Stderr output

<core_client_version>8.2.2</core_client_version>
<![CDATA[
<stderr_txt>
05:45:02 (1341268): wrapper (7.7.26015): starting
05:45:02 (1341268): wrapper: running run_atlas (--nthreads 4)
[2026-03-03 05:45:02] Arguments: --nthreads 4
[2026-03-03 05:45:02] Threads: 4
[2026-03-03 05:45:02] Checking for CVMFS
[2026-03-03 05:45:02] Probing /cvmfs/atlas.cern.ch... OK
[2026-03-03 05:45:02] Probing /cvmfs/atlas-condb.cern.ch... OK
[2026-03-03 05:45:02] Running cvmfs_config stat atlas.cern.ch
[2026-03-03 05:45:02] 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
[2026-03-03 05:45:02] 2.9.2.0 56696 8009 101192 156832 0 50 25511051 36864001 0 130560 0 3561039 99.983 307805 16208 http://cvmfs-stratum-one.cern.ch:8000/cvmfs/atlas.cern.ch http://130.183.36.13:3128 1
[2026-03-03 05:45:02] CVMFS is ok
[2026-03-03 05:45:02] Efficiency of ATLAS tasks can be improved by the following measure(s):
[2026-03-03 05:45:02] The CVMFS client on this computer should be configured to use Cloudflare's openhtc.io.
[2026-03-03 05:45:02] Further information can be found at the LHC@home message board.
[2026-03-03 05:45:02] Using apptainer image /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7
[2026-03-03 05:45:02] Checking for apptainer binary...
[2026-03-03 05:45:02] Using apptainer found in PATH at /usr/bin/apptainer
[2026-03-03 05:45:02] Running /usr/bin/apptainer --version
[2026-03-03 05:45:02] apptainer version 1.4.1-1.1
[2026-03-03 05:45:02] Checking apptainer works with /usr/bin/apptainer exec -B /cvmfs /cvmfs/atlas.cern.ch/repo/containers/fs/singularity/x86_64-centos7 hostname
[2026-03-03 05:45:03] thA381
[2026-03-03 05:45:03] apptainer works
[2026-03-03 05:45:03] Set ATHENA_PROC_NUMBER=4
[2026-03-03 05:45:03] Set ATHENA_CORE_NUMBER=4
[2026-03-03 05:45:03] Starting ATLAS job with PandaID=7035930002
[2026-03-03 05:45:03] 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
[2026-03-03 05:54:30]  *** The last 200 lines of the pilot log: ***
[2026-03-03 05:54:30] 2026-03-03 04:53:58,983 | INFO     | queue jobs had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,983 | INFO     | queue payloads had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,983 | INFO     | queue data_in had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,983 | INFO     | queue data_out had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,983 | INFO     | queue current_data_in had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,983 | INFO     | queue validated_jobs had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue validated_payloads had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue monitored_payloads had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue finished_jobs had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue finished_payloads had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue finished_data_in had 1 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue finished_data_out had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue failed_jobs had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue failed_payloads had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue failed_data_in had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue failed_data_out had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue completed_jobs had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue completed_jobids has 1 job(s)
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue realtimelog_payloads had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | queue messages had 0 job(s) [purged]
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | job 7035930002 has completed (purged errors)
[2026-03-03 05:54:30] 2026-03-03 04:53:58,984 | INFO     | overall cleanup function is called
[2026-03-03 05:54:30] 2026-03-03 04:53:59,991 | INFO     | --- collectZombieJob: --- 10, [1349900]
[2026-03-03 05:54:30] 2026-03-03 04:53:59,991 | INFO     | zombie collector waiting for pid 1349900
[2026-03-03 05:54:30] 2026-03-03 04:53:59,991 | INFO     | harmless exception when collecting zombies: [Errno 10] No child processes
[2026-03-03 05:54:30] 2026-03-03 04:53:59,991 | INFO     | collected zombie processes
[2026-03-03 05:54:30] 2026-03-03 04:53:59,991 | INFO     | will attempt to kill all subprocesses of pid=1349900
[2026-03-03 05:54:30] 2026-03-03 04:54:00,036 | INFO     | process IDs to be killed: [1349900] (in reverse order)
[2026-03-03 05:54:30] 2026-03-03 04:54:00,072 | WARNING  | found no corresponding commands to process id(s)
[2026-03-03 05:54:30] 2026-03-03 04:54:00,072 | INFO     | Do not look for orphan processes in BOINC jobs
[2026-03-03 05:54:30] 2026-03-03 04:54:00,074 | INFO     | did not find any defunct processes belonging to 1349900
[2026-03-03 05:54:30] 2026-03-03 04:54:00,075 | INFO     | did not find any defunct processes belonging to 1349900
[2026-03-03 05:54:30] 2026-03-03 04:54:00,076 | INFO     | ready for new job
[2026-03-03 05:54:30] 2026-03-03 04:54:00,076 | INFO     | pilot has finished with previous job - re-establishing logging
[2026-03-03 05:54:30] 2026-03-03 04:54:00,076 | INFO     | **************************************
[2026-03-03 05:54:30] 2026-03-03 04:54:00,076 | INFO     | ***  PanDA Pilot version 3.11.4.1  ***
[2026-03-03 05:54:30] 2026-03-03 04:54:00,076 | INFO     | **************************************
[2026-03-03 05:54:30] 2026-03-03 04:54:00,076 | INFO     | 
[2026-03-03 05:54:30] 2026-03-03 04:54:00,077 | INFO     | architecture information:
[2026-03-03 05:54:30] 2026-03-03 04:54:00,077 | INFO     | executing command: cat /etc/os-release
[2026-03-03 05:54:30] 2026-03-03 04:54:00,092 | INFO     | cat /etc/os-release:
[2026-03-03 05:54:30] NAME="CentOS Linux"
[2026-03-03 05:54:30] VERSION="7 (Core)"
[2026-03-03 05:54:30] ID="centos"
[2026-03-03 05:54:30] ID_LIKE="rhel fedora"
[2026-03-03 05:54:30] VERSION_ID="7"
[2026-03-03 05:54:30] PRETTY_NAME="CentOS Linux 7 (Core)"
[2026-03-03 05:54:30] ANSI_COLOR="0;31"
[2026-03-03 05:54:30] CPE_NAME="cpe:/o:centos:centos:7"
[2026-03-03 05:54:30] HOME_URL="https://www.centos.org/"
[2026-03-03 05:54:30] BUG_REPORT_URL="https://bugs.centos.org/"
[2026-03-03 05:54:30] 
[2026-03-03 05:54:30] CENTOS_MANTISBT_PROJECT="CentOS-7"
[2026-03-03 05:54:30] CENTOS_MANTISBT_PROJECT_VERSION="7"
[2026-03-03 05:54:30] REDHAT_SUPPORT_PRODUCT="centos"
[2026-03-03 05:54:30] REDHAT_SUPPORT_PRODUCT_VERSION="7"
[2026-03-03 05:54:30] 
[2026-03-03 05:54:30] 2026-03-03 04:54:00,093 | INFO     | **************************************
[2026-03-03 05:54:30] 2026-03-03 04:54:00,596 | INFO     | executing command: df -mP /local/data/boinc/slots/0
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | INFO     | sufficient remaining disk space (233625878528 B)
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | WARNING  | since timefloor is set to 0, pilot was only allowed to run one job
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | INFO     | current server update state: UPDATING_FINAL
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | INFO     | update_server=False
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | WARNING  | setting graceful_stop since proceed_with_getjob() returned False (pilot will end)
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | WARNING  | job:job_monitor:received graceful stop - abort after this iteration
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | INFO     | aborting loop
[2026-03-03 05:54:30] 2026-03-03 04:54:00,616 | WARNING  | job:queue_monitor:received graceful stop - abort after this iteration
[2026-03-03 05:54:30] 2026-03-03 04:54:00,970 | WARNING  | data:copytool_out:received graceful stop - abort after this iteration
[2026-03-03 05:54:30] 2026-03-03 04:54:01,507 | INFO     | all payload control threads have been joined
[2026-03-03 05:54:30] 2026-03-03 04:54:01,573 | INFO     | all data control threads have been joined
[2026-03-03 05:54:30] 2026-03-03 04:54:01,622 | INFO     | [job] job monitor thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:01,622 | INFO     | [job] retrieve thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:01,622 | INFO     | [job] queue monitor thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:01,658 | INFO     | [payload] validate_pre thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:01,678 | INFO     | all job control threads have been joined
[2026-03-03 05:54:30] 2026-03-03 04:54:01,790 | INFO     | [data] copytool_in thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:01,799 | WARNING  | data:queue_monitoring:received graceful stop - abort after this iteration
[2026-03-03 05:54:30] 2026-03-03 04:54:02,141 | INFO     | [payload] run_realtimelog thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:02,290 | INFO     | [payload] validate_post thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:02,513 | INFO     | [payload] control thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:02,579 | INFO     | [data] control thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:02,683 | INFO     | [job] control thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:02,832 | INFO     | [payload] execute_payloads thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:02,977 | INFO     | [data] copytool_out thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:03,002 | INFO     | [job] validate thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:03,008 | INFO     | [payload] failed_post thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:03,104 | INFO     | [job] create_data_payload thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:05,806 | INFO     | [data] queue_monitor thread has finished
[2026-03-03 05:54:30] 2026-03-03 04:54:16,051 | INFO     | [monitor] cgroup control has ended
[2026-03-03 05:54:30] 2026-03-03 04:54:17,157 | INFO     | only monitor.control thread still running - safe to abort: ['<_MainThread(MainThread, started 140682477717312)>', '<ExcThread(monitor, started 140681167230720)>']
[2026-03-03 05:54:30] 2026-03-03 04:54:22,182 | INFO     | all workflow threads have been joined
[2026-03-03 05:54:30] 2026-03-03 04:54:22,183 | INFO     | end of generic workflow (traces error code: 0)
[2026-03-03 05:54:30] 2026-03-03 04:54:22,183 | INFO     | traces error code: 0
[2026-03-03 05:54:30] 2026-03-03 04:54:22,183 | INFO     | pilot has finished (exit code=0, shell exit code=0)
[2026-03-03 05:54:30] 2026-03-03 04:54:30,221 | INFO     | PID=1345374 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 P
[2026-03-03 05:54:30] 2026-03-03 04:54:30,222 | INFO     | found 0 job(s) in 20 queues
[2026-03-03 05:54:30] 2026-03-03 04:54:30,222 | WARNING  | pilot monitor received instruction that args.graceful_stop has been set
[2026-03-03 05:54:30] 2026-03-03 04:54:30,222 | WARNING  | will wait for a maximum of 300 s for threads to finish
[2026-03-03 05:54:30] 2026-03-03 04:54:30,222 | WARNING  | job_aborted has been set - aborting pilot monitoring
[2026-03-03 05:54:30] 2026-03-03 04:54:30,222 | INFO     | [monitor] control thread has ended
[2026-03-03 05:54:30] 2026-03-03 04:54:30,296 [wrapper] ==== pilot stdout END ====
[2026-03-03 05:54:30] 2026-03-03 04:54:30,301 [wrapper] ==== wrapper stdout RESUME ====
[2026-03-03 05:54:30] 2026-03-03 04:54:30,305 [wrapper] pilotpid: 1345374
[2026-03-03 05:54:30] 2026-03-03 04:54:30,309 [wrapper] Pilot exit status: 0
[2026-03-03 05:54:30] 2026-03-03 04:54:30,321 [wrapper] pandaids: 7035930002
[2026-03-03 05:54:30] 2026-03-03 04:54:30,343 [wrapper] cleanup supervisor_pilot 1345380 1345375
[2026-03-03 05:54:30] 2026-03-03 04:54:30,348 [wrapper] Test setup, not cleaning
[2026-03-03 05:54:30] 2026-03-03 04:54:30,352 [wrapper] apfmon messages muted
[2026-03-03 05:54:30] 2026-03-03 04:54:30,356 [wrapper] ==== wrapper stdout END ====
[2026-03-03 05:54:30] 2026-03-03 04:54:30,359 [wrapper] ==== wrapper stderr END ====
[2026-03-03 05:54:30]  *** Error codes and diagnostics ***
[2026-03-03 05:54:30]     "exeErrorCode": 0,
[2026-03-03 05:54:30]     "exeErrorDiag": "",
[2026-03-03 05:54:30]     "pilotErrorCode": 1305,
[2026-03-03 05:54:30]     "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: 6095.29 KB/s",
[2026-03-03 05:54:30]  *** Listing of results directory ***
[2026-03-03 05:54:30] total 264520
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc      5111 Mar  2 11:57 queuedata.json
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc    584627 Mar  2 11:57 pilot3.tar.gz
[2026-03-03 05:54:30] -rwx------ 1 boinc boinc     36322 Mar  2 11:58 runpilot2-wrapper.sh
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc       100 Mar  3 05:45 wrapper_26015_x86_64-pc-linux-gnu
[2026-03-03 05:54:30] -rwxr-xr-x 1 boinc boinc      7986 Mar  3 05:45 run_atlas
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc       105 Mar  3 05:45 job.xml
[2026-03-03 05:54:30] -rw-r--r-- 2 boinc boinc 266466549 Mar  3 05:45 EVNT.48452148._000003.pool.root.1
[2026-03-03 05:54:30] -rw-r--r-- 2 boinc boinc    597971 Mar  3 05:45 input.tar.gz
[2026-03-03 05:54:30] -rw-r--r-- 2 boinc boinc     15845 Mar  3 05:45 start_atlas.sh
[2026-03-03 05:54:30] drwxrwx--x 2 boinc boinc      4096 Mar  3 05:45 shared
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc         0 Mar  3 05:45 boinc_setup_complete
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc      6376 Mar  3 05:45 init_data.xml
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc         0 Mar  3 05:45 boinc_lockfile
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc      2618 Mar  3 05:45 pandaJob.out
[2026-03-03 05:54:30] -rw------- 1 boinc boinc    997730 Mar  3 05:45 agis_schedconf.cvmfs.json
[2026-03-03 05:54:30] -rw------- 1 boinc boinc   1512931 Mar  3 05:45 agis_ddmendpoints.agis.ALL.json
[2026-03-03 05:54:30] -rw------- 1 boinc boinc       427 Mar  3 05:45 workernode_map.json
[2026-03-03 05:54:30] drwx------ 5 boinc boinc      4096 Mar  3 05:45 pilot3
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc       526 Mar  3 05:51 boinc_task_state.xml
[2026-03-03 05:54:30] -rw------- 1 boinc boinc      1003 Mar  3 05:51 memory_monitor_summary.json
[2026-03-03 05:54:30] -rw------- 1 boinc boinc    115634 Mar  3 05:52 log.48846674._000057.job.log.tgz.1
[2026-03-03 05:54:30] -rw------- 1 boinc boinc      7198 Mar  3 05:53 heartbeat.json
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc        24 Mar  3 05:54 wrapper_checkpoint.txt
[2026-03-03 05:54:30] -rw------- 1 boinc boinc       747 Mar  3 05:54 pilotlog.txt
[2026-03-03 05:54:30] -rw------- 1 boinc boinc        95 Mar  3 05:54 pilot_heartbeat.json
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc      8192 Mar  3 05:54 boinc_mmap_file
[2026-03-03 05:54:30] -rw------- 1 boinc boinc    129359 Mar  3 05:54 log.48846674._000057.job.log.1
[2026-03-03 05:54:30] -rw------- 1 boinc boinc       188 Mar  3 05:54 output.list
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc       620 Mar  3 05:54 runtime_log
[2026-03-03 05:54:30] -rw------- 1 boinc boinc    266240 Mar  3 05:54 result.tar.gz
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc      8743 Mar  3 05:54 runtime_log.err
[2026-03-03 05:54:30] -rw------- 1 boinc boinc       650 Mar  3 05:54 l4NKDmi9FH9n9Rq4apOajLDm4fhM0noT9bVooX4SDmKFBLDmRMBcpm.diag
[2026-03-03 05:54:30] -rw-r--r-- 1 boinc boinc     13052 Mar  3 05:54 stderr.txt
[2026-03-03 05:54:30] No HITS result produced
[2026-03-03 05:54:30]  *** Contents of shared directory: ***
[2026-03-03 05:54:30] total 261084
[2026-03-03 05:54:30] -rw-r--r-- 2 boinc boinc 266466549 Mar  3 05:45 ATLAS.root_0
[2026-03-03 05:54:30] -rw-r--r-- 2 boinc boinc    597971 Mar  3 05:45 input.tar.gz
[2026-03-03 05:54:30] -rw-r--r-- 2 boinc boinc     15845 Mar  3 05:45 start_atlas.sh
[2026-03-03 05:54:30] -rw------- 1 boinc boinc    266240 Mar  3 05:54 result.tar.gz
05:54:32 (1341268): run_atlas exited; CPU time 241.627302
05:54:32 (1341268): called boinc_finish(0)

</stderr_txt>
]]>

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