Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
13:00:47 (1190630): wrapper (7.7.26015): starting
13:00:47 (1190630): wrapper: running run_atlas (--nthreads 4)
[2025-12-04 13:00:47] Arguments: --nthreads 4
[2025-12-04 13:00:47] Threads: 4
[2025-12-04 13:00:47] Checking for CVMFS
[2025-12-04 13:00:47] Probing /cvmfs/atlas.cern.ch... OK
[2025-12-04 13:00:47] Probing /cvmfs/atlas-condb.cern.ch... OK
[2025-12-04 13:00:47] Running cvmfs_config stat atlas.cern.ch
[2025-12-04 13:00:47] 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
[2025-12-04 13:00:47] 2.9.2.0 3303 7791 103252 153635 1 81 29531513 36864000 453 130560 0 3451453 99.984 277121 572 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2025-12-04 13:00:47] CVMFS is ok
[2025-12-04 13:00:47] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2025-12-04 13:00:47] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2025-12-04 13:00:47] Further information can be found at the LHC@home message board.
[2025-12-04 13:00:47] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2025-12-04 13:00:47] Checking for apptainer binary...
[2025-12-04 13:00:47] Using apptainer found in PATH at /usr/bin/apptainer
[2025-12-04 13:00:47] Running /usr/bin/apptainer --version
[2025-12-04 13:00:48] apptainer version 1.4.1-1.1
[2025-12-04 13:00:48] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2025-12-04 13:00:48] thA373a
[2025-12-04 13:00:48] apptainer works
[2025-12-04 13:00:48] Set ATHENA_PROC_NUMBER=4
[2025-12-04 13:00:48] Set ATHENA_CORE_NUMBER=4
[2025-12-04 13:00:48] Starting ATLAS job with PandaID=6905026026
[2025-12-04 13:00:48] Running command: /usr/bin/apptainer exec -B /cvmfs,/local/data/boinc/slots/0 /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 sh start_atlas.sh
[2025-12-04 18:46:47]  *** The last 200 lines of the pilot log: ***
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue finished_jobs had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue finished_payloads had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue finished_data_in had 1 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue finished_data_out had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue failed_jobs had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue failed_payloads had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue completed_jobids has 1 job(s)
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | queue messages had 0 job(s) [purged]
[2025-12-04 18:46:47] 2025-12-04 17:46:15,594 | INFO     | job 6905026026 has completed (purged errors)
[2025-12-04 18:46:47] 2025-12-04 17:46:15,595 | INFO     | overall cleanup function is called
[2025-12-04 18:46:47] 2025-12-04 17:46:16,604 | INFO     | --- collectZombieJob: --- 10, [1201649]
[2025-12-04 18:46:47] 2025-12-04 17:46:16,605 | INFO     | zombie collector waiting for pid 1201649
[2025-12-04 18:46:47] 2025-12-04 17:46:16,605 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2025-12-04 18:46:47] 2025-12-04 17:46:16,605 | INFO     | collected zombie processes
[2025-12-04 18:46:47] 2025-12-04 17:46:16,605 | INFO     | will attempt to kill all subprocesses of pid=1201649
[2025-12-04 18:46:47] 2025-12-04 17:46:16,655 | INFO     | process IDs to be killed: [1201649] (in reverse order)
[2025-12-04 18:46:47] 2025-12-04 17:46:16,691 | WARNING  | found no corresponding commands to process id(s)
[2025-12-04 18:46:47] 2025-12-04 17:46:16,691 | INFO     | Do not look for orphan processes in BOINC jobs
[2025-12-04 18:46:47] 2025-12-04 17:46:16,693 | INFO     | did not find any defunct processes belonging to 1201649
[2025-12-04 18:46:47] 2025-12-04 17:46:16,695 | INFO     | did not find any defunct processes belonging to 1201649
[2025-12-04 18:46:47] 2025-12-04 17:46:16,695 | 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
[2025-12-04 18:46:47] 2025-12-04 17:46:16,695 | INFO     | ready for new job
[2025-12-04 18:46:47] 2025-12-04 17:46:16,695 | INFO     | pilot has finished with previous job - re-establishing logging
[2025-12-04 18:46:47] 2025-12-04 17:46:16,697 | INFO     | ***************************************
[2025-12-04 18:46:47] 2025-12-04 17:46:16,697 | INFO     | ***  PanDA Pilot version 3.11.1.15  ***
[2025-12-04 18:46:47] 2025-12-04 17:46:16,697 | INFO     | ***************************************
[2025-12-04 18:46:47] 2025-12-04 17:46:16,697 | INFO     | 
[2025-12-04 18:46:47] 2025-12-04 17:46:16,697 | INFO     | architecture information:
[2025-12-04 18:46:47] 2025-12-04 17:46:16,698 | INFO     | executing command: cat /etc/os-release
[2025-12-04 18:46:47] 2025-12-04 17:46:16,712 | INFO     | cat /etc/os-release:
[2025-12-04 18:46:47] NAME="CentOS Linux"
[2025-12-04 18:46:47] VERSION="7 (Core)"
[2025-12-04 18:46:47] ID="centos"
[2025-12-04 18:46:47] ID_LIKE="rhel fedora"
[2025-12-04 18:46:47] VERSION_ID="7"
[2025-12-04 18:46:47] PRETTY_NAME="CentOS Linux 7 (Core)"
[2025-12-04 18:46:47] ANSI_COLOR="0;31"
[2025-12-04 18:46:47] CPE_NAME="cpe:/o:centos:centos:7"
[2025-12-04 18:46:47] HOME_URL="https://www.centos.org/"
[2025-12-04 18:46:47] BUG_REPORT_URL="https://bugs.centos.org/"
[2025-12-04 18:46:47] 
[2025-12-04 18:46:47] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2025-12-04 18:46:47] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2025-12-04 18:46:47] REDHAT_SUPPORT_PRODUCT="centos"
[2025-12-04 18:46:47] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2025-12-04 18:46:47] 
[2025-12-04 18:46:47] 2025-12-04 17:46:16,712 | INFO     | ***************************************
[2025-12-04 18:46:47] 2025-12-04 17:46:17,215 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | INFO     | sufficient remaining disk space (331216846848 B)
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | INFO     | current server update state: UPDATING_FINAL
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | INFO     | update_server=False
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | INFO     | aborting loop
[2025-12-04 18:46:47] 2025-12-04 17:46:17,234 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2025-12-04 18:46:47] 2025-12-04 17:46:17,385 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2025-12-04 18:46:47] 2025-12-04 17:46:17,405 | INFO     | all data control threads have been joined
[2025-12-04 18:46:47] 2025-12-04 17:46:17,511 | INFO     | all job control threads have been joined
[2025-12-04 18:46:47] 2025-12-04 17:46:18,240 | INFO     | [job] retrieve thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,240 | INFO     | [job] job monitor thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,240 | INFO     | [job] queue monitor thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,411 | INFO     | [data] control thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,424 | INFO     | [payload] validate_post thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,482 | INFO     | [data] copytool_in thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,516 | INFO     | [job] control thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:18,569 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2025-12-04 18:46:47] 2025-12-04 17:46:18,666 | INFO     | all payload control threads have been joined
[2025-12-04 18:46:47] 2025-12-04 17:46:19,184 | INFO     | [job] create_data_payload thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,189 | INFO     | [job] validate thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,229 | INFO     | [payload] execute_payloads thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,391 | INFO     | [data] copytool_out thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,418 | INFO     | [payload] validate_pre thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,556 | INFO     | [payload] run_realtimelog thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,611 | INFO     | [payload] failed_post thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:19,671 | INFO     | [payload] control thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:21,396 | INFO     | [monitor] cgroup control has ended
[2025-12-04 18:46:47] 2025-12-04 17:46:22,576 | INFO     | [data] queue_monitor thread has finished
[2025-12-04 18:46:47] 2025-12-04 17:46:24,644 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 139625342379840)>', '<ExcThread(monitor, started 139624395556608)>']
[2025-12-04 18:46:47] 2025-12-04 17:46:29,669 | INFO     | all workflow threads have been joined
[2025-12-04 18:46:47] 2025-12-04 17:46:29,670 | INFO     | end of generic workflow (traces error code: 0)
[2025-12-04 18:46:47] 2025-12-04 17:46:29,670 | INFO     | traces error code: 0
[2025-12-04 18:46:47] 2025-12-04 17:46:29,670 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2025-12-04 18:46:47] 2025-12-04 17:46:46,936 | INFO     | PID=1194416 has CPU usage=0.8% 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 P
[2025-12-04 18:46:47] 2025-12-04 17:46:46,936 | INFO     | found 0 job(s) in 20 queues
[2025-12-04 18:46:47] 2025-12-04 17:46:46,936 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2025-12-04 18:46:47] 2025-12-04 17:46:46,936 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2025-12-04 18:46:47] 2025-12-04 17:46:46,936 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2025-12-04 18:46:47] 2025-12-04 17:46:46,936 | INFO     | [monitor] control thread has ended
[2025-12-04 18:46:47] 2025-12-04 17:46:47,013 [wrapper] ==== pilot stdout END ====
[2025-12-04 18:46:47] 2025-12-04 17:46:47,017 [wrapper] ==== wrapper stdout RESUME ====
[2025-12-04 18:46:47] 2025-12-04 17:46:47,021 [wrapper] pilotpid: 1194416
[2025-12-04 18:46:47] 2025-12-04 17:46:47,025 [wrapper] Pilot exit status: 0
[2025-12-04 18:46:47] 2025-12-04 17:46:47,037 [wrapper] pandaids: 6905026026
[2025-12-04 18:46:47] 2025-12-04 17:46:47,062 [wrapper] cleanup supervisor_pilot 1248307 1194417
[2025-12-04 18:46:47] 2025-12-04 17:46:47,066 [wrapper] Test setup, not cleaning
[2025-12-04 18:46:47] 2025-12-04 17:46:47,070 [wrapper] apfmon messages muted
[2025-12-04 18:46:47] 2025-12-04 17:46:47,073 [wrapper] ==== wrapper stdout END ====
[2025-12-04 18:46:47] 2025-12-04 17:46:47,077 [wrapper] ==== wrapper stderr END ====
[2025-12-04 18:46:47]  *** Error codes and diagnostics ***
[2025-12-04 18:46:47]     "exeErrorCode": 65,
[2025-12-04 18:46:47]     "exeErrorDiag": "Non-zero return code from EVNTtoHITS (65); Logfile error in log.EVNTtoHITS: \"Segmentation fault: Event counter: 254; Run: 284500; Evt: 1168999; Current algorithm: ISF_Kernel_FullG4; Current Function: unknown\"",
[2025-12-04 18:46:47]     "pilotErrorCode": 1305,
[2025-12-04 18:46:47]     "pilotErrorDiag": "Failed to execute payload:PyJobTransforms.transform.execute  CRITICAL Transform executor raised TransformValidationException: Non-zero return code from EVNTtoHITS (65); Logfile error in log.EVNTtoHITS: \"Segmentation fault: Event counter: 254; Run: 284500; Evt: 1168999; Current algorit",
[2025-12-04 18:46:47]  *** Listing of results directory ***
[2025-12-04 18:46:47] total 381992
[2025-12-04 18:46:47] -rwx------ 1 boinc boinc     36292 Nov 30 01:20 runpilot2-wrapper.sh
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc    576529 Nov 30 01:24 pilot3.tar.gz
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc      5112 Nov 30 01:24 queuedata.json
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc       100 Dec  4 13:00 wrapper_26015_x86_64-pc-linux-gnu
[2025-12-04 18:46:47] -rwxr-xr-x 1 boinc boinc      7986 Dec  4 13:00 run_atlas
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc       105 Dec  4 13:00 job.xml
[2025-12-04 18:46:47] -rw-r--r-- 2 boinc boinc 379119502 Dec  4 13:00 EVNT.47528871._000045.pool.root.1
[2025-12-04 18:46:47] -rw-r--r-- 2 boinc boinc    590142 Dec  4 13:00 input.tar.gz
[2025-12-04 18:46:47] -rw-r--r-- 2 boinc boinc     15847 Dec  4 13:00 start_atlas.sh
[2025-12-04 18:46:47] drwxrwx--x 2 boinc boinc      4096 Dec  4 13:00 shared
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc         0 Dec  4 13:00 boinc_setup_complete
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc      6379 Dec  4 13:00 init_data.xml
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc         0 Dec  4 13:00 boinc_lockfile
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc      2879 Dec  4 13:00 pandaJob.out
[2025-12-04 18:46:47] -rw------- 1 boinc boinc    985572 Dec  4 13:00 agis_schedconf.cvmfs.json
[2025-12-04 18:46:47] drwx------ 5 boinc boinc      4096 Dec  4 13:00 pilot3
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc       531 Dec  4 18:43 boinc_task_state.xml
[2025-12-04 18:46:47] -rw------- 1 boinc boinc      1023 Dec  4 18:44 memory_monitor_summary.json
[2025-12-04 18:46:47] -rw------- 1 boinc boinc   1125171 Dec  4 18:44 log.47538113._002132.job.log.tgz.1
[2025-12-04 18:46:47] -rw------- 1 boinc boinc   1516240 Dec  4 18:44 agis_ddmendpoints.agis.ALL.json
[2025-12-04 18:46:47] -rw------- 1 boinc boinc        95 Dec  4 18:45 pilot_heartbeat.json
[2025-12-04 18:46:47] -rw------- 1 boinc boinc     28519 Dec  4 18:46 heartbeat.json
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc        28 Dec  4 18:46 wrapper_checkpoint.txt
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc      8192 Dec  4 18:46 boinc_mmap_file
[2025-12-04 18:46:47] -rw------- 1 boinc boinc       747 Dec  4 18:46 pilotlog.txt
[2025-12-04 18:46:47] -rw------- 1 boinc boinc   2931914 Dec  4 18:46 log.47538113._002132.job.log.1
[2025-12-04 18:46:47] -rw------- 1 boinc boinc       186 Dec  4 18:46 output.list
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc       620 Dec  4 18:46 runtime_log
[2025-12-04 18:46:47] -rw------- 1 boinc boinc   4096000 Dec  4 18:46 result.tar.gz
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc      8751 Dec  4 18:46 runtime_log.err
[2025-12-04 18:46:47] -rw------- 1 boinc boinc       666 Dec  4 18:46 9d5MDmvLkj8n9Rq4apOajLDm4fhM0noT9bVo0NGKDm8CMKDmGXlmkn.diag
[2025-12-04 18:46:47] -rw-r--r-- 1 boinc boinc     12758 Dec  4 18:46 stderr.txt
[2025-12-04 18:46:47] No HITS result produced
[2025-12-04 18:46:47]  *** Contents of shared directory: ***
[2025-12-04 18:46:47] total 374836
[2025-12-04 18:46:47] -rw-r--r-- 2 boinc boinc 379119502 Dec  4 13:00 ATLAS.root_0
[2025-12-04 18:46:47] -rw-r--r-- 2 boinc boinc    590142 Dec  4 13:00 input.tar.gz
[2025-12-04 18:46:47] -rw-r--r-- 2 boinc boinc     15847 Dec  4 13:00 start_atlas.sh
[2025-12-04 18:46:47] -rw------- 1 boinc boinc   4096000 Dec  4 18:46 result.tar.gz
18:46:48 (1190630): run_atlas exited; CPU time 80920.550141
18:46:48 (1190630): called boinc_finish(0)

</stderr_txt>
]]>

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