Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
16:27:44 (688659): wrapper (7.7.26015): starting
16:27:44 (688659): wrapper: running run_atlas (--nthreads 4)
[2026-01-09 16:27:44] Arguments: --nthreads 4
[2026-01-09 16:27:44] Threads: 4
[2026-01-09 16:27:44] Checking for CVMFS
[2026-01-09 16:27:44] Probing /cvmfs/atlas.cern.ch... OK
[2026-01-09 16:27:44] Probing /cvmfs/atlas-condb.cern.ch... OK
[2026-01-09 16:27:44] Running cvmfs_config stat atlas.cern.ch
[2026-01-09 16:27:44] 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
[2026-01-09 16:27:44] 2.9.2.0 211398 1706 85768 154948 1 57 36482297 36864001 0 130560 0 1213169 99.990 63179 3194 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2026-01-09 16:27:44] CVMFS is ok
[2026-01-09 16:27:44] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2026-01-09 16:27:44] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2026-01-09 16:27:44] Further information can be found at the LHC@home message board.
[2026-01-09 16:27:44] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2026-01-09 16:27:44] Checking for apptainer binary...
[2026-01-09 16:27:44] Using apptainer found in PATH at /usr/bin/apptainer
[2026-01-09 16:27:44] Running /usr/bin/apptainer --version
[2026-01-09 16:27:44] apptainer version 1.4.1-1.1
[2026-01-09 16:27:44] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2026-01-09 16:27:45] thA381
[2026-01-09 16:27:45] apptainer works
[2026-01-09 16:27:45] Set ATHENA_PROC_NUMBER=4
[2026-01-09 16:27:45] Set ATHENA_CORE_NUMBER=4
[2026-01-09 16:27:45] Starting ATLAS job with PandaID=6963162294
[2026-01-09 16:27:45] 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
[2026-01-09 16:35:07]  *** The last 200 lines of the pilot log: ***
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | queue completed_jobids has 1 job(s)
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | queue messages had 0 job(s) [purged]
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | job 6963162294 has completed (purged errors)
[2026-01-09 16:35:07] 2026-01-09 15:34:35,421 | INFO     | overall cleanup function is called
[2026-01-09 16:35:07] 2026-01-09 15:34:36,428 | INFO     | --- collectZombieJob: --- 10, [699033]
[2026-01-09 16:35:07] 2026-01-09 15:34:36,428 | INFO     | zombie collector waiting for pid 699033
[2026-01-09 16:35:07] 2026-01-09 15:34:36,428 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2026-01-09 16:35:07] 2026-01-09 15:34:36,428 | INFO     | collected zombie processes
[2026-01-09 16:35:07] 2026-01-09 15:34:36,428 | INFO     | will attempt to kill all subprocesses of pid=699033
[2026-01-09 16:35:07] 2026-01-09 15:34:36,473 | INFO     | process IDs to be killed: [699033] (in reverse order)
[2026-01-09 16:35:07] 2026-01-09 15:34:36,507 | WARNING  | found no corresponding commands to process id(s)
[2026-01-09 16:35:07] 2026-01-09 15:34:36,507 | INFO     | Do not look for orphan processes in BOINC jobs
[2026-01-09 16:35:07] 2026-01-09 15:34:36,508 | INFO     | did not find any defunct processes belonging to 699033
[2026-01-09 16:35:07] 2026-01-09 15:34:36,510 | INFO     | did not find any defunct processes belonging to 699033
[2026-01-09 16:35:07] 2026-01-09 15:34:36,510 | INFO     | ready for new job
[2026-01-09 16:35:07] 2026-01-09 15:34:36,510 | INFO     | pilot has finished with previous job - re-establishing logging
[2026-01-09 16:35:07] 2026-01-09 15:34:36,510 | INFO     | ***************************************
[2026-01-09 16:35:07] 2026-01-09 15:34:36,510 | INFO     | ***  PanDA Pilot version 3.11.2.19  ***
[2026-01-09 16:35:07] 2026-01-09 15:34:36,511 | INFO     | ***************************************
[2026-01-09 16:35:07] 2026-01-09 15:34:36,511 | INFO     | 
[2026-01-09 16:35:07] 2026-01-09 15:34:36,511 | INFO     | architecture information:
[2026-01-09 16:35:07] 2026-01-09 15:34:36,511 | INFO     | executing command: cat /etc/os-release
[2026-01-09 16:35:07] 2026-01-09 15:34:36,526 | INFO     | cat /etc/os-release:
[2026-01-09 16:35:07] NAME="CentOS Linux"
[2026-01-09 16:35:07] VERSION="7 (Core)"
[2026-01-09 16:35:07] ID="centos"
[2026-01-09 16:35:07] ID_LIKE="rhel fedora"
[2026-01-09 16:35:07] VERSION_ID="7"
[2026-01-09 16:35:07] PRETTY_NAME="CentOS Linux 7 (Core)"
[2026-01-09 16:35:07] ANSI_COLOR="0;31"
[2026-01-09 16:35:07] CPE_NAME="cpe:/o:centos:centos:7"
[2026-01-09 16:35:07] HOME_URL="https://www.centos.org/"
[2026-01-09 16:35:07] BUG_REPORT_URL="https://bugs.centos.org/"
[2026-01-09 16:35:07] 
[2026-01-09 16:35:07] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2026-01-09 16:35:07] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2026-01-09 16:35:07] REDHAT_SUPPORT_PRODUCT="centos"
[2026-01-09 16:35:07] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2026-01-09 16:35:07] 
[2026-01-09 16:35:07] 2026-01-09 15:34:36,527 | INFO     | ***************************************
[2026-01-09 16:35:07] 2026-01-09 15:34:37,030 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2026-01-09 16:35:07] 2026-01-09 15:34:37,048 | INFO     | sufficient remaining disk space (223219810304 B)
[2026-01-09 16:35:07] 2026-01-09 15:34:37,048 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2026-01-09 16:35:07] 2026-01-09 15:34:37,048 | INFO     | current server update state: UPDATING_FINAL
[2026-01-09 16:35:07] 2026-01-09 15:34:37,048 | INFO     | update_server=False
[2026-01-09 16:35:07] 2026-01-09 15:34:37,048 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2026-01-09 16:35:07] 2026-01-09 15:34:37,048 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2026-01-09 16:35:07] 2026-01-09 15:34:37,289 | INFO     | all data control threads have been joined
[2026-01-09 16:35:07] 2026-01-09 15:34:37,424 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2026-01-09 16:35:07] 2026-01-09 15:34:37,492 | WARNING  | job monitor detected an abort_job request (signal=args.signal)
[2026-01-09 16:35:07] 2026-01-09 15:34:37,493 | WARNING  | cannot recover job monitoring - aborting pilot
[2026-01-09 16:35:07] 2026-01-09 15:34:37,493 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2026-01-09 16:35:07] 2026-01-09 15:34:37,493 | INFO     | will abort loop
[2026-01-09 16:35:07] 2026-01-09 15:34:37,700 | INFO     | all job control threads have been joined
[2026-01-09 16:35:07] 2026-01-09 15:34:37,944 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2026-01-09 16:35:07] 2026-01-09 15:34:38,054 | INFO     | [job] queue monitor thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,054 | INFO     | [job] retrieve thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,167 | INFO     | all payload control threads have been joined
[2026-01-09 16:35:07] 2026-01-09 15:34:38,198 | INFO     | [payload] failed_post thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,295 | INFO     | [data] control thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,491 | INFO     | [job] validate thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,498 | INFO     | [job] job monitor thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,580 | INFO     | [job] create_data_payload thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,683 | INFO     | [payload] validate_pre thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,706 | INFO     | [job] control thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:38,952 | INFO     | [payload] execute_payloads thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:39,173 | INFO     | [payload] control thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:39,205 | INFO     | [data] copytool_in thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:39,264 | INFO     | [payload] validate_post thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:39,430 | INFO     | [payload] run_realtimelog thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:39,950 | INFO     | [data] copytool_out thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:41,431 | INFO     | [data] queue_monitor thread has finished
[2026-01-09 16:35:07] 2026-01-09 15:34:53,116 | INFO     | [monitor] cgroup control has ended
[2026-01-09 16:35:07] 2026-01-09 15:34:53,967 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 140424748963648)>', '<ExcThread(monitor, started 140423863453440)>']
[2026-01-09 16:35:07] 2026-01-09 15:34:58,993 | INFO     | all workflow threads have been joined
[2026-01-09 16:35:07] 2026-01-09 15:34:58,993 | INFO     | end of generic workflow (traces error code: 0)
[2026-01-09 16:35:07] 2026-01-09 15:34:58,994 | INFO     | traces error code: 0
[2026-01-09 16:35:07] 2026-01-09 15:34:58,994 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2026-01-09 16:35:07] 2026-01-09 15:35:06,846 | INFO     | PID=692438 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
[2026-01-09 16:35:07] 2026-01-09 15:35:06,846 | INFO     | found 0 job(s) in 20 queues
[2026-01-09 16:35:07] 2026-01-09 15:35:06,846 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2026-01-09 16:35:07] 2026-01-09 15:35:06,846 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2026-01-09 16:35:07] 2026-01-09 15:35:06,846 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2026-01-09 16:35:07] 2026-01-09 15:35:06,846 | INFO     | [monitor] control thread has ended
[2026-01-09 16:35:07] 2026-01-09 15:35:06,919 [wrapper] ==== pilot stdout END ====
[2026-01-09 16:35:07] 2026-01-09 15:35:06,924 [wrapper] ==== wrapper stdout RESUME ====
[2026-01-09 16:35:07] 2026-01-09 15:35:06,927 [wrapper] pilotpid: 692438
[2026-01-09 16:35:07] 2026-01-09 15:35:06,931 [wrapper] Pilot exit status: 0
[2026-01-09 16:35:07] 2026-01-09 15:35:06,943 [wrapper] pandaids: 6963162294
[2026-01-09 16:35:07] 2026-01-09 15:35:06,965 [wrapper] cleanup supervisor_pilot  692444 692439
[2026-01-09 16:35:07] 2026-01-09 15:35:06,968 [wrapper] Test setup, not cleaning
[2026-01-09 16:35:07] 2026-01-09 15:35:06,972 [wrapper] apfmon messages muted
[2026-01-09 16:35:07] 2026-01-09 15:35:06,976 [wrapper] ==== wrapper stdout END ====
[2026-01-09 16:35:07] 2026-01-09 15:35:06,980 [wrapper] ==== wrapper stderr END ====
[2026-01-09 16:35:07]  *** Error codes and diagnostics ***
[2026-01-09 16:35:07]     "exeErrorCode": 0,
[2026-01-09 16:35:07]     "exeErrorDiag": "",
[2026-01-09 16:35:07]     "pilotErrorCode": 1305,
[2026-01-09 16:35:07]     "pilotErrorDiag": "Failed to execute payload:PyJobTransforms.transform.execute  CRITICAL Transform executor raised TransformValidationException: EVNTtoHITS got a SIGSEGV signal (exit code 139); Possible memory leak: 'pss' slope: 7968.69 KB/s",
[2026-01-09 16:35:07]  *** Listing of results directory ***
[2026-01-09 16:35:07] total 222964
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc    579449 Jan  8 22:44 pilot3.tar.gz
[2026-01-09 16:35:07] -rwx------ 1 boinc boinc     36322 Jan  8 22:49 runpilot2-wrapper.sh
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc      5112 Jan  8 22:51 queuedata.json
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc       100 Jan  9 16:27 wrapper_26015_x86_64-pc-linux-gnu
[2026-01-09 16:35:07] -rwxr-xr-x 1 boinc boinc      7986 Jan  9 16:27 run_atlas
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc       105 Jan  9 16:27 job.xml
[2026-01-09 16:35:07] -rw-r--r-- 2 boinc boinc 223941885 Jan  9 16:27 EVNT.47898824._001292.pool.root.1
[2026-01-09 16:35:07] -rw-r--r-- 2 boinc boinc    592399 Jan  9 16:27 input.tar.gz
[2026-01-09 16:35:07] -rw-r--r-- 2 boinc boinc     15847 Jan  9 16:27 start_atlas.sh
[2026-01-09 16:35:07] drwxrwx--x 2 boinc boinc      4096 Jan  9 16:27 shared
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc         0 Jan  9 16:27 boinc_setup_complete
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc      6376 Jan  9 16:27 init_data.xml
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc         0 Jan  9 16:27 boinc_lockfile
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc      2519 Jan  9 16:27 pandaJob.out
[2026-01-09 16:35:07] -rw------- 1 boinc boinc    989377 Jan  9 16:27 agis_schedconf.cvmfs.json
[2026-01-09 16:35:07] -rw------- 1 boinc boinc   1516240 Jan  9 16:27 agis_ddmendpoints.agis.ALL.json
[2026-01-09 16:35:07] drwx------ 5 boinc boinc      4096 Jan  9 16:27 pilot3
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc       526 Jan  9 16:32 boinc_task_state.xml
[2026-01-09 16:35:07] -rw------- 1 boinc boinc      1011 Jan  9 16:32 memory_monitor_summary.json
[2026-01-09 16:35:07] -rw------- 1 boinc boinc    125868 Jan  9 16:32 log.47898826._033915.job.log.tgz.1
[2026-01-09 16:35:07] -rw------- 1 boinc boinc      8644 Jan  9 16:34 heartbeat.json
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc        24 Jan  9 16:34 wrapper_checkpoint.txt
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc      8192 Jan  9 16:34 boinc_mmap_file
[2026-01-09 16:35:07] -rw------- 1 boinc boinc       746 Jan  9 16:35 pilotlog.txt
[2026-01-09 16:35:07] -rw------- 1 boinc boinc        95 Jan  9 16:35 pilot_heartbeat.json
[2026-01-09 16:35:07] -rw------- 1 boinc boinc    113999 Jan  9 16:35 log.47898826._033915.job.log.1
[2026-01-09 16:35:07] -rw------- 1 boinc boinc       188 Jan  9 16:35 output.list
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc       620 Jan  9 16:35 runtime_log
[2026-01-09 16:35:07] -rw------- 1 boinc boinc    256000 Jan  9 16:35 result.tar.gz
[2026-01-09 16:35:07] -rw------- 1 boinc boinc       650 Jan  9 16:35 xDpMDmy3Cy8nsSi4ap6QjLDmwznN0nGgGQJmNLGKDm2elKDmN32QBn.diag
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc      8744 Jan  9 16:35 runtime_log.err
[2026-01-09 16:35:07] -rw-r--r-- 1 boinc boinc     11861 Jan  9 16:35 stderr.txt
[2026-01-09 16:35:07] No HITS result produced
[2026-01-09 16:35:07]  *** Contents of shared directory: ***
[2026-01-09 16:35:07] total 219548
[2026-01-09 16:35:07] -rw-r--r-- 2 boinc boinc 223941885 Jan  9 16:27 ATLAS.root_0
[2026-01-09 16:35:07] -rw-r--r-- 2 boinc boinc    592399 Jan  9 16:27 input.tar.gz
[2026-01-09 16:35:07] -rw-r--r-- 2 boinc boinc     15847 Jan  9 16:27 start_atlas.sh
[2026-01-09 16:35:07] -rw------- 1 boinc boinc    256000 Jan  9 16:35 result.tar.gz
16:35:08 (688659): run_atlas exited; CPU time 130.662734
16:35:08 (688659): called boinc_finish(0)

</stderr_txt>
]]>

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