Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
16:17:39 (22883): wrapper (7.7.26015): starting
16:17:39 (22883): wrapper: running run_atlas (--nthreads 12)
[2025-11-22 16:17:40] Arguments: --nthreads 12
[2025-11-22 16:17:40] Threads: 12
[2025-11-22 16:17:40] Checking for CVMFS
[2025-11-22 16:17:40] Probing /cvmfs/atlas.cern.ch... OK
[2025-11-22 16:17:40] Probing /cvmfs/atlas-condb.cern.ch... OK
[2025-11-22 16:17:40] Running cvmfs_config stat atlas.cern.ch
[2025-11-22 16:17:45] VERSION PID UPTIME(M) MEM(K) REVISION EXPIRES(M) NOCATALOGS CACHEUSE(K) CACHEMAX(K) NOFDUSE NOFDMAX NOIOERR NOOPEN HITRATE(%) RX(K) SPEED(K/S) HOST PROXY ONLINE
[2025-11-22 16:17:45] 2.13.3.0 5957 1370 106700 153178 0 57 4712217 102400001 1727 130560 29 4848101 99.995 57972 10 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch DIRECT 1
[2025-11-22 16:17:45] CVMFS is ok
[2025-11-22 16:17:45] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2025-11-22 16:17:45] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2025-11-22 16:17:45] Small home clusters do not require a local http proxy but it is suggested if
[2025-11-22 16:17:45] more than 10 cores throughout the same LAN segment are regularly running ATLAS like tasks.
[2025-11-22 16:17:45] Further information can be found at the LHC@home message board.
[2025-11-22 16:17:45] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2025-11-22 16:17:45] Checking for apptainer binary...
[2025-11-22 16:17:45] which: no apptainer in (/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin)
[2025-11-22 16:17:45] apptainer is not installed, using version from CVMFS
[2025-11-22 16:17:45] Checking apptainer works with /cvmfs/atlas.cern.ch/repo/containers/sw/apptainer/x86_64-el7/current/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2025-11-22 16:17:46] crocidura-russula
[2025-11-22 16:17:46] apptainer works
[2025-11-22 16:17:46] Set ATHENA_PROC_NUMBER=12
[2025-11-22 16:17:46] Set ATHENA_CORE_NUMBER=12
[2025-11-22 16:17:46] Starting ATLAS job with PandaID=6893852762
[2025-11-22 16:17:46] Running command: /cvmfs/atlas.cern.ch/repo/containers/sw/apptainer/x86_64-el7/current/bin/apptainer exec -B /cvmfs,/virtma/boinc/slots/2 /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 sh start_atlas.sh
[2025-11-22 17:07:24]  *** The last 200 lines of the pilot log: ***
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | chi2: 0.018513038347007585
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | current memory leak: 67.99 B/s (using 39 data points, chi2=0.02)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | could have reported an average CPU frequency of 4156 MHz (5 samples)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | ..............................
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . Timing measurements:
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . get job = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . initial setup = 14 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . payload setup = 9 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . stage-in = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . payload execution = 2760 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . stage-out = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . log creation = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | ..............................
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | building log extracts (sent to the server as 'pilotLog')
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | executing command: tail -n 20 /virtma/boinc/slots/2/PanDA_Pilot-6893852762/pilotlog.txt
[2025-11-22 17:07:24] 2025-11-22 17:06:42,916 | WARNING  | detected the following tail of warning/fatal messages in the pilot log:
[2025-11-22 17:07:24] - Log from pilotlog.txt -
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | sum of square deviations: 18381740.0
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | sum of deviations: 1249687724.0000002
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | mean x: 1763829788.0
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | mean y: 871337.4358974359
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | intersect: -119913589061.25992
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | chi2: 0.018513038347007585
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | current memory leak: 67.99 B/s (using 39 data points, chi2=0.02)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | could have reported an average CPU frequency of 4156 MHz (5 samples)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | ..............................
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . Timing measurements:
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . get job = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . initial setup = 14 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . payload setup = 9 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . stage-in = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . payload execution = 2760 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . stage-out = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . log creation = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | ..............................
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | building log extracts (sent to the server as 'pilotLog')
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | executing command: tail -n 20 /virtma/boinc/slots/2/PanDA_Pilot-6893852762/pilotlog.txt
[2025-11-22 17:07:24] 2025-11-22 17:06:42,917 | WARNING  | 
[2025-11-22 17:07:24] [begin log extracts]
[2025-11-22 17:07:24] - Log from pilotlog.txt -
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | sum of square deviations: 18381740.0
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | sum of deviations: 1249687724.0000002
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | mean x: 1763829788.0
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | mean y: 871337.4358974359
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | intersect: -119913589061.25992
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | chi2: 0.018513038347007585
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | current memory leak: 67.99 B/s (using 39 data points, chi2=0.02)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,907 | INFO     | could have reported an average CPU frequency of 4156 MHz (5 samples)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | ..............................
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . Timing measurements:
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . get job = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . initial setup = 14 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . payload setup = 9 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . stage-in = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . payload execution = 2760 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . stage-out = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | . log creation = 0 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | ..............................
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | building log extracts (sent to the server as 'pilotLog')
[2025-11-22 17:07:24] 2025-11-22 17:06:42,908 | INFO     | executing command: tail -n 20 /virtma/boinc/slots/2/PanDA_Pilot-6893852762/pilotlog.txt
[2025-11-22 17:07:24] [end log extracts]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,917 | WARNING  | pilotErrorCodes = [1305, 1165] (will report primary/first error code)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,917 | WARNING  | pilotErrorDiags = ['Failed to execute payload:PyJobTransforms.transform.execute  CRITICAL Transform executor raised TransformValidationException: Non-zero return c
[2025-11-22 17:07:24] 2025-11-22 17:06:42,976 | INFO     | 
[2025-11-22 17:07:24] 2025-11-22 17:06:42,976 | INFO     | job summary report
[2025-11-22 17:07:24] 2025-11-22 17:06:42,976 | INFO     | --------------------------------------------------
[2025-11-22 17:07:24] 2025-11-22 17:06:42,976 | INFO     | PanDA job id: 6893852762
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | task id: 47523449
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | error 1/2: 1305: Failed to execute payload:PyJobTransforms.transform.execute 2025-11-22 17:04:34,806 CRITICAL Transform executor raised TransformValidationExceptio
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | error 2/2: 1165: Local output file is missing
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | status: LOG_TRANSFER = DONE 
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | pilot state: failed 
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | transexitcode: 65
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | exeerrorcode: 65
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | exeerrordiag: Non-zero return code from EVNTtoHITS (1); Logfile error in log.EVNTtoHITS: "Segmentation fault: Event counter: 0; Run: unknown; Evt: unknown; Current
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | exitcode: 65
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | exitmsg: Non-zero return code from EVNTtoHITS (1); Logfile error in log.EVNTtoHITS: "Segmentation fault: Event counter: 0; Run: unknown; Evt: unknown; Current algo
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | cpuconsumptiontime: 47 s
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | nevents: 0
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | neventsw: 0
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | pid: 33589
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | pgrp: 33589
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | corecount: 12
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | event service: False
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | sizes: {0: 2298635, 1: 2298834, 3: 2299096, 11: 2299124, 2773: 2324044, 2774: 2328524, 2776: 2328524, 2895: 2328750}
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | --------------------------------------------------
[2025-11-22 17:07:24] 2025-11-22 17:06:42,977 | INFO     | 
[2025-11-22 17:07:24] 2025-11-22 17:06:42,978 | INFO     | executing command: ls -lF /virtma/boinc/slots/2
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue jobs had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue payloads had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue data_in had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue data_out had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue current_data_in had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue validated_jobs had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue validated_payloads had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue monitored_payloads had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue finished_jobs had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue finished_payloads had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue finished_data_in had 1 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue finished_data_out had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue failed_jobs had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue failed_payloads had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue completed_jobids has 1 job(s)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | queue messages had 0 job(s) [purged]
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | job 6893852762 has completed (purged errors)
[2025-11-22 17:07:24] 2025-11-22 17:06:42,992 | INFO     | overall cleanup function is called
[2025-11-22 17:07:24] 2025-11-22 17:06:43,999 | INFO     | --- collectZombieJob: --- 10, [33589]
[2025-11-22 17:07:24] 2025-11-22 17:06:43,999 | INFO     | zombie collector waiting for pid 33589
[2025-11-22 17:07:24] 2025-11-22 17:06:43,999 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2025-11-22 17:07:24] 2025-11-22 17:06:43,999 | INFO     | collected zombie processes
[2025-11-22 17:07:24] 2025-11-22 17:06:43,999 | INFO     | will attempt to kill all subprocesses of pid=33589
[2025-11-22 17:07:24] 2025-11-22 17:06:44,121 | INFO     | process IDs to be killed: [33589] (in reverse order)
[2025-11-22 17:07:24] 2025-11-22 17:06:44,157 | WARNING  | found no corresponding commands to process id(s)
[2025-11-22 17:07:24] 2025-11-22 17:06:44,157 | INFO     | Do not look for orphan processes in BOINC jobs
[2025-11-22 17:07:24] 2025-11-22 17:06:44,161 | INFO     | did not find any defunct processes belonging to 33589
[2025-11-22 17:07:24] 2025-11-22 17:06:44,164 | INFO     | did not find any defunct processes belonging to 33589
[2025-11-22 17:07:24] 2025-11-22 17:06:44,165 | WARNING  | condor_chirp not found. condor_config_val not found. | If you're on a worker node/container, HTCondor may not expose configs to your env. Try: export CONDOR_CONFIG
[2025-11-22 17:07:24] 2025-11-22 17:06:44,165 | INFO     | ready for new job
[2025-11-22 17:07:24] 2025-11-22 17:06:44,165 | INFO     | pilot has finished with previous job - re-establishing logging
[2025-11-22 17:07:24] 2025-11-22 17:06:44,166 | INFO     | ***************************************
[2025-11-22 17:07:24] 2025-11-22 17:06:44,166 | INFO     | ***  PanDA Pilot version 3.11.1.15  ***
[2025-11-22 17:07:24] 2025-11-22 17:06:44,166 | INFO     | ***************************************
[2025-11-22 17:07:24] 2025-11-22 17:06:44,166 | INFO     | 
[2025-11-22 17:07:24] 2025-11-22 17:06:44,168 | INFO     | architecture information:
[2025-11-22 17:07:24] 2025-11-22 17:06:44,168 | INFO     | executing command: cat /etc/os-release
[2025-11-22 17:07:24] 2025-11-22 17:06:44,177 | INFO     | cat /etc/os-release:
[2025-11-22 17:07:24] NAME="CentOS Linux"
[2025-11-22 17:07:24] VERSION="7 (Core)"
[2025-11-22 17:07:24] ID="centos"
[2025-11-22 17:07:24] ID_LIKE="rhel fedora"
[2025-11-22 17:07:24] VERSION_ID="7"
[2025-11-22 17:07:24] PRETTY_NAME="CentOS Linux 7 (Core)"
[2025-11-22 17:07:24] ANSI_COLOR="0;31"
[2025-11-22 17:07:24] CPE_NAME="cpe:/o:centos:centos:7"
[2025-11-22 17:07:24] HOME_URL="https://www.centos.org/"
[2025-11-22 17:07:24] BUG_REPORT_URL="https://bugs.centos.org/"
[2025-11-22 17:07:24] 
[2025-11-22 17:07:24] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2025-11-22 17:07:24] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2025-11-22 17:07:24] REDHAT_SUPPORT_PRODUCT="centos"
[2025-11-22 17:07:24] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2025-11-22 17:07:24] 
[2025-11-22 17:07:24] 2025-11-22 17:06:44,177 | INFO     | ***************************************
[2025-11-22 17:07:24] 2025-11-22 17:06:44,680 | INFO     | executing command: df -mP /virtma/boinc/slots/2
[2025-11-22 17:07:24] 2025-11-22 17:06:44,690 | INFO     | sufficient remaining disk space (958581964800 B)
[2025-11-22 17:07:24] 2025-11-22 17:06:44,690 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2025-11-22 17:07:24] 2025-11-22 17:06:44,690 | INFO     | current server update state: UPDATING_FINAL
[2025-11-22 17:07:24] 2025-11-22 17:06:44,690 | INFO     | update_server=False
[2025-11-22 17:07:24] 2025-11-22 17:06:44,690 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2025-11-22 17:07:24] 2025-11-22 17:06:44,691 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2025-11-22 17:07:24] 2025-11-22 17:06:44,691 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2025-11-22 17:07:24] 2025-11-22 17:06:44,691 | INFO     | aborting loop
[2025-11-22 17:07:24] 2025-11-22 17:06:44,794 | INFO     | all data control threads have been joined
[2025-11-22 17:07:24] 2025-11-22 17:06:45,289 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2025-11-22 17:07:24] 2025-11-22 17:06:45,379 | INFO     | all job control threads have been joined
[2025-11-22 17:07:24] 2025-11-22 17:06:45,454 | INFO     | all payload control threads have been joined
[2025-11-22 17:07:24] 2025-11-22 17:06:45,694 | INFO     | [job] retrieve thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:45,694 | INFO     | [job] queue monitor thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:45,695 | INFO     | [job] job monitor thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:45,799 | INFO     | [data] control thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:45,858 | INFO     | [data] copytool_in thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:45,974 | INFO     | [payload] validate_post thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,058 | INFO     | [job] validate thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,382 | INFO     | [job] control thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,414 | INFO     | [payload] run_realtimelog thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,422 | INFO     | [payload] failed_post thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,459 | INFO     | [payload] control thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,536 | INFO     | [job] create_data_payload thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:46,642 | INFO     | [payload] validate_pre thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:47,084 | INFO     | [payload] execute_payloads thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:47,294 | INFO     | [data] copytool_out thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:06:47,328 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2025-11-22 17:07:24] 2025-11-22 17:06:51,334 | INFO     | [data] queue_monitor thread has finished
[2025-11-22 17:07:24] 2025-11-22 17:07:15,038 | INFO     | PID=26796 has CPU usage=1.0% CMD=/cvmfs/atlas.cern.ch/repo/ATLASLocalRootBase/x86_64/python/3.9.20-x86_64-centos7/bin/python3 pilot3/pilot.py -q BOINC_MCORE -i PR 
[2025-11-22 17:07:24] 2025-11-22 17:07:15,038 | INFO     | .. there are 3 such processes running
[2025-11-22 17:07:24] 2025-11-22 17:07:15,038 | INFO     | found 0 job(s) in 20 queues
[2025-11-22 17:07:24] 2025-11-22 17:07:15,038 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2025-11-22 17:07:24] 2025-11-22 17:07:15,038 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2025-11-22 17:07:24] 2025-11-22 17:07:18,714 | INFO     | [monitor] cgroup control has ended
[2025-11-22 17:07:24] 2025-11-22 17:07:19,586 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 139797829523264)>', '<ExcThread(monitor, started 139797509150464)>']
[2025-11-22 17:07:24] 2025-11-22 17:07:20,058 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2025-11-22 17:07:24] 2025-11-22 17:07:20,058 | INFO     | [monitor] control thread has ended
[2025-11-22 17:07:24] 2025-11-22 17:07:24,601 | INFO     | all workflow threads have been joined
[2025-11-22 17:07:24] 2025-11-22 17:07:24,602 | INFO     | end of generic workflow (traces error code: 0)
[2025-11-22 17:07:24] 2025-11-22 17:07:24,602 | INFO     | traces error code: 0
[2025-11-22 17:07:24] 2025-11-22 17:07:24,602 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2025-11-22 17:07:24] 2025-11-22 17:07:24,691 [wrapper] ==== pilot stdout END ====
[2025-11-22 17:07:24] 2025-11-22 17:07:24,693 [wrapper] ==== wrapper stdout RESUME ====
[2025-11-22 17:07:24] 2025-11-22 17:07:24,694 [wrapper] pilotpid: 26796
[2025-11-22 17:07:24] 2025-11-22 17:07:24,696 [wrapper] Pilot exit status: 0
[2025-11-22 17:07:24] 2025-11-22 17:07:24,701 [wrapper] pandaids: 6893852762
[2025-11-22 17:07:24] 2025-11-22 17:07:24,724 [wrapper] cleanup supervisor_pilot  2596 26797
[2025-11-22 17:07:24] 2025-11-22 17:07:24,725 [wrapper] Test setup, not cleaning
[2025-11-22 17:07:24] 2025-11-22 17:07:24,726 [wrapper] apfmon messages muted
[2025-11-22 17:07:24] 2025-11-22 17:07:24,728 [wrapper] ==== wrapper stdout END ====
[2025-11-22 17:07:24] 2025-11-22 17:07:24,729 [wrapper] ==== wrapper stderr END ====
[2025-11-22 17:07:24]  *** Error codes and diagnostics ***
[2025-11-22 17:07:24]     "exeErrorCode": 65,
[2025-11-22 17:07:24]     "exeErrorDiag": "Non-zero return code from EVNTtoHITS (1); Logfile error in log.EVNTtoHITS: \"Segmentation fault: Event counter: 0; Run: unknown; Evt: unknown; Current algorithm: ISF_Kernel_FullG4; Current Function: unknown\"",
[2025-11-22 17:07:24]     "pilotErrorCode": 1305,
[2025-11-22 17:07:24]     "pilotErrorDiag": "Failed to execute payload:PyJobTransforms.transform.execute  CRITICAL Transform executor raised TransformValidationException: Non-zero return code from EVNTtoHITS (1); Logfile error in log.EVNTtoHITS: \"Segmentation fault: Event counter: 0; Run: unknown; Evt: unknown; Current algorithm",
[2025-11-22 17:07:24]  *** Listing of results directory ***
[2025-11-22 17:07:24] total 405532
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc    576529 Nov 20 12:07 pilot3.tar.gz
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc      5112 Nov 20 12:11 queuedata.json
[2025-11-22 17:07:24] -rwx------ 1 boinc boinc     36292 Nov 20 12:11 runpilot2-wrapper.sh
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc       100 Nov 22 16:17 wrapper_26015_x86_64-pc-linux-gnu
[2025-11-22 17:07:24] -rwxr-xr-x 1 boinc boinc      7986 Nov 22 16:17 run_atlas
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc       105 Nov 22 16:17 job.xml
[2025-11-22 17:07:24] -rw-r--r-- 2 boinc boinc     15847 Nov 22 16:17 start_atlas.sh
[2025-11-22 17:07:24] drwxrwx--x 2 boinc boinc        68 Nov 22 16:17 shared
[2025-11-22 17:07:24] -rw-r--r-- 2 boinc boinc    590104 Nov 22 16:17 input.tar.gz
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc      8919 Nov 22 16:17 init_data.xml
[2025-11-22 17:07:24] -rw-r--r-- 2 boinc boinc 410213964 Nov 22 16:17 EVNT.47493127._000402.pool.root.1
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc         0 Nov 22 16:17 boinc_setup_complete
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc         0 Nov 22 16:17 boinc_lockfile
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc      2786 Nov 22 16:17 pandaJob.out
[2025-11-22 17:07:24] -rw------- 1 boinc boinc    989768 Nov 22 16:18 agis_schedconf.cvmfs.json
[2025-11-22 17:07:24] -rw------- 1 boinc boinc   1526164 Nov 22 16:18 agis_ddmendpoints.agis.ALL.json
[2025-11-22 17:07:24] drwx------ 5 boinc boinc      4096 Nov 22 16:18 pilot3
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc       526 Nov 22 17:04 boinc_task_state.xml
[2025-11-22 17:07:24] -rw------- 1 boinc boinc      1012 Nov 22 17:04 memory_monitor_summary.json
[2025-11-22 17:07:24] -rw------- 1 boinc boinc    103339 Nov 22 17:04 log.47523449._004014.job.log.tgz.1
[2025-11-22 17:07:24] -rw------- 1 boinc boinc        95 Nov 22 17:06 pilot_heartbeat.json
[2025-11-22 17:07:24] -rw------- 1 boinc boinc      9249 Nov 22 17:06 heartbeat.json
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc      8192 Nov 22 17:07 boinc_mmap_file
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc        24 Nov 22 17:07 wrapper_checkpoint.txt
[2025-11-22 17:07:24] -rw------- 1 boinc boinc      4821 Nov 22 17:07 pilotlog.txt
[2025-11-22 17:07:24] -rw------- 1 boinc boinc    465562 Nov 22 17:07 log.47523449._004014.job.log.1
[2025-11-22 17:07:24] -rw------- 1 boinc boinc       186 Nov 22 17:07 output.list
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc       620 Nov 22 17:07 runtime_log
[2025-11-22 17:07:24] -rw------- 1 boinc boinc    593920 Nov 22 17:07 result.tar.gz
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc      8661 Nov 22 17:07 runtime_log.err
[2025-11-22 17:07:24] -rw------- 1 boinc boinc       646 Nov 22 17:07 btaMDmfgIg8nsSi4ap6QjLDmwznN0nGgGQJmNLGKDmujHKDm5fjvfm.diag
[2025-11-22 17:07:24] -rw-r--r-- 1 boinc boinc     22389 Nov 22 17:07 stderr.txt
[2025-11-22 17:07:24] No HITS result produced
[2025-11-22 17:07:24]  *** Contents of shared directory: ***
[2025-11-22 17:07:24] total 401776
[2025-11-22 17:07:24] -rw-r--r-- 2 boinc boinc     15847 Nov 22 16:17 start_atlas.sh
[2025-11-22 17:07:24] -rw-r--r-- 2 boinc boinc    590104 Nov 22 16:17 input.tar.gz
[2025-11-22 17:07:24] -rw-r--r-- 2 boinc boinc 410213964 Nov 22 16:17 ATLAS.root_0
[2025-11-22 17:07:24] -rw------- 1 boinc boinc    593920 Nov 22 17:07 result.tar.gz
17:07:26 (22883): run_atlas exited; CPU time 77.330930
17:07:26 (22883): called boinc_finish(0)

</stderr_txt>
]]>

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