140318057953024)>, <ExcThread(queue_monitoring, started 140318539929344)>, <ExcThread(execute_payloads, started 140317453973248)>, <ExcThread(payload, started 140318548322048)>, <ExcThread(validate_pre, started 140318041167616)>, <ExcThread(copytool_out, started 140318556714752)>, <ExcThread(create_data_payload, started 140318573500160)>, <ExcThread(data, started 140318581892864)>, <ExcThread(queue_monitor, started 140318024382208)>] 2019-08-13 10:46:22,141 | WARNING | copytool_out | pilot.util.common | should_abort | data:copytool_out:received graceful stop - abort after this iteration 2019-08-13 10:46:22,255 | INFO | execute_payloads | pilot.control.payload | execute_payloads | [payload] execute_payloads thread has finished 2019-08-13 10:46:22,271 | DEBUG | data | pilot.control.data | control | data control ending since graceful_stop has been set 2019-08-13 10:46:22,271 | DEBUG | data | pilot.control.data | control | [data] control thread has finished 2019-08-13 10:46:22,355 | INFO | failed_post | pilot.control.payload | failed_post | [payload] failed_post thread has finished 2019-08-13 10:46:22,376 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 12 threads 2019-08-13 10:46:22,377 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(job, started 140318598678272)>, <ExcThread(validate_post, started 140318015989504)>, <ExcThread(validate, started 140318590285568)>, <ExcThread(copytool_in, started 140318049560320)>, <ExcThread(job_monitor, started 140318057953024)>, <ExcThread(queue_monitoring, started 140318539929344)>, <ExcThread(payload, started 140318548322048)>, <ExcThread(validate_pre, started 140318041167616)>, <ExcThread(copytool_out, started 140318556714752)>, <ExcThread(create_data_payload, started 140318573500160)>, <ExcThread(queue_monitor, started 140318024382208)>] 2019-08-13 10:46:22,926 | WARNING | queue_monitoring | pilot.util.common | should_abort | data:queue_monitoring:received graceful stop - abort after this iteration 2019-08-13 10:46:22,927 | INFO | validate_pre | pilot.control.payload | validate_pre | [payload] validate_pre thread has finished 2019-08-13 10:46:22,940 | DEBUG | validate | pilot.control.job | validate | [job] validate thread has finished 2019-08-13 10:46:22,973 | DEBUG | job | pilot.control.job | control | job control ending since graceful_stop has been set 2019-08-13 10:46:22,973 | DEBUG | job | pilot.control.job | control | [job] control thread has finished 2019-08-13 10:46:22,979 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 9 threads 2019-08-13 10:46:22,979 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(validate_post, started 140318015989504)>, <ExcThread(copytool_in, started 140318049560320)>, <ExcThread(job_monitor, started 140318057953024)>, <ExcThread(queue_monitoring, started 140318539929344)>, <ExcThread(payload, started 140318548322048)>, <ExcThread(copytool_out, started 140318556714752)>, <ExcThread(create_data_payload, started 140318573500160)>, <ExcThread(queue_monitor, started 140318024382208)>] 2019-08-13 10:46:23,070 | DEBUG | payload | pilot.control.payload | control | payload control ending since graceful_stop has been set 2019-08-13 10:46:23,071 | DEBUG | payload | pilot.control.payload | control | [payload] control thread has finished 2019-08-13 10:46:23,080 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 8 threads 2019-08-13 10:46:23,080 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(validate_post, started 140318015989504)>, <ExcThread(copytool_in, started 140318049560320)>, <ExcThread(job_monitor, started 140318057953024)>, <ExcThread(queue_monitoring, started 140318539929344)>, <ExcThread(copytool_out, started 140318556714752)>, <ExcThread(create_data_payload, started 140318573500160)>, <ExcThread(queue_monitor, started 140318024382208)>] 2019-08-13 10:46:23,140 | DEBUG | copytool_in | pilot.control.data | copytool_in | [data] copytool_in thread has finished 2019-08-13 10:46:23,141 | DEBUG | copytool_out | pilot.control.data | copytool_out | [data] copytool_out thread has finished 2019-08-13 10:46:23,145 | DEBUG | create_data_payload | pilot.control.job | create_data_payload | [job] create_data_payload thread has finished 2019-08-13 10:46:23,181 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 5 threads 2019-08-13 10:46:23,181 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(validate_post, started 140318015989504)>, <ExcThread(job_monitor, started 140318057953024)>, <ExcThread(queue_monitoring, started 140318539929344)>, <ExcThread(queue_monitor, started 140318024382208)>] 2019-08-13 10:46:23,499 | INFO | validate_post | pilot.control.payload | validate_post | [payload] validate_post thread has finished 2019-08-13 10:46:23,539 | WARNING | queue_monitor | pilot.util.common | should_abort | job:queue_monitor:received graceful stop - abort after this iteration 2019-08-13 10:46:23,539 | DEBUG | queue_monitor | pilot.control.job | queue_monitor | [job] queue monitor thread has finished 2019-08-13 10:46:23,583 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 3 threads 2019-08-13 10:46:23,584 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(job_monitor, started 140318057953024)>, <ExcThread(queue_monitoring, started 140318539929344)>] 2019-08-13 10:46:25,927 | DEBUG | queue_monitoring | pilot.control.data | queue_monitoring | [data] queue_monitor thread has finished 2019-08-13 10:46:25,997 | DEBUG | MainThread | pilot.workflow.generic | run | thread count now at 2 threads 2019-08-13 10:46:25,997 | DEBUG | MainThread | pilot.workflow.generic | run | enumerate: [<_MainThread(MainThread, started 140318814160640)>, <ExcThread(job_monitor, started 140318057953024)>] 2019-08-13 10:47:03,551 | WARNING | job_monitor | pilot.control.job | check_job_monitor_waiting_time | no jobs in monitored_payloads queue (waited for 62 s) 2019-08-13 10:47:03,551 | DEBUG | job_monitor | pilot.control.job | job_monitor | [job] job monitor thread has finished 2019-08-13 10:47:03,609 | INFO | MainThread | pilot.workflow.generic | run | end of generic workflow (traces error code: 0) 2019-08-13 10:47:03,609 | INFO | MainThread | root | wrap_up | traces error code: 0 2019-08-13 10:47:03,609 | INFO | MainThread | root | wrap_up | pilot has finished 2019-08-13 10:47:03 UTC [wrapper] ==== pilot stdout END ==== 2019-08-13 10:47:03 UTC [wrapper] ==== wrapper stdout RESUME ==== 2019-08-13 10:47:03 UTC [wrapper] Pilot exit status: 0 2019-08-13 10:47:03 UTC [wrapper] STATUSCODE: 0 2019-08-13 10:47:03 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 03:03 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 10:47:03 UTC [wrapper] Test setup, not cleaning 2019-08-13 10:47:03 UTC [wrapper] ==== wrapper stdout END ==== 2019-08-13 10:47:03 UTC [wrapper] ==== wrapper stderr END ==== ***************diag file************ runtimeenvironments=APPS/HEP/ATLAS-SITE; Processors=1 WallTime=6248.42s KernelTime=512.30s UserTime=35379.94s CPUUsage=574% MaxResidentMemory=2031376kB AverageResidentMemory=0kB AverageTotalMemory=0kB AverageUnsharedMemory=0kB AverageUnsharedStack=0kB AverageSharedMemory=0kB PageSize=4096B MajorPageFaults=346428 MinorPageFaults=17453900 Swaps=0 ForcedSwitches=245351 WaitSwitches=6932738 Inputs=65234464 Outputs=509928 SocketReceived=0 SocketSent=0 Signals=0 nodename=wHewitt@d8 exitcode=0 ******************************WorkDir*********************** total 381128 drwxrwxrwx 7 root root 4096 Aug 13 04:47 . drwxrwxrwx 33 root root 4096 Aug 12 15:18 .. -rw------- 1 root root 7409065 Aug 13 03:03 agis_ddmendpoints.json -rw------- 1 root root 4517434 Aug 13 03:03 agis_schedconf.cvmfs.json drwx------ 2 root root 4096 Aug 13 03:02 .alrb drwxr-xr-x 3 root root 4096 Aug 13 03:02 APPS drwxr-xr-x 2 root root 4096 Aug 13 03:03 .arc -rw------- 1 root root 543 Aug 13 03:02 .asetup -rw------- 1 root root 829 Aug 13 03:03 .asetup.save -rw------- 1 root root 493 Aug 13 04:47 bFnMDmRJGHvnShfckohDCDFpABFKDmABFKDmY4ZZDmABFKDmQFnP9m.diag -rw-r--r-- 1 root root 0 Aug 13 03:02 boinc_lockfile -rw-r--r-- 1 root root 8192 Aug 13 04:46 boinc_mmap_file -rw-r--r-- 1 root root 537 Aug 13 04:28 boinc_task_state.xml -rw-r--r-- 1 root root 375922191 Aug 13 03:02 EVNT.17323813._000875.pool.root.1 -rw------- 1 root root 77190 Aug 13 04:46 heartbeat.json -rw-r--r-- 1 root root 8513 Aug 13 03:02 init_data.xml -rw-r--r-- 1 root root 262352 Aug 13 03:02 input.tar.gz -rw-r--r-- 1 root root 112 Aug 13 03:02 job.xml -rw------- 1 root root 464199 Aug 13 04:47 log.18604976._045727.job.log.1 -rw------- 1 root root 1169757 Aug 13 04:45 log.18604976._045727.job.log.tgz.1 -rw------- 1 root root 391 Aug 13 04:47 output.list -rw------- 1 4871 1028 2873 Aug 11 21:36 pandaJobData.out drwxr-xr-x 3 320 320 4096 Aug 7 05:02 pilot2 -rw-r--r-- 1 root root 253018 Aug 11 21:35 pilot2.tar.gz -rw------- 1 root root 9984 Aug 13 04:47 pilotlog.txt -rw-r--r-- 1 root root 4468 Aug 11 21:35 queuedata.json -rw-r--r-- 1 root root 815 Aug 13 03:02 RTE.tar.gz -rwxr-xr-x 1 root root 8779 Aug 13 03:02 run_atlas -rwx------ 1 4871 1028 15232 Aug 11 21:36 runpilot2-wrapper.sh -rw-r--r-- 1 root root 692 Aug 13 04:47 runtime_log -rw-r--r-- 1 root root 6844 Aug 13 04:47 runtime_log.err drwxrwx--x 2 root root 4096 Aug 13 04:47 shared -rw-r--r-- 1 root root 8688 Aug 13 03:02 start_atlas.sh -rw-r--r-- 1 root root 18304 Aug 13 04:47 stderr.txt -rw-r--r-- 1 root root 107 Aug 13 03:02 wrapper_26015_x86_64-pc-linux-gnu -rw-r--r-- 1 root root 27 Aug 13 04:46 wrapper_checkpoint.txt running start_atlas return value is 0 Parent exit 0 child process exit 0 04:47:03 (72348): run_atlas exited; CPU time 35380.140000 04:47:03 (72348): called boinc_finish(0) </stderr_txt> ]]>
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