Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
08:33:00 (71935): wrapper (7.7.26015): starting
08:33:00 (71935): wrapper: running run_atlas (--nthreads 4)
[2026-03-06 08:33:00] Arguments: --nthreads 4
[2026-03-06 08:33:00] Threads: 4
[2026-03-06 08:33:00] Checking for CVMFS
[2026-03-06 08:33:00] Probing /cvmfs/atlas.cern.ch... OK
[2026-03-06 08:33:00] Probing /cvmfs/atlas-condb.cern.ch... OK
[2026-03-06 08:33:00] Running cvmfs_config stat atlas.cern.ch
[2026-03-06 08:33:00] 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
[2026-03-06 08:33:00] 2.9.2.0 3116 227 67460 156947 0 188 33958694 36864000 0 130560 0 201045 99.990 7030 3835 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2026-03-06 08:33:00] CVMFS is ok
[2026-03-06 08:33:00] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2026-03-06 08:33:00] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2026-03-06 08:33:00] Further information can be found at the LHC@home message board.
[2026-03-06 08:33:00] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2026-03-06 08:33:00] Checking for apptainer binary...
[2026-03-06 08:33:00] Using apptainer found in PATH at /usr/bin/apptainer
[2026-03-06 08:33:00] Running /usr/bin/apptainer --version
[2026-03-06 08:33:00] apptainer version 1.4.1-1.1
[2026-03-06 08:33:00] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2026-03-06 08:33:00] thA373a
[2026-03-06 08:33:00] apptainer works
[2026-03-06 08:33:00] Set ATHENA_PROC_NUMBER=4
[2026-03-06 08:33:00] Set ATHENA_CORE_NUMBER=4
[2026-03-06 08:33:00] Starting ATLAS job with PandaID=7042416101
[2026-03-06 08:33:00] 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
[2026-03-06 08:40:19]  *** The last 200 lines of the pilot log: ***
[2026-03-06 08:40:19] 2026-03-06 07:40:07,300 | INFO     | queue validated_payloads had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,300 | INFO     | queue monitored_payloads had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,300 | INFO     | queue finished_jobs had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue finished_payloads had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue finished_data_in had 1 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue finished_data_out had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue failed_jobs had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue failed_payloads had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue completed_jobids has 1 job(s)
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | queue messages had 0 job(s) [purged]
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | job 7042416101 has completed (purged errors)
[2026-03-06 08:40:19] 2026-03-06 07:40:07,301 | INFO     | overall cleanup function is called
[2026-03-06 08:40:19] 2026-03-06 07:40:08,308 | INFO     | --- collectZombieJob: --- 10, [80240]
[2026-03-06 08:40:19] 2026-03-06 07:40:08,308 | INFO     | zombie collector waiting for pid 80240
[2026-03-06 08:40:19] 2026-03-06 07:40:08,308 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2026-03-06 08:40:19] 2026-03-06 07:40:08,308 | INFO     | collected zombie processes
[2026-03-06 08:40:19] 2026-03-06 07:40:08,308 | INFO     | will attempt to kill all subprocesses of pid=80240
[2026-03-06 08:40:19] 2026-03-06 07:40:08,353 | INFO     | process IDs to be killed: [80240] (in reverse order)
[2026-03-06 08:40:19] 2026-03-06 07:40:08,390 | WARNING  | found no corresponding commands to process id(s)
[2026-03-06 08:40:19] 2026-03-06 07:40:08,390 | INFO     | Do not look for orphan processes in BOINC jobs
[2026-03-06 08:40:19] 2026-03-06 07:40:08,392 | INFO     | did not find any defunct processes belonging to 80240
[2026-03-06 08:40:19] 2026-03-06 07:40:08,393 | INFO     | did not find any defunct processes belonging to 80240
[2026-03-06 08:40:19] 2026-03-06 07:40:08,393 | INFO     | ready for new job
[2026-03-06 08:40:19] 2026-03-06 07:40:08,393 | INFO     | pilot has finished with previous job - re-establishing logging
[2026-03-06 08:40:19] 2026-03-06 07:40:08,394 | INFO     | **************************************
[2026-03-06 08:40:19] 2026-03-06 07:40:08,394 | INFO     | ***  PanDA Pilot version 3.11.4.1  ***
[2026-03-06 08:40:19] 2026-03-06 07:40:08,394 | INFO     | **************************************
[2026-03-06 08:40:19] 2026-03-06 07:40:08,394 | INFO     | 
[2026-03-06 08:40:19] 2026-03-06 07:40:08,395 | INFO     | architecture information:
[2026-03-06 08:40:19] 2026-03-06 07:40:08,395 | INFO     | executing command: cat /etc/os-release
[2026-03-06 08:40:19] 2026-03-06 07:40:08,411 | INFO     | cat /etc/os-release:
[2026-03-06 08:40:19] NAME="CentOS Linux"
[2026-03-06 08:40:19] VERSION="7 (Core)"
[2026-03-06 08:40:19] ID="centos"
[2026-03-06 08:40:19] ID_LIKE="rhel fedora"
[2026-03-06 08:40:19] VERSION_ID="7"
[2026-03-06 08:40:19] PRETTY_NAME="CentOS Linux 7 (Core)"
[2026-03-06 08:40:19] ANSI_COLOR="0;31"
[2026-03-06 08:40:19] CPE_NAME="cpe:/o:centos:centos:7"
[2026-03-06 08:40:19] HOME_URL="https://www.centos.org/"
[2026-03-06 08:40:19] BUG_REPORT_URL="https://bugs.centos.org/"
[2026-03-06 08:40:19] 
[2026-03-06 08:40:19] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2026-03-06 08:40:19] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2026-03-06 08:40:19] REDHAT_SUPPORT_PRODUCT="centos"
[2026-03-06 08:40:19] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2026-03-06 08:40:19] 
[2026-03-06 08:40:19] 2026-03-06 07:40:08,411 | INFO     | **************************************
[2026-03-06 08:40:19] 2026-03-06 07:40:08,914 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2026-03-06 08:40:19] 2026-03-06 07:40:08,934 | INFO     | sufficient remaining disk space (324859330560 B)
[2026-03-06 08:40:19] 2026-03-06 07:40:08,934 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2026-03-06 08:40:19] 2026-03-06 07:40:08,934 | INFO     | current server update state: UPDATING_FINAL
[2026-03-06 08:40:19] 2026-03-06 07:40:08,934 | INFO     | update_server=False
[2026-03-06 08:40:19] 2026-03-06 07:40:08,934 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | WARNING  | aborting monitor loop since graceful_stop has been set (timing out remaining threads)
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | INFO     | found 0 job(s) in 20 queues
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2026-03-06 08:40:19] 2026-03-06 07:40:08,935 | INFO     | aborting loop
[2026-03-06 08:40:19] 2026-03-06 07:40:08,944 | INFO     | all job control threads have been joined
[2026-03-06 08:40:19] 2026-03-06 07:40:09,518 | INFO     | all payload control threads have been joined
[2026-03-06 08:40:19] 2026-03-06 07:40:09,553 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2026-03-06 08:40:19] 2026-03-06 07:40:09,796 | INFO     | all data control threads have been joined
[2026-03-06 08:40:19] 2026-03-06 07:40:09,940 | INFO     | [job] retrieve thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:09,941 | INFO     | [job] queue monitor thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:09,941 | INFO     | [job] job monitor thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:09,950 | INFO     | [job] control thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:09,970 | INFO     | [payload] validate_pre thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:10,100 | INFO     | [data] copytool_in thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:10,149 | INFO     | [payload] run_realtimelog thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:10,211 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2026-03-06 08:40:19] 2026-03-06 07:40:10,523 | INFO     | [payload] control thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:10,802 | INFO     | [data] control thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:10,992 | INFO     | [payload] execute_payloads thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:11,080 | INFO     | [payload] failed_post thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:11,291 | INFO     | [job] validate thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:11,379 | INFO     | [payload] validate_post thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:11,395 | INFO     | [job] create_data_payload thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:11,560 | INFO     | [data] copytool_out thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:12,281 | INFO     | [monitor] cgroup control has ended
[2026-03-06 08:40:19] 2026-03-06 07:40:14,218 | INFO     | [data] queue_monitor thread has finished
[2026-03-06 08:40:19] 2026-03-06 07:40:14,606 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 140245962610496)>', '<ExcThread(monitor, started 140244993152768)>']
[2026-03-06 08:40:19] 2026-03-06 07:40:14,967 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2026-03-06 08:40:19] 2026-03-06 07:40:14,968 | INFO     | [monitor] control thread has ended
[2026-03-06 08:40:19] 2026-03-06 07:40:19,631 | INFO     | all workflow threads have been joined
[2026-03-06 08:40:19] 2026-03-06 07:40:19,632 | INFO     | end of generic workflow (traces error code: 0)
[2026-03-06 08:40:19] 2026-03-06 07:40:19,632 | INFO     | traces error code: 0
[2026-03-06 08:40:19] 2026-03-06 07:40:19,632 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2026-03-06 08:40:19] 2026-03-06 07:40:19,714 [wrapper] ==== pilot stdout END ====
[2026-03-06 08:40:19] 2026-03-06 07:40:19,718 [wrapper] ==== wrapper stdout RESUME ====
[2026-03-06 08:40:19] 2026-03-06 07:40:19,722 [wrapper] pilotpid: 75738
[2026-03-06 08:40:19] 2026-03-06 07:40:19,726 [wrapper] Pilot exit status: 0
[2026-03-06 08:40:19] 2026-03-06 07:40:19,738 [wrapper] pandaids: 7042416101
[2026-03-06 08:40:19] 2026-03-06 07:40:19,760 [wrapper] cleanup supervisor_pilot   75744 75739
[2026-03-06 08:40:19] 2026-03-06 07:40:19,764 [wrapper] Test setup, not cleaning
[2026-03-06 08:40:19] 2026-03-06 07:40:19,768 [wrapper] apfmon messages muted
[2026-03-06 08:40:19] 2026-03-06 07:40:19,772 [wrapper] ==== wrapper stdout END ====
[2026-03-06 08:40:19] 2026-03-06 07:40:19,776 [wrapper] ==== wrapper stderr END ====
[2026-03-06 08:40:19]  *** Error codes and diagnostics ***
[2026-03-06 08:40:19]     "exeErrorCode": 65,
[2026-03-06 08:40:19]     "exeErrorDiag": "EVNTtoHITS got a SIGHUP signal (exit code 129); Logfile error in log.EVNTtoHITS: \"CoreDumpSvc   FATAL Caught fatal signal. Printing details to stdout.\"; Possible memory leak: 'pss' slope: 7939.51 KB/s",
[2026-03-06 08:40:19]     "pilotErrorCode": 1305,
[2026-03-06 08:40:19]     "pilotErrorDiag": "Failed to execute payload:PyJobTransforms.transform.execute  CRITICAL Transform executor raised TransformValidationException: EVNTtoHITS got a SIGHUP signal (exit code 129); Logfile error in log.EVNTtoHITS: \"CoreDumpSvc   FATAL Caught fatal signal. Printing details to stdout.\"; Possib",
[2026-03-06 08:40:19]  *** Listing of results directory ***
[2026-03-06 08:40:19] total 274460
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc      5111 Mar  5 22:50 queuedata.json
[2026-03-06 08:40:19] -rwx------ 1 boinc boinc     36322 Mar  5 22:51 runpilot2-wrapper.sh
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc    584627 Mar  5 22:52 pilot3.tar.gz
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc       100 Mar  6 08:33 wrapper_26015_x86_64-pc-linux-gnu
[2026-03-06 08:40:19] -rwxr-xr-x 1 boinc boinc      7986 Mar  6 08:33 run_atlas
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc       105 Mar  6 08:33 job.xml
[2026-03-06 08:40:19] -rw-r--r-- 2 boinc boinc 276644978 Mar  6 08:33 EVNT.48958551._000032.pool.root.1
[2026-03-06 08:40:19] -rw-r--r-- 2 boinc boinc    597941 Mar  6 08:33 input.tar.gz
[2026-03-06 08:40:19] -rw-r--r-- 2 boinc boinc     15845 Mar  6 08:33 start_atlas.sh
[2026-03-06 08:40:19] drwxrwx--x 2 boinc boinc      4096 Mar  6 08:33 shared
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc         0 Mar  6 08:33 boinc_setup_complete
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc      6377 Mar  6 08:33 init_data.xml
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc         0 Mar  6 08:33 boinc_lockfile
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc      2515 Mar  6 08:33 pandaJob.out
[2026-03-06 08:40:19] -rw------- 1 boinc boinc    998544 Mar  6 08:33 agis_schedconf.cvmfs.json
[2026-03-06 08:40:19] -rw------- 1 boinc boinc   1521291 Mar  6 08:33 agis_ddmendpoints.agis.ALL.json
[2026-03-06 08:40:19] -rw------- 1 boinc boinc       422 Mar  6 08:33 workernode_map.json
[2026-03-06 08:40:19] drwx------ 5 boinc boinc      4096 Mar  6 08:33 pilot3
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc       526 Mar  6 08:38 boinc_task_state.xml
[2026-03-06 08:40:19] -rw------- 1 boinc boinc       999 Mar  6 08:38 memory_monitor_summary.json
[2026-03-06 08:40:19] -rw------- 1 boinc boinc    126596 Mar  6 08:38 log.48958554._000747.job.log.tgz.1
[2026-03-06 08:40:19] -rw------- 1 boinc boinc        95 Mar  6 08:39 pilot_heartbeat.json
[2026-03-06 08:40:19] -rw------- 1 boinc boinc      8078 Mar  6 08:40 heartbeat.json
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc        24 Mar  6 08:40 wrapper_checkpoint.txt
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc      8192 Mar  6 08:40 boinc_mmap_file
[2026-03-06 08:40:19] -rw------- 1 boinc boinc      4552 Mar  6 08:40 pilotlog.txt
[2026-03-06 08:40:19] -rw------- 1 boinc boinc    113240 Mar  6 08:40 log.48958554._000747.job.log.1
[2026-03-06 08:40:19] -rw------- 1 boinc boinc       188 Mar  6 08:40 output.list
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc       620 Mar  6 08:40 runtime_log
[2026-03-06 08:40:19] -rw------- 1 boinc boinc    256000 Mar  6 08:40 result.tar.gz
[2026-03-06 08:40:19] -rw------- 1 boinc boinc       651 Mar  6 08:40 sRbMDmtmVI9n9Rq4apOajLDm4fhM0noT9bVooX4SDm14MLDmSNmLfm.diag
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc      8748 Mar  6 08:40 runtime_log.err
[2026-03-06 08:40:19] -rw-r--r-- 1 boinc boinc     12633 Mar  6 08:40 stderr.txt
[2026-03-06 08:40:19] No HITS result produced
[2026-03-06 08:40:19]  *** Contents of shared directory: ***
[2026-03-06 08:40:19] total 271020
[2026-03-06 08:40:19] -rw-r--r-- 2 boinc boinc 276644978 Mar  6 08:33 ATLAS.root_0
[2026-03-06 08:40:19] -rw-r--r-- 2 boinc boinc    597941 Mar  6 08:33 input.tar.gz
[2026-03-06 08:40:19] -rw-r--r-- 2 boinc boinc     15845 Mar  6 08:33 start_atlas.sh
[2026-03-06 08:40:19] -rw------- 1 boinc boinc    256000 Mar  6 08:40 result.tar.gz
08:40:21 (71935): run_atlas exited; CPU time 144.861481
08:40:21 (71935): called boinc_finish(0)

</stderr_txt>
]]>

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