Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
00:38:16 (72719): wrapper (7.7.26015): starting
00:38:16 (72719): wrapper: running run_atlas (--nthreads 4)
[2025-12-21 00:38:16] Arguments: --nthreads 4
[2025-12-21 00:38:16] Threads: 4
[2025-12-21 00:38:16] Checking for CVMFS
[2025-12-21 00:38:16] Probing /cvmfs/atlas.cern.ch... OK
[2025-12-21 00:38:17] Probing /cvmfs/atlas-condb.cern.ch... OK
[2025-12-21 00:38:17] Running cvmfs_config stat atlas.cern.ch
[2025-12-21 00:38:17] 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
[2025-12-21 00:38:17] 2.9.2.0 3073 166 63296 154242 1 56 29807511 36864000 0 130560 0 185228 99.980 11069 4054 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2025-12-21 00:38:17] CVMFS is ok
[2025-12-21 00:38:17] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2025-12-21 00:38:17] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2025-12-21 00:38:17] Further information can be found at the LHC@home message board.
[2025-12-21 00:38:17] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2025-12-21 00:38:17] Checking for apptainer binary...
[2025-12-21 00:38:17] Using apptainer found in PATH at /usr/bin/apptainer
[2025-12-21 00:38:17] Running /usr/bin/apptainer --version
[2025-12-21 00:38:17] apptainer version 1.4.1-1.1
[2025-12-21 00:38:17] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2025-12-21 00:38:17] thA373a
[2025-12-21 00:38:17] apptainer works
[2025-12-21 00:38:17] Set ATHENA_PROC_NUMBER=4
[2025-12-21 00:38:17] Set ATHENA_CORE_NUMBER=4
[2025-12-21 00:38:17] Starting ATLAS job with PandaID=6937808595
[2025-12-21 00:38:17] 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
[2025-12-21 09:30:11]  *** The last 200 lines of the pilot log: ***
[2025-12-21 09:30:11] 2025-12-21 08:29:16,791 | INFO     | executing command: ls -lF /local/data/boinc/slots/0
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue jobs had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue payloads had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue data_in had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue data_out had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue current_data_in had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue validated_jobs had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue validated_payloads had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue monitored_payloads had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue finished_jobs had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue finished_payloads had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue finished_data_in had 1 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue finished_data_out had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue failed_jobs had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue failed_payloads had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,812 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,813 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,813 | INFO     | queue completed_jobids has 1 job(s)
[2025-12-21 09:30:11] 2025-12-21 08:29:16,813 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,813 | INFO     | queue messages had 0 job(s) [purged]
[2025-12-21 09:30:11] 2025-12-21 08:29:16,813 | INFO     | job 6937808595 has completed (purged errors)
[2025-12-21 09:30:11] 2025-12-21 08:29:16,813 | INFO     | overall cleanup function is called
[2025-12-21 09:30:11] 2025-12-21 08:29:17,822 | INFO     | --- collectZombieJob: --- 10, [83095]
[2025-12-21 09:30:11] 2025-12-21 08:29:17,822 | INFO     | zombie collector waiting for pid 83095
[2025-12-21 09:30:11] 2025-12-21 08:29:17,822 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2025-12-21 09:30:11] 2025-12-21 08:29:17,822 | INFO     | collected zombie processes
[2025-12-21 09:30:11] 2025-12-21 08:29:17,822 | INFO     | will attempt to kill all subprocesses of pid=83095
[2025-12-21 09:30:11] 2025-12-21 08:29:17,867 | INFO     | process IDs to be killed: [83095] (in reverse order)
[2025-12-21 09:30:11] 2025-12-21 08:29:17,901 | WARNING  | found no corresponding commands to process id(s)
[2025-12-21 09:30:11] 2025-12-21 08:29:17,901 | INFO     | Do not look for orphan processes in BOINC jobs
[2025-12-21 09:30:11] 2025-12-21 08:29:17,903 | INFO     | did not find any defunct processes belonging to 83095
[2025-12-21 09:30:11] 2025-12-21 08:29:17,904 | INFO     | did not find any defunct processes belonging to 83095
[2025-12-21 09:30:11] 2025-12-21 08:29:17,904 | INFO     | ready for new job
[2025-12-21 09:30:11] 2025-12-21 08:29:17,904 | INFO     | pilot has finished with previous job - re-establishing logging
[2025-12-21 09:30:11] 2025-12-21 08:29:17,906 | INFO     | ***************************************
[2025-12-21 09:30:11] 2025-12-21 08:29:17,906 | INFO     | ***  PanDA Pilot version 3.11.2.19  ***
[2025-12-21 09:30:11] 2025-12-21 08:29:17,906 | INFO     | ***************************************
[2025-12-21 09:30:11] 2025-12-21 08:29:17,906 | INFO     | 
[2025-12-21 09:30:11] 2025-12-21 08:29:17,906 | INFO     | architecture information:
[2025-12-21 09:30:11] 2025-12-21 08:29:17,907 | INFO     | executing command: cat /etc/os-release
[2025-12-21 09:30:11] 2025-12-21 08:29:17,921 | INFO     | cat /etc/os-release:
[2025-12-21 09:30:11] NAME="CentOS Linux"
[2025-12-21 09:30:11] VERSION="7 (Core)"
[2025-12-21 09:30:11] ID="centos"
[2025-12-21 09:30:11] ID_LIKE="rhel fedora"
[2025-12-21 09:30:11] VERSION_ID="7"
[2025-12-21 09:30:11] PRETTY_NAME="CentOS Linux 7 (Core)"
[2025-12-21 09:30:11] ANSI_COLOR="0;31"
[2025-12-21 09:30:11] CPE_NAME="cpe:/o:centos:centos:7"
[2025-12-21 09:30:11] HOME_URL="https://www.centos.org/"
[2025-12-21 09:30:11] BUG_REPORT_URL="https://bugs.centos.org/"
[2025-12-21 09:30:11] 
[2025-12-21 09:30:11] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2025-12-21 09:30:11] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2025-12-21 09:30:11] REDHAT_SUPPORT_PRODUCT="centos"
[2025-12-21 09:30:11] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2025-12-21 09:30:11] 
[2025-12-21 09:30:11] 2025-12-21 08:29:17,921 | INFO     | ***************************************
[2025-12-21 09:30:11] 2025-12-21 08:29:18,423 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2025-12-21 09:30:11] 2025-12-21 08:29:18,441 | INFO     | sufficient remaining disk space (331077386240 B)
[2025-12-21 09:30:11] 2025-12-21 08:29:18,441 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2025-12-21 09:30:11] 2025-12-21 08:29:18,442 | INFO     | current server update state: UPDATING_FINAL
[2025-12-21 09:30:11] 2025-12-21 08:29:18,442 | INFO     | update_server=False
[2025-12-21 09:30:11] 2025-12-21 08:29:18,442 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2025-12-21 09:30:11] 2025-12-21 08:29:18,442 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2025-12-21 09:30:11] 2025-12-21 08:29:18,442 | INFO     | aborting loop
[2025-12-21 09:30:11] 2025-12-21 08:29:18,442 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2025-12-21 09:30:11] 2025-12-21 08:29:18,808 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2025-12-21 09:30:11] 2025-12-21 08:29:19,152 | INFO     | all payload control threads have been joined
[2025-12-21 09:30:11] 2025-12-21 08:29:19,422 | INFO     | all data control threads have been joined
[2025-12-21 09:30:11] 2025-12-21 08:29:19,447 | INFO     | [job] retrieve thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:19,448 | INFO     | [job] job monitor thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:19,448 | INFO     | [job] queue monitor thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:19,475 | INFO     | all job control threads have been joined
[2025-12-21 09:30:11] 2025-12-21 08:29:19,720 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2025-12-21 09:30:11] 2025-12-21 08:29:19,877 | INFO     | [payload] run_realtimelog thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:19,915 | INFO     | [payload] failed_post thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,058 | INFO     | [data] copytool_in thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,157 | INFO     | [payload] control thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,427 | INFO     | [data] control thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,481 | INFO     | [job] control thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,705 | INFO     | [job] validate thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,814 | INFO     | [data] copytool_out thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,842 | INFO     | [job] create_data_payload thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,842 | INFO     | [payload] validate_pre thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,892 | INFO     | [payload] validate_post thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:20,944 | INFO     | [payload] execute_payloads thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:23,727 | INFO     | [data] queue_monitor thread has finished
[2025-12-21 09:30:11] 2025-12-21 08:29:48,782 | INFO     | PID=76507 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 PR 
[2025-12-21 09:30:11] 2025-12-21 08:29:48,782 | INFO     | found 0 job(s) in 20 queues
[2025-12-21 09:30:11] 2025-12-21 08:29:48,782 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2025-12-21 09:30:11] 2025-12-21 08:29:48,782 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2025-12-21 09:30:11] 2025-12-21 08:30:05,251 | INFO     | [monitor] cgroup control has ended
[2025-12-21 09:30:11] 2025-12-21 08:30:05,848 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 140440970733376)>', '<ExcThread(monitor, started 140439592105728)>']
[2025-12-21 09:30:11] 2025-12-21 08:30:05,871 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2025-12-21 09:30:11] 2025-12-21 08:30:05,871 | INFO     | [monitor] control thread has ended
[2025-12-21 09:30:11] 2025-12-21 08:30:10,873 | INFO     | all workflow threads have been joined
[2025-12-21 09:30:11] 2025-12-21 08:30:10,874 | INFO     | end of generic workflow (traces error code: 0)
[2025-12-21 09:30:11] 2025-12-21 08:30:10,874 | INFO     | traces error code: 0
[2025-12-21 09:30:11] 2025-12-21 08:30:10,874 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2025-12-21 09:30:11] 2025-12-21 08:30:10,953 [wrapper] ==== pilot stdout END ====
[2025-12-21 09:30:11] 2025-12-21 08:30:10,957 [wrapper] ==== wrapper stdout RESUME ====
[2025-12-21 09:30:11] 2025-12-21 08:30:10,961 [wrapper] pilotpid: 76507
[2025-12-21 09:30:11] 2025-12-21 08:30:10,965 [wrapper] Pilot exit status: 0
[2025-12-21 09:30:11] 2025-12-21 08:30:10,976 [wrapper] pandaids: 6937808595
[2025-12-21 09:30:11] 2025-12-21 08:30:10,999 [wrapper] cleanup supervisor_pilot  138693 76508
[2025-12-21 09:30:11] 2025-12-21 08:30:11,003 [wrapper] Test setup, not cleaning
[2025-12-21 09:30:11] 2025-12-21 08:30:11,007 [wrapper] apfmon messages muted
[2025-12-21 09:30:11] 2025-12-21 08:30:11,011 [wrapper] ==== wrapper stdout END ====
[2025-12-21 09:30:11] 2025-12-21 08:30:11,014 [wrapper] ==== wrapper stderr END ====
[2025-12-21 09:30:11]  *** Error codes and diagnostics ***
[2025-12-21 09:30:11]     "exeErrorCode": 65,
[2025-12-21 09:30:11]     "exeErrorDiag": "Non-zero return code from EVNTtoHITS (65); Logfile error in log.EVNTtoHITS: \"AthMpEvtLoopMgr     ERROR Failure in waiting or sub-process finished abnormally\"",
[2025-12-21 09:30:11]     "pilotErrorCode": 1305,
[2025-12-21 09:30:11]     "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: \"AthMpEvtLoopMgr     ERROR Failure in waiting or sub-process finished abnormally\"",
[2025-12-21 09:30:11]  *** Listing of results directory ***
[2025-12-21 09:30:11] total 418916
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc    579449 Dec 20 06:05 pilot3.tar.gz
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc      5112 Dec 20 06:05 queuedata.json
[2025-12-21 09:30:11] -rwx------ 1 boinc boinc     36322 Dec 20 06:05 runpilot2-wrapper.sh
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc       100 Dec 21 00:38 wrapper_26015_x86_64-pc-linux-gnu
[2025-12-21 09:30:11] -rwxr-xr-x 1 boinc boinc      7986 Dec 21 00:38 run_atlas
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc       105 Dec 21 00:38 job.xml
[2025-12-21 09:30:11] -rw-r--r-- 2 boinc boinc 413939256 Dec 21 00:38 EVNT.47961014._000035.pool.root.1
[2025-12-21 09:30:11] -rw-r--r-- 2 boinc boinc    592598 Dec 21 00:38 input.tar.gz
[2025-12-21 09:30:11] -rw-r--r-- 2 boinc boinc     15847 Dec 21 00:38 start_atlas.sh
[2025-12-21 09:30:11] drwxrwx--x 2 boinc boinc      4096 Dec 21 00:38 shared
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc         0 Dec 21 00:38 boinc_setup_complete
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc      6377 Dec 21 00:38 init_data.xml
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc         0 Dec 21 00:38 boinc_lockfile
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc      2877 Dec 21 00:38 pandaJob.out
[2025-12-21 09:30:11] -rw------- 1 boinc boinc    988154 Dec 21 00:38 agis_schedconf.cvmfs.json
[2025-12-21 09:30:11] drwx------ 5 boinc boinc      4096 Dec 21 00:38 pilot3
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc       533 Dec 21 09:25 boinc_task_state.xml
[2025-12-21 09:30:11] -rw------- 1 boinc boinc      1025 Dec 21 09:27 memory_monitor_summary.json
[2025-12-21 09:30:11] -rw------- 1 boinc boinc   1090638 Dec 21 09:27 log.47961022._000345.job.log.tgz.1
[2025-12-21 09:30:11] -rw------- 1 boinc boinc   1516240 Dec 21 09:27 agis_ddmendpoints.agis.ALL.json
[2025-12-21 09:30:11] -rw------- 1 boinc boinc        95 Dec 21 09:29 pilot_heartbeat.json
[2025-12-21 09:30:11] -rw------- 1 boinc boinc      8854 Dec 21 09:29 heartbeat.json
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc      8192 Dec 21 09:30 boinc_mmap_file
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc        29 Dec 21 09:30 wrapper_checkpoint.txt
[2025-12-21 09:30:11] -rw------- 1 boinc boinc      4750 Dec 21 09:30 pilotlog.txt
[2025-12-21 09:30:11] -rw------- 1 boinc boinc   4471039 Dec 21 09:30 log.47961022._000345.job.log.1
[2025-12-21 09:30:11] -rw------- 1 boinc boinc       186 Dec 21 09:30 output.list
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc       620 Dec 21 09:30 runtime_log
[2025-12-21 09:30:11] -rw------- 1 boinc boinc   5580800 Dec 21 09:30 result.tar.gz
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc      8751 Dec 21 09:30 runtime_log.err
[2025-12-21 09:30:11] -rw------- 1 boinc boinc       666 Dec 21 09:30 4XMLDmFL4q8nsSi4ap6QjLDmwznN0nGgGQJmNLGKDmxJhKDmHaUWum.diag
[2025-12-21 09:30:11] -rw-r--r-- 1 boinc boinc     13365 Dec 21 09:30 stderr.txt
[2025-12-21 09:30:11] No HITS result produced
[2025-12-21 09:30:11]  *** Contents of shared directory: ***
[2025-12-21 09:30:11] total 410292
[2025-12-21 09:30:11] -rw-r--r-- 2 boinc boinc 413939256 Dec 21 00:38 ATLAS.root_0
[2025-12-21 09:30:11] -rw-r--r-- 2 boinc boinc    592598 Dec 21 00:38 input.tar.gz
[2025-12-21 09:30:11] -rw-r--r-- 2 boinc boinc     15847 Dec 21 00:38 start_atlas.sh
[2025-12-21 09:30:11] -rw------- 1 boinc boinc   5580800 Dec 21 09:30 result.tar.gz
09:30:12 (72719): run_atlas exited; CPU time 94204.555658
09:30:12 (72719): called boinc_finish(0)

</stderr_txt>
]]>

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