| Name | UGrMDmXR6FvnShfckohDCDFpABFKDmABFKDmMQeXDmABFKDmuPytBn_1 |
| Workunit | 1915220 |
| Created | 9 Aug 2019, 0:46:30 UTC |
| Sent | 9 Aug 2019, 3:49:45 UTC |
| Report deadline | 16 Aug 2019, 3:49:45 UTC |
| Received | 9 Aug 2019, 12:52:59 UTC |
| Server state | Over |
| Outcome | Success |
| Client state | Done |
| Exit status | 0 (0x00000000) |
| Computer ID | 3911 |
| Run time | 1 hours 18 min 1 sec |
| CPU time | 4 hours 43 min 57 sec |
| Validate state | Valid |
| Credit | 138.27 |
| Device peak FLOPS | 12.76 GFLOPS |
| Application version | ATLAS Simulation v0.70 (native_mt) x86_64-pc-linux-gnu |
| Peak working set size | 1.80 GB |
| Peak swap size | 2.54 GB |
| Peak disk usage | 557.01 MB |
Stderr output
<core_client_version>7.7.0</core_client_version>
<![CDATA[
<stderr_txt>
12:33:23 (29297): wrapper (7.7.26015): starting
12:33:23 (29297): wrapper: running run_atlas (--nthreads 4)
singularity image is /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6
sys.argv = ['run_atlas', '--nthreads', '4']
THREADS=4
Checking for CVMFS
CVMFS is installed
OS:CentOS Linux release 7.6.1810 (Core)
This is not SLC6, need to run with Singularity....
Checking Singularity...
Singularity is installed, version singularity version 3.2.1-1
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 /home/grid/slots/0/shared/ATLAS.root_0
copy /home/grid/slots/0/shared/input.tar.gz
copy /home/grid/slots/0/shared/RTE.tar.gz
copy /home/grid/slots/0/shared/start_atlas.sh
export ATHENA_PROC_NUMBER=4;start atlas job with grep: pandaJobData.out: No such file or directory
cmd = singularity exec --pwd /home/grid/slots/0 -B /cvmfs,/home /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6 sh start_atlas.sh > runtime_log 2> runtime_log.err
13:50:31 (19464): wrapper (7.7.26015): starting
13:50:31 (19464): wrapper: running run_atlas (--nthreads 4)
singularity image is /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6
sys.argv = ['run_atlas', '--nthreads', '4']
THREADS=4
This is not an Event Service job
This is trying to run the run_atlas wrapper for the 2nd time,but it is not an Event Service job,so will restart the job
output.list does not exist...
Checking for CVMFS
CVMFS is installed
OS:CentOS Linux release 7.6.1810 (Core)
This is not SLC6, need to run with Singularity....
Checking Singularity...
Singularity is not installed, using version from CVMFS
Testing the function of Singularity...
Checking singularity with cmd:/cvmfs/atlas.cern.ch/repo/containers/sw/singularity/x86_64-el7/current/bin/singularity exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-slc6 hostname
Singularity Works...
copy /home/grid/slots/0/shared/ATLAS.root_0
copy /home/grid/slots/0/shared/input.tar.gz
copy /home/grid/slots/0/shared/RTE.tar.gz
copy /home/grid/slots/0/shared/start_atlas.sh
export ATHENA_PROC_NUMBER=4;start atlas job with PandaID=4441066431
cmd = /cvmfs/atlas.cern.ch/repo/containers/sw/singularity/x86_64-el7/current/bin/singularity exec --pwd /home/grid/slots/0 -B /cvmfs,/home /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
*****************The last 100 lines of the pilot log******************
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . total setup = 19 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . stage-in = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . payload execution = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . stage-out = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | ..............................
2019-08-09 11:52:02,284 | INFO | queue_monitor | pilot.util.auxiliary | get_log_extracts | building log extracts (sent to the server as 'pilotLog')
2019-08-09 11:52:02,285 | DEBUG | queue_monitor | pilot.util.auxiliary | get_panda_tracer_log | PanDA tracer log does not exist: pandatracerlog.txt (ignoring)
2019-08-09 11:52:02,285 | INFO | queue_monitor | pilot.util.container | execute | executing command: tail -n 20 pilotlog.txt
2019-08-09 11:52:02,334 | WARNING | queue_monitor | pilot.util.auxiliary | get_log_extracts | detected the following tail of warning/fatal messages in the pilot log:
- Log from pilotlog.txt -2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.util.auxiliary | get_job_metrics | will not add max space = 0 B to job metrics
2019-08-09 11:52:02,277 | DEBUG | queue_monitor | pilot.util.auxiliary | get_job_metrics | job metrics="coreCount=4"
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.control.job | get_data_structure | payload/TRF did not report the number of read events
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info_path | neither memory_monitor_summary.json, nor /home/grid/slots/0/memory_monitor_summary.json exist
2019-08-09 11:52:02,277 | WARNING | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info_path | file does not exist either: memory_monitor_output.txt
2019-08-09 11:52:02,277 | DEBUG | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info | summary_dictionary={}
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info | memory summary dictionary not yet available
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | ..............................
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . Timing measurements:
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . get job = 3 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . initial setup = 19 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . payload setup = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . total setup = 19 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . stage-in = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . payload execution = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . stage-out = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | ..............................
2019-08-09 11:52:02,284 | INFO | queue_monitor | pilot.util.auxiliary | get_log_extracts | building log extracts (sent to the server as 'pilotLog')
2019-08-09 11:52:02,285 | DEBUG | queue_monitor | pilot.util.auxiliary | get_panda_tracer_log | PanDA tracer log does not exist: pandatracerlog.txt (ignoring)
2019-08-09 11:52:02,285 | INFO | queue_monitor | pilot.util.container | execute | executing command: tail -n 20 pilotlog.txt
2019-08-09 11:52:02,335 | WARNING | queue_monitor | pilot.control.job | add_timing_and_extracts | pilot log extracts:
- Log from pilotlog.txt -2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.util.auxiliary | get_job_metrics | will not add max space = 0 B to job metrics
2019-08-09 11:52:02,277 | DEBUG | queue_monitor | pilot.util.auxiliary | get_job_metrics | job metrics="coreCount=4"
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.control.job | get_data_structure | payload/TRF did not report the number of read events
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info_path | neither memory_monitor_summary.json, nor /home/grid/slots/0/memory_monitor_summary.json exist
2019-08-09 11:52:02,277 | WARNING | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info_path | file does not exist either: memory_monitor_output.txt
2019-08-09 11:52:02,277 | DEBUG | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info | summary_dictionary={}
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.user.atlas.utilities | get_memory_monitor_info | memory summary dictionary not yet available
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | ..............................
2019-08-09 11:52:02,277 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . Timing measurements:
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . get job = 3 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . initial setup = 19 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . payload setup = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . total setup = 19 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . stage-in = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . payload execution = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | . stage-out = 0 s
2019-08-09 11:52:02,278 | INFO | queue_monitor | pilot.util.auxiliary | timing_report | ..............................
2019-08-09 11:52:02,284 | INFO | queue_monitor | pilot.util.auxiliary | get_log_extracts | building log extracts (sent to the server as 'pilotLog')
2019-08-09 11:52:02,285 | DEBUG | queue_monitor | pilot.util.auxiliary | get_panda_tracer_log | PanDA tracer log does not exist: pandatracerlog.txt (ignoring)
2019-08-09 11:52:02,285 | INFO | queue_monitor | pilot.util.container | execute | executing command: tail -n 20 pilotlog.txt
2019-08-09 11:52:02,335 | WARNING | queue_monitor | pilot.control.job | add_error_codes | pilotErrorCodes = [1199] (will report primary/first error code)
2019-08-09 11:52:02,335 | WARNING | queue_monitor | pilot.control.job | add_error_codes | pilotErrorDiags = ['Failed to create local directory'] (will report primary/first error diag)
2019-08-09 11:52:02,336 | DEBUG | queue_monitor | pilot.control.job | send_state | wrote heartbeat to file /home/grid/slots/0/heartbeat.json
2019-08-09 11:52:03,336 | WARNING | queue_monitor | pilot.control.job | queue_monitor | failed to dequeue job: queue is empty (did job fail before job monitor started?)
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report |
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | job summary report
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | --------------------------------------------------
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | PanDA job id: 4441066431
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | task id: 18722144
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | error 1/1: 1199: Failed to create local directory
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | status: LOG_TRANSFER = IN_PROGRESS
2019-08-09 11:52:03,337 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | pilot state: failed
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | transexitcode: 0
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | exeerrorcode: 0
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | exeerrordiag:
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | exitcode: 0
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | exitmsg:
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | cpuconsumptiontime: -1
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | nevents: 0
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | neventsw: 0
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | pid: None
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | pgrp: None
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | corecount: 4
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | event service: False
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report | --------------------------------------------------
2019-08-09 11:52:03,338 | INFO | queue_monitor | pilot.util.auxiliary | make_job_report |
2019-08-09 11:52:03,841 | WARNING | queue_monitor | pilot.util.common | should_abort | job:queue_monitor:received graceful stop - abort after this iteration
2019-08-09 11:52:03,841 | WARNING | queue_monitor | pilot.control.job | pause_queue_monitor | since job:queue_monitor is responsible for sending job updates, we sleep for 20 s
2019-08-09 11:52:25,943 | DEBUG | queue_monitor | pilot.control.job | queue_monitor | [job] queue monitor thread has finished
2019-08-09 11:52:25,988 | INFO | MainThread | pilot.workflow.generic | run | end of generic workflow (traces error code: 1199)
2019-08-09 11:52:25,989 | INFO | MainThread | root | wrap_up | traces error code: 1199
2019-08-09 11:52:25,989 | INFO | MainThread | root | wrap_up | an exit code was already set: 1199 (will be converted to a standard shell code)
2019-08-09 11:52:25,989 | INFO | MainThread | root | wrap_up | pilot has finished
2019-08-09 11:52:26 UTC [wrapper] ==== pilot stdout END ====
2019-08-09 11:52:26 UTC [wrapper] ==== wrapper stdout RESUME ====
2019-08-09 11:52:26 UTC [wrapper] Pilot exit status: 66
2019-08-09 11:52:26 UTC [wrapper] STATUSCODE: 66
2019-08-09 11:52:26 UTC [wrapper] apfmon messages muted
---- find pandaID.out ----
total 44
-rw-------. 1 grid grid 11357 Jul 25 16:38 LICENSE
drwx------. 14 grid grid 216 Jul 25 16:38 pilot
-rwx------. 1 grid grid 20463 Jul 25 16:38 pilot.py
-rw-------. 1 grid grid 8 Aug 7 13:02 PILOTVERSION
-rw-------. 1 grid grid 2251 Jul 25 16:38 README.md
-rw-------. 1 grid grid 221 Jul 25 16:38 TODO.md
2019-08-09 11:52:26 UTC [wrapper] Test setup, not cleaning
2019-08-09 11:52:26 UTC [wrapper] ==== wrapper stdout END ====
2019-08-09 11:52:26 UTC [wrapper] ==== wrapper stderr END ====
***************diag file************
runtimeenvironments=APPS/HEP/ATLAS-SITE;
Processors=1
runtimeenvironments=APPS/HEP/ATLAS-SITE;
Processors=1
WallTime=94.13s
KernelTime=7.11s
UserTime=11.71s
CPUUsage=20%
MaxResidentMemory=111160kB
AverageResidentMemory=0kB
AverageTotalMemory=0kB
AverageUnsharedMemory=0kB
AverageUnsharedStack=0kB
AverageSharedMemory=0kB
PageSize=4096B
MajorPageFaults=29659
MinorPageFaults=1044724
Swaps=0
ForcedSwitches=2751
WaitSwitches=262948
Inputs=7157584
Outputs=12688
SocketReceived=0
SocketSent=0
Signals=0
nodename=David_Cameron@dcameron04.cern.ch
exitcode=0
******************************WorkDir***********************
total 12512
drwxrwx--x. 8 grid grid 4096 Aug 9 13:52 .
drwxr-x--x. 3 grid grid 15 Aug 8 09:08 ..
-rw-------. 1 grid grid 7409227 Aug 9 12:33 agis_ddmendpoints.json
-rw-------. 1 grid grid 4507238 Aug 9 13:51 agis_schedconf.cvmfs.json
drwx------. 2 grid grid 6 Aug 9 13:50 .alrb
drwxr-xr-x. 3 grid grid 17 Aug 9 12:33 APPS
drwxr-xr-x. 2 grid grid 6 Aug 9 12:33 .arc
-rw-------. 1 grid grid 538 Aug 9 12:33 .asetup
-rw-------. 1 grid grid 826 Aug 9 12:34 .asetup.save
-rw-r--r--. 1 grid grid 0 Aug 9 12:33 boinc_lockfile
-rw-r--r--. 1 grid grid 8192 Aug 9 13:52 boinc_mmap_file
-rw-r--r--. 1 grid grid 536 Aug 9 13:52 boinc_task_state.xml
-rw-------. 1 grid grid 1669 Aug 9 13:52 heartbeat.json
-rw-rw-r--. 1 grid grid 5869 Aug 9 13:50 init_data.xml
-rw-r--r--. 1 grid grid 262338 Aug 9 13:50 input.tar.gz
-rw-r--r--. 1 grid grid 112 Aug 9 12:33 job.xml
-rw-------. 1 grid grid 90981 Aug 9 13:52 log.18722144._010813.job.log.1
-rw-------. 1 grid grid 2921 Aug 9 00:52 pandaJobData.out
drwxrwx---. 3 grid grid 4096 Aug 9 13:51 PanDA_Pilot-4441066431
drwx------. 3 grid grid 174 Aug 7 13:02 pilot2
-rw-r--r--. 1 grid grid 253018 Aug 9 00:23 pilot2.tar.gz
-rw-------. 1 grid grid 68075 Aug 9 13:52 pilotlog.txt
-rw-r--r--. 1 grid grid 4468 Aug 9 00:50 queuedata.json
-rw-r--r--. 1 grid grid 815 Aug 9 13:50 RTE.tar.gz
-rwxr-xr-x. 1 grid grid 8648 Aug 9 12:33 run_atlas
-rwx------. 1 grid grid 15232 Aug 9 00:52 runpilot2-wrapper.sh
-rw-r--r--. 1 grid grid 643 Aug 9 13:52 runtime_log
-rw-r--r--. 1 grid grid 6134 Aug 9 13:52 runtime_log.err
drwxrwx--x. 2 grid grid 107 Aug 9 13:52 shared
-rw-r--r--. 1 grid grid 8688 Aug 9 13:50 start_atlas.sh
-rw-r--r--. 1 grid grid 17151 Aug 9 13:52 stderr.txt
-rw-------. 1 grid grid 553 Aug 9 13:52 UGrMDmXR6FvnShfckohDCDFpABFKDmABFKDmMQeXDmABFKDmuPytBn.diag
-rw-r--r--. 1 grid grid 107 Aug 9 12:33 wrapper_26015_x86_64-pc-linux-gnu
-rw-r--r--. 1 grid grid 27 Aug 9 13:52 wrapper_checkpoint.txt
running start_atlas return value is 0
Parent exit 0
child process exit 0
13:52:26 (19464): run_atlas exited; CPU time 12.069944
13:52:26 (19464): called boinc_finish(0)
</stderr_txt>
]]>
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