Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
10:25:38 (305233): wrapper (7.7.26015): starting
10:25:38 (305233): wrapper: running run_atlas (--nthreads 4)
[2025-11-20 10:25:38] Arguments: --nthreads 4
[2025-11-20 10:25:38] Threads: 4
[2025-11-20 10:25:38] Checking for CVMFS
[2025-11-20 10:25:38] Probing /cvmfs/atlas.cern.ch... OK
[2025-11-20 10:25:38] Probing /cvmfs/atlas-condb.cern.ch... OK
[2025-11-20 10:25:38] Running cvmfs_config stat atlas.cern.ch
[2025-11-20 10:25:38] 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
[2025-11-20 10:25:38] 2.9.2.0 3072 2092 77548 153069 3 81 26477525 36864000 0 130560 0 815605 99.956 191918 6365 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2025-11-20 10:25:38] CVMFS is ok
[2025-11-20 10:25:38] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2025-11-20 10:25:38] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2025-11-20 10:25:38] Further information can be found at the LHC@home message board.
[2025-11-20 10:25:38] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2025-11-20 10:25:38] Checking for apptainer binary...
[2025-11-20 10:25:38] Using apptainer found in PATH at /usr/bin/apptainer
[2025-11-20 10:25:38] Running /usr/bin/apptainer --version
[2025-11-20 10:25:38] apptainer version 1.4.1-1.1
[2025-11-20 10:25:38] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2025-11-20 10:25:38] thA373a
[2025-11-20 10:25:38] apptainer works
[2025-11-20 10:25:38] Set ATHENA_PROC_NUMBER=4
[2025-11-20 10:25:38] Set ATHENA_CORE_NUMBER=4
[2025-11-20 10:25:38] Starting ATLAS job with PandaID=6891585334
[2025-11-20 10:25:38] 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
11:18:17 (2923): wrapper (7.7.26015): starting
11:18:17 (2923): wrapper: running run_atlas (--nthreads 4)
[2025-11-21 11:18:17] Arguments: --nthreads 4
[2025-11-21 11:18:17] Threads: 4
[2025-11-21 11:18:17] This job has been restarted, cleaning up previous attempt
[2025-11-21 11:18:17] Checking for CVMFS
[2025-11-21 11:18:20] Probing /cvmfs/atlas.cern.ch... OK
[2025-11-21 11:18:21] Probing /cvmfs/atlas-condb.cern.ch... OK
[2025-11-21 11:18:21] Running cvmfs_config stat atlas.cern.ch
[2025-11-21 11:18:21] 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
[2025-11-21 11:18:21] 2.9.2.0 3120 0 29160 153121 3 1 26601137 36864000 0 130560 0 0 0.000 1291 4578 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2025-11-21 11:18:21] CVMFS is ok
[2025-11-21 11:18:21] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2025-11-21 11:18:21] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2025-11-21 11:18:21] Further information can be found at the LHC@home message board.
[2025-11-21 11:18:21] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2025-11-21 11:18:21] Checking for apptainer binary...
[2025-11-21 11:18:21] Using apptainer found in PATH at /usr/bin/apptainer
[2025-11-21 11:18:21] Running /usr/bin/apptainer --version
[2025-11-21 11:18:21] apptainer version 1.4.1-1.1
[2025-11-21 11:18:21] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2025-11-21 11:18:21] thA373a
[2025-11-21 11:18:21] apptainer works
[2025-11-21 11:18:21] Set ATHENA_PROC_NUMBER=4
[2025-11-21 11:18:21] Set ATHENA_CORE_NUMBER=4
[2025-11-21 11:18:21] Starting ATLAS job with PandaID=6891585334
[2025-11-21 11:18:21] 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
[2025-11-21 11:23:37]  *** The last 200 lines of the pilot log: ***
[2025-11-21 11:23:37] 2025-11-21 10:23:21,375 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2025-11-21 11:23:37] 2025-11-21 10:23:21,375 | INFO     | queue completed_jobids has 1 job(s)
[2025-11-21 11:23:37] 2025-11-21 10:23:21,375 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2025-11-21 11:23:37] 2025-11-21 10:23:21,375 | INFO     | queue messages had 0 job(s) [purged]
[2025-11-21 11:23:37] 2025-11-21 10:23:21,375 | INFO     | job 6891585334 has completed (purged errors)
[2025-11-21 11:23:37] 2025-11-21 10:23:21,375 | INFO     | overall cleanup function is called
[2025-11-21 11:23:37] 2025-11-21 10:23:22,383 | INFO     | --- collectZombieJob: --- 10, [13863]
[2025-11-21 11:23:37] 2025-11-21 10:23:22,383 | INFO     | zombie collector waiting for pid 13863
[2025-11-21 11:23:37] 2025-11-21 10:23:22,383 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2025-11-21 11:23:37] 2025-11-21 10:23:22,383 | INFO     | collected zombie processes
[2025-11-21 11:23:37] 2025-11-21 10:23:22,383 | INFO     | will attempt to kill all subprocesses of pid=13863
[2025-11-21 11:23:37] 2025-11-21 10:23:22,428 | INFO     | process IDs to be killed: [13863] (in reverse order)
[2025-11-21 11:23:37] 2025-11-21 10:23:22,461 | WARNING  | found no corresponding commands to process id(s)
[2025-11-21 11:23:37] 2025-11-21 10:23:22,461 | INFO     | Do not look for orphan processes in BOINC jobs
[2025-11-21 11:23:37] 2025-11-21 10:23:22,463 | INFO     | did not find any defunct processes belonging to 13863
[2025-11-21 11:23:37] 2025-11-21 10:23:22,464 | INFO     | did not find any defunct processes belonging to 13863
[2025-11-21 11:23:37] 2025-11-21 10:23:22,465 | 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
[2025-11-21 11:23:37] 2025-11-21 10:23:22,465 | INFO     | ready for new job
[2025-11-21 11:23:37] 2025-11-21 10:23:22,465 | INFO     | pilot has finished with previous job - re-establishing logging
[2025-11-21 11:23:37] 2025-11-21 10:23:22,466 | INFO     | ***************************************
[2025-11-21 11:23:37] 2025-11-21 10:23:22,466 | INFO     | ***  PanDA Pilot version 3.11.1.15  ***
[2025-11-21 11:23:37] 2025-11-21 10:23:22,466 | INFO     | ***************************************
[2025-11-21 11:23:37] 2025-11-21 10:23:22,466 | INFO     | 
[2025-11-21 11:23:37] 2025-11-21 10:23:22,466 | INFO     | architecture information:
[2025-11-21 11:23:37] 2025-11-21 10:23:22,466 | INFO     | executing command: cat /etc/os-release
[2025-11-21 11:23:37] 2025-11-21 10:23:22,480 | INFO     | cat /etc/os-release:
[2025-11-21 11:23:37] NAME="CentOS Linux"
[2025-11-21 11:23:37] VERSION="7 (Core)"
[2025-11-21 11:23:37] ID="centos"
[2025-11-21 11:23:37] ID_LIKE="rhel fedora"
[2025-11-21 11:23:37] VERSION_ID="7"
[2025-11-21 11:23:37] PRETTY_NAME="CentOS Linux 7 (Core)"
[2025-11-21 11:23:37] ANSI_COLOR="0;31"
[2025-11-21 11:23:37] CPE_NAME="cpe:/o:centos:centos:7"
[2025-11-21 11:23:37] HOME_URL="https://www.centos.org/"
[2025-11-21 11:23:37] BUG_REPORT_URL="https://bugs.centos.org/"
[2025-11-21 11:23:37] 
[2025-11-21 11:23:37] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2025-11-21 11:23:37] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2025-11-21 11:23:37] REDHAT_SUPPORT_PRODUCT="centos"
[2025-11-21 11:23:37] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2025-11-21 11:23:37] 
[2025-11-21 11:23:37] 2025-11-21 10:23:22,480 | INFO     | ***************************************
[2025-11-21 11:23:37] 2025-11-21 10:23:22,984 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2025-11-21 11:23:37] 2025-11-21 10:23:23,000 | INFO     | sufficient remaining disk space (330758619136 B)
[2025-11-21 11:23:37] 2025-11-21 10:23:23,000 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | INFO     | current server update state: UPDATING_FINAL
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | INFO     | update_server=False
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | WARNING  | aborting monitor loop since graceful_stop has been set (timing out remaining threads)
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | INFO     | found 0 job(s) in 20 queues
[2025-11-21 11:23:37] 2025-11-21 10:23:23,001 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2025-11-21 11:23:37] 2025-11-21 10:23:23,002 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2025-11-21 11:23:37] 2025-11-21 10:23:23,036 | INFO     | all job control threads have been joined
[2025-11-21 11:23:37] 2025-11-21 10:23:23,143 | WARNING  | job monitor detected an abort_job request (signal=args.signal)
[2025-11-21 11:23:37] 2025-11-21 10:23:23,143 | WARNING  | cannot recover job monitoring - aborting pilot
[2025-11-21 11:23:37] 2025-11-21 10:23:23,143 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2025-11-21 11:23:37] 2025-11-21 10:23:23,143 | INFO     | will abort loop
[2025-11-21 11:23:37] 2025-11-21 10:23:23,181 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2025-11-21 11:23:37] 2025-11-21 10:23:23,218 | INFO     | all payload control threads have been joined
[2025-11-21 11:23:37] 2025-11-21 10:23:23,698 | INFO     | all data control threads have been joined
[2025-11-21 11:23:37] 2025-11-21 10:23:24,006 | INFO     | [job] retrieve thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,007 | INFO     | [job] queue monitor thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,039 | INFO     | [job] control thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,039 | INFO     | [payload] validate_pre thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,070 | INFO     | [payload] failed_post thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,149 | INFO     | [job] job monitor thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,224 | INFO     | [payload] control thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,525 | INFO     | [data] copytool_in thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:24,704 | INFO     | [data] control thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:25,085 | INFO     | [payload] execute_payloads thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:25,087 | INFO     | [payload] validate_post thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:25,188 | INFO     | [data] copytool_out thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:25,353 | INFO     | [job] validate thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:25,392 | INFO     | [payload] run_realtimelog thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:25,469 | INFO     | [job] create_data_payload thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:27,008 | INFO     | [data] queue_monitor thread has finished
[2025-11-21 11:23:37] 2025-11-21 10:23:30,903 | INFO     | [monitor] cgroup control has ended
[2025-11-21 11:23:37] 2025-11-21 10:23:32,362 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 139780859807552)>', '<ExcThread(monitor, started 139779769362176)>']
[2025-11-21 11:23:37] 2025-11-21 10:23:33,052 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2025-11-21 11:23:37] 2025-11-21 10:23:33,052 | INFO     | [monitor] control thread has ended
[2025-11-21 11:23:37] 2025-11-21 10:23:37,388 | INFO     | all workflow threads have been joined
[2025-11-21 11:23:37] 2025-11-21 10:23:37,388 | INFO     | end of generic workflow (traces error code: 0)
[2025-11-21 11:23:37] 2025-11-21 10:23:37,388 | INFO     | traces error code: 0
[2025-11-21 11:23:37] 2025-11-21 10:23:37,388 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2025-11-21 11:23:37] 2025-11-21 10:23:37,462 [wrapper] ==== pilot stdout END ====
[2025-11-21 11:23:37] 2025-11-21 10:23:37,467 [wrapper] ==== wrapper stdout RESUME ====
[2025-11-21 11:23:37] 2025-11-21 10:23:37,471 [wrapper] pilotpid: 7268
[2025-11-21 11:23:37] 2025-11-21 10:23:37,475 [wrapper] Pilot exit status: 0
[2025-11-21 11:23:37] 2025-11-21 10:23:37,486 [wrapper] pandaids: 6891585334 6891585334
[2025-11-21 11:23:37] 2025-11-21 10:23:37,507 [wrapper] cleanup supervisor_pilot    7274 7269
[2025-11-21 11:23:37] 2025-11-21 10:23:37,511 [wrapper] Test setup, not cleaning
[2025-11-21 11:23:37] 2025-11-21 10:23:37,515 [wrapper] apfmon messages muted
[2025-11-21 11:23:37] 2025-11-21 10:23:37,519 [wrapper] ==== wrapper stdout END ====
[2025-11-21 11:23:37] 2025-11-21 10:23:37,523 [wrapper] ==== wrapper stderr END ====
[2025-11-21 11:23:37]  *** Error codes and diagnostics ***
[2025-11-21 11:23:37]     "exeErrorCode": 65,
[2025-11-21 11:23:37]     "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\"",
[2025-11-21 11:23:37]     "pilotErrorCode": 1305,
[2025-11-21 11:23:37]     "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",
[2025-11-21 11:23:37]  *** Listing of results directory ***
[2025-11-21 11:23:37] total 804264
[2025-11-21 11:23:37] drwx------ 5 boinc boinc      4096 Nov  5 18:16 pilot3
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc    576529 Nov 18 18:24 pilot3.tar.gz
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc      5112 Nov 18 18:25 queuedata.json
[2025-11-21 11:23:37] -rwx------ 1 boinc boinc     36292 Nov 18 18:26 runpilot2-wrapper.sh
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc       100 Nov 20 10:25 wrapper_26015_x86_64-pc-linux-gnu
[2025-11-21 11:23:37] -rwxr-xr-x 1 boinc boinc      7986 Nov 20 10:25 run_atlas
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc       105 Nov 20 10:25 job.xml
[2025-11-21 11:23:37] -rw-r--r-- 3 boinc boinc 409649453 Nov 20 10:25 EVNT.47493065._000480.pool.root.1
[2025-11-21 11:23:37] -rw-r--r-- 3 boinc boinc 409649453 Nov 20 10:25 ATLAS.root_0
[2025-11-21 11:23:37] drwxrwx--x 2 boinc boinc      4096 Nov 20 10:25 shared
[2025-11-21 11:23:37] -rw-r--r-- 2 boinc boinc    590098 Nov 20 10:25 input.tar.gz
[2025-11-21 11:23:37] -rw-r--r-- 2 boinc boinc     15120 Nov 20 10:25 start_atlas.sh
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc         0 Nov 20 10:25 boinc_setup_complete
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc         0 Nov 20 10:25 boinc_lockfile
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc      6221 Nov 21 11:18 init_data.xml
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc      2773 Nov 21 11:18 pandaJob.out
[2025-11-21 11:23:37] -rw------- 1 boinc boinc    989817 Nov 21 11:18 agis_schedconf.cvmfs.json
[2025-11-21 11:23:37] -rw------- 1 boinc boinc   1526164 Nov 21 11:18 agis_ddmendpoints.agis.ALL.json
[2025-11-21 11:23:37] -rw------- 1 boinc boinc      1005 Nov 21 11:21 memory_monitor_summary.json
[2025-11-21 11:23:37] -rw------- 1 boinc boinc     73366 Nov 21 11:21 log.47493068._004797.job.log.tgz.1
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc       531 Nov 21 11:21 boinc_task_state.xml
[2025-11-21 11:23:37] -rw------- 1 boinc boinc        97 Nov 21 11:22 pilot_heartbeat.json
[2025-11-21 11:23:37] -rw------- 1 boinc boinc      9120 Nov 21 11:23 heartbeat.json
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc      8192 Nov 21 11:23 boinc_mmap_file
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc        28 Nov 21 11:23 wrapper_checkpoint.txt
[2025-11-21 11:23:37] -rw------- 1 boinc boinc      4742 Nov 21 11:23 pilotlog.txt
[2025-11-21 11:23:37] -rw------- 1 boinc boinc    105955 Nov 21 11:23 log.47493068._004797.job.log.1
[2025-11-21 11:23:37] -rw------- 1 boinc boinc       186 Nov 21 11:23 output.list
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc       620 Nov 21 11:23 runtime_log
[2025-11-21 11:23:37] -rw------- 1 boinc boinc    194560 Nov 21 11:23 result.tar.gz
[2025-11-21 11:23:37] -rw------- 1 boinc boinc       778 Nov 21 11:23 yHJLDm3def8nsSi4ap6QjLDmwznN0nGgGQJmNLGKDms2FKDmTmDx4n.diag
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc      8714 Nov 21 11:23 runtime_log.err
[2025-11-21 11:23:37] -rw-r--r-- 1 boinc boinc     14176 Nov 21 11:23 stderr.txt
[2025-11-21 11:23:37] No HITS result produced
[2025-11-21 11:23:37]  *** Contents of shared directory: ***
[2025-11-21 11:23:37] total 400844
[2025-11-21 11:23:37] -rw-r--r-- 3 boinc boinc 409649453 Nov 20 10:25 ATLAS.root_0
[2025-11-21 11:23:37] -rw-r--r-- 2 boinc boinc    590098 Nov 20 10:25 input.tar.gz
[2025-11-21 11:23:37] -rw-r--r-- 2 boinc boinc     15120 Nov 20 10:25 start_atlas.sh
[2025-11-21 11:23:37] -rw------- 1 boinc boinc    194560 Nov 21 11:23 result.tar.gz
11:23:38 (2923): run_atlas exited; CPU time 36.351896
11:23:38 (2923): called boinc_finish(0)

</stderr_txt>
]]>

©2025 CERN