Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
08:23:56 (203577): wrapper (7.7.26015): starting
08:23:56 (203577): wrapper: running run_atlas (--nthreads 4)
[2025-10-16 08:23:56] Arguments: --nthreads 4
[2025-10-16 08:23:56] Threads: 4
[2025-10-16 08:23:56] Checking for CVMFS
[2025-10-16 08:23:57] Probing /cvmfs/atlas.cern.ch... OK
[2025-10-16 08:23:57] Probing /cvmfs/atlas-condb.cern.ch... OK
[2025-10-16 08:23:57] Running cvmfs_config stat atlas.cern.ch
[2025-10-16 08:23:57] 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
[2025-10-16 08:23:57] 2.9.2.0 85452 247 63860 151762 0 56 22795391 36864000 0 130560 0 309113 99.988 12073 1447 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2025-10-16 08:23:57] CVMFS is ok
[2025-10-16 08:23:57] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2025-10-16 08:23:57] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2025-10-16 08:23:57] Further information can be found at the LHC@home message board.
[2025-10-16 08:23:57] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2025-10-16 08:23:57] Checking for apptainer binary...
[2025-10-16 08:23:57] Using apptainer found in PATH at /usr/bin/apptainer
[2025-10-16 08:23:57] Running /usr/bin/apptainer --version
[2025-10-16 08:23:57] apptainer version 1.4.1-1.1
[2025-10-16 08:23:57] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2025-10-16 08:23:57] thA373a
[2025-10-16 08:23:57] apptainer works
[2025-10-16 08:23:57] Set ATHENA_PROC_NUMBER=4
[2025-10-16 08:23:57] Set ATHENA_CORE_NUMBER=4
[2025-10-16 08:23:57] Starting ATLAS job with PandaID=6846773859
[2025-10-16 08:23:57] 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
[2025-10-16 08:31:11]  *** The last 200 lines of the pilot log: ***
[2025-10-16 08:31:11] 2025-10-16 06:30:35,815 | INFO     | executing command: ls -lF /local/data/boinc/slots/0
[2025-10-16 08:31:11] 2025-10-16 06:30:35,834 | INFO     | queue jobs had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue payloads had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue data_in had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue data_out had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue current_data_in had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue validated_jobs had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue validated_payloads had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue monitored_payloads had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue finished_jobs had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue finished_payloads had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue finished_data_in had 1 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue finished_data_out had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue failed_jobs had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue failed_payloads had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue completed_jobids has 1 job(s)
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | queue messages had 0 job(s) [purged]
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | job 6846773859 has completed (purged errors)
[2025-10-16 08:31:11] 2025-10-16 06:30:35,835 | INFO     | overall cleanup function is called
[2025-10-16 08:31:11] 2025-10-16 06:30:36,842 | INFO     | --- collectZombieJob: --- 10, [213941]
[2025-10-16 08:31:11] 2025-10-16 06:30:36,842 | INFO     | zombie collector waiting for pid 213941
[2025-10-16 08:31:11] 2025-10-16 06:30:36,842 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2025-10-16 08:31:11] 2025-10-16 06:30:36,842 | INFO     | collected zombie processes
[2025-10-16 08:31:11] 2025-10-16 06:30:36,842 | INFO     | will attempt to kill all subprocesses of pid=213941
[2025-10-16 08:31:11] 2025-10-16 06:30:36,894 | INFO     | process IDs to be killed: [213941] (in reverse order)
[2025-10-16 08:31:11] 2025-10-16 06:30:36,927 | WARNING  | found no corresponding commands to process id(s)
[2025-10-16 08:31:11] 2025-10-16 06:30:36,927 | INFO     | Do not look for orphan processes in BOINC jobs
[2025-10-16 08:31:11] 2025-10-16 06:30:36,930 | INFO     | did not find any defunct processes belonging to 213941
[2025-10-16 08:31:11] 2025-10-16 06:30:36,931 | INFO     | did not find any defunct processes belonging to 213941
[2025-10-16 08:31:11] 2025-10-16 06:30:36,931 | INFO     | ready for new job
[2025-10-16 08:31:11] 2025-10-16 06:30:36,932 | INFO     | pilot has finished with previous job - re-establishing logging
[2025-10-16 08:31:11] 2025-10-16 06:30:36,932 | INFO     | ***************************************
[2025-10-16 08:31:11] 2025-10-16 06:30:36,932 | INFO     | ***  PanDA Pilot version 3.11.0.29  ***
[2025-10-16 08:31:11] 2025-10-16 06:30:36,932 | INFO     | ***************************************
[2025-10-16 08:31:11] 2025-10-16 06:30:36,932 | INFO     | 
[2025-10-16 08:31:11] 2025-10-16 06:30:36,933 | INFO     | architecture information:
[2025-10-16 08:31:11] 2025-10-16 06:30:36,933 | INFO     | executing command: cat /etc/os-release
[2025-10-16 08:31:11] 2025-10-16 06:30:36,947 | INFO     | cat /etc/os-release:
[2025-10-16 08:31:11] NAME="CentOS Linux"
[2025-10-16 08:31:11] VERSION="7 (Core)"
[2025-10-16 08:31:11] ID="centos"
[2025-10-16 08:31:11] ID_LIKE="rhel fedora"
[2025-10-16 08:31:11] VERSION_ID="7"
[2025-10-16 08:31:11] PRETTY_NAME="CentOS Linux 7 (Core)"
[2025-10-16 08:31:11] ANSI_COLOR="0;31"
[2025-10-16 08:31:11] CPE_NAME="cpe:/o:centos:centos:7"
[2025-10-16 08:31:11] HOME_URL="https://www.centos.org/"
[2025-10-16 08:31:11] BUG_REPORT_URL="https://bugs.centos.org/"
[2025-10-16 08:31:11] 
[2025-10-16 08:31:11] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2025-10-16 08:31:11] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2025-10-16 08:31:11] REDHAT_SUPPORT_PRODUCT="centos"
[2025-10-16 08:31:11] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2025-10-16 08:31:11] 
[2025-10-16 08:31:11] 2025-10-16 06:30:36,947 | INFO     | ***************************************
[2025-10-16 08:31:11] 2025-10-16 06:30:37,450 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2025-10-16 08:31:11] 2025-10-16 06:30:37,466 | INFO     | sufficient remaining disk space (338006376448 B)
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | INFO     | current server update state: UPDATING_FINAL
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | INFO     | update_server=False
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | WARNING  | aborting monitor loop since graceful_stop has been set (timing out remaining threads)
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | INFO     | found 0 job(s) in 20 queues
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2025-10-16 08:31:11] 2025-10-16 06:30:37,467 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2025-10-16 08:31:11] 2025-10-16 06:30:37,535 | INFO     | all job control threads have been joined
[2025-10-16 08:31:11] 2025-10-16 06:30:37,781 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2025-10-16 08:31:11] 2025-10-16 06:30:37,781 | INFO     | aborting loop
[2025-10-16 08:31:11] 2025-10-16 06:30:37,937 | INFO     | all payload control threads have been joined
[2025-10-16 08:31:11] 2025-10-16 06:30:37,979 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2025-10-16 08:31:11] 2025-10-16 06:30:38,034 | INFO     | all data control threads have been joined
[2025-10-16 08:31:11] 2025-10-16 06:30:38,473 | INFO     | [job] retrieve thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,473 | INFO     | [job] queue monitor thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,491 | INFO     | [job] create_data_payload thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,540 | INFO     | [job] control thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,556 | INFO     | [payload] validate_pre thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,787 | INFO     | [job] job monitor thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,799 | INFO     | [payload] execute_payloads thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,799 | INFO     | [data] copytool_in thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:38,942 | INFO     | [payload] control thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:39,040 | INFO     | [data] control thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:39,088 | INFO     | [payload] failed_post thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:39,867 | INFO     | [job] validate thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:39,926 | INFO     | [payload] validate_post thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:39,955 | INFO     | [payload] run_realtimelog thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:39,985 | INFO     | [data] copytool_out thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:30:40,323 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2025-10-16 08:31:11] 2025-10-16 06:30:44,329 | INFO     | [data] queue_monitor thread has finished
[2025-10-16 08:31:11] 2025-10-16 06:31:04,894 | INFO     | [monitor] cgroup control has ended
[2025-10-16 08:31:11] 2025-10-16 06:31:06,648 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 140319260485440)>', '<ExcThread(monitor, started 140318309603072)>']
[2025-10-16 08:31:11] 2025-10-16 06:31:07,625 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2025-10-16 08:31:11] 2025-10-16 06:31:07,625 | INFO     | [monitor] control thread has ended
[2025-10-16 08:31:11] 2025-10-16 06:31:11,674 | INFO     | all workflow threads have been joined
[2025-10-16 08:31:11] 2025-10-16 06:31:11,674 | INFO     | end of generic workflow (traces error code: 0)
[2025-10-16 08:31:11] 2025-10-16 06:31:11,675 | INFO     | traces error code: 0
[2025-10-16 08:31:11] 2025-10-16 06:31:11,675 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2025-10-16 08:31:11] 2025-10-16 06:31:11,751 [wrapper] ==== pilot stdout END ====
[2025-10-16 08:31:11] 2025-10-16 06:31:11,754 [wrapper] ==== wrapper stdout RESUME ====
[2025-10-16 08:31:11] 2025-10-16 06:31:11,758 [wrapper] pilotpid: 207376
[2025-10-16 08:31:11] 2025-10-16 06:31:11,762 [wrapper] Pilot exit status: 0
[2025-10-16 08:31:11] 2025-10-16 06:31:11,774 [wrapper] pandaids: 6846773859
[2025-10-16 08:31:11] 2025-10-16 06:31:11,796 [wrapper] cleanup supervisor_pilot  207382 207377
[2025-10-16 08:31:11] 2025-10-16 06:31:11,800 [wrapper] Test setup, not cleaning
[2025-10-16 08:31:11] 2025-10-16 06:31:11,804 [wrapper] apfmon messages muted
[2025-10-16 08:31:11] 2025-10-16 06:31:11,807 [wrapper] ==== wrapper stdout END ====
[2025-10-16 08:31:11] 2025-10-16 06:31:11,811 [wrapper] ==== wrapper stderr END ====
[2025-10-16 08:31:11]  *** Error codes and diagnostics ***
[2025-10-16 08:31:11]     "exeErrorCode": 65,
[2025-10-16 08:31:11]     "exeErrorDiag": "EVNTtoHITS got a SIGILL signal (exit code 132); Logfile error in log.EVNTtoHITS: \"CoreDumpSvc   FATAL Caught fatal signal. Printing details to stdout.\"; Possible memory leak: 'pss' slope: 8308.45 KB/s",
[2025-10-16 08:31:11]     "pilotErrorCode": 1305,
[2025-10-16 08:31:11]     "pilotErrorDiag": "Failed to execute payload:PyJobTransforms.transform.execute  CRITICAL Transform executor raised TransformValidationException: EVNTtoHITS got a SIGILL signal (exit code 132); Logfile error in log.EVNTtoHITS: \"CoreDumpSvc   FATAL Caught fatal signal. Printing details to stdout.\"; Possib",
[2025-10-16 08:31:11]  *** Listing of results directory ***
[2025-10-16 08:31:11] total 228828
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc    557409 Oct 16 01:33 pilot3.tar.gz
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc      5112 Oct 16 02:05 queuedata.json
[2025-10-16 08:31:11] -rwx------ 1 boinc boinc     36292 Oct 16 02:08 runpilot2-wrapper.sh
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc       100 Oct 16 08:23 wrapper_26015_x86_64-pc-linux-gnu
[2025-10-16 08:31:11] -rwxr-xr-x 1 boinc boinc      7986 Oct 16 08:23 run_atlas
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc       105 Oct 16 08:23 job.xml
[2025-10-16 08:31:11] -rw-r--r-- 2 boinc boinc 229936670 Oct 16 08:23 EVNT.46771634._000257.pool.root.1
[2025-10-16 08:31:11] drwxrwx--x 2 boinc boinc      4096 Oct 16 08:23 shared
[2025-10-16 08:31:11] -rw-r--r-- 2 boinc boinc    569670 Oct 16 08:23 input.tar.gz
[2025-10-16 08:31:11] -rw-r--r-- 2 boinc boinc     15120 Oct 16 08:23 start_atlas.sh
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc         0 Oct 16 08:23 boinc_setup_complete
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc      6376 Oct 16 08:23 init_data.xml
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc         0 Oct 16 08:23 boinc_lockfile
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc      2553 Oct 16 08:23 pandaJob.out
[2025-10-16 08:31:11] -rw------- 1 boinc boinc    973556 Oct 16 08:24 agis_schedconf.cvmfs.json
[2025-10-16 08:31:11] -rw------- 1 boinc boinc   1560740 Oct 16 08:24 agis_ddmendpoints.agis.ALL.json
[2025-10-16 08:31:11] drwx------ 5 boinc boinc      4096 Oct 16 08:24 pilot3
[2025-10-16 08:31:11] -rw------- 1 boinc boinc      1008 Oct 16 08:28 memory_monitor_summary.json
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc       527 Oct 16 08:28 boinc_task_state.xml
[2025-10-16 08:31:11] -rw------- 1 boinc boinc    131507 Oct 16 08:28 log.46771637._003894.job.log.tgz.1
[2025-10-16 08:31:11] -rw------- 1 boinc boinc        95 Oct 16 08:30 pilot_heartbeat.json
[2025-10-16 08:31:11] -rw------- 1 boinc boinc      9864 Oct 16 08:30 heartbeat.json
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc      8192 Oct 16 08:30 boinc_mmap_file
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc        24 Oct 16 08:30 wrapper_checkpoint.txt
[2025-10-16 08:31:11] -rw------- 1 boinc boinc      4556 Oct 16 08:31 pilotlog.txt
[2025-10-16 08:31:11] -rw------- 1 boinc boinc    112708 Oct 16 08:31 log.46771637._003894.job.log.1
[2025-10-16 08:31:11] -rw------- 1 boinc boinc       188 Oct 16 08:31 output.list
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc       620 Oct 16 08:31 runtime_log
[2025-10-16 08:31:11] -rw------- 1 boinc boinc    266240 Oct 16 08:31 result.tar.gz
[2025-10-16 08:31:11] -rw------- 1 boinc boinc       651 Oct 16 08:31 vXWMDmKjQT8n9Rq4apOajLDm4fhM0noT9bVof3QYDmR0WMDm0bCw0m.diag
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc      8629 Oct 16 08:31 runtime_log.err
[2025-10-16 08:31:11] -rw-r--r-- 1 boinc boinc     13343 Oct 16 08:31 stderr.txt
[2025-10-16 08:31:11] No HITS result produced
[2025-10-16 08:31:11]  *** Contents of shared directory: ***
[2025-10-16 08:31:11] total 225388
[2025-10-16 08:31:11] -rw-r--r-- 2 boinc boinc 229936670 Oct 16 08:23 ATLAS.root_0
[2025-10-16 08:31:11] -rw-r--r-- 2 boinc boinc    569670 Oct 16 08:23 input.tar.gz
[2025-10-16 08:31:11] -rw-r--r-- 2 boinc boinc     15120 Oct 16 08:23 start_atlas.sh
[2025-10-16 08:31:11] -rw------- 1 boinc boinc    266240 Oct 16 08:31 result.tar.gz
08:31:13 (203577): run_atlas exited; CPU time 133.195112
08:31:13 (203577): called boinc_finish(0)

</stderr_txt>
]]>

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