Jobsub ID 264613.186@justin-prod-sched01.dune.hep.ac.uk
| Jobsub ID | 264613.186@justin-prod-sched01.dune.hep.ac.uk |
| Workflow ID | 3514 |
| Stage ID | 1 |
| User name | calcuttj@fnal.gov |
| HTCondor Group | group_dune.prod_mcsim |
| Requested | Processors | 1 |
| RSS bytes | 4193255424 (3999 MiB) |
| Wall seconds limit | 18000 (5 hours) |
| Submitted time | 2024-09-27 03:34:32 |
| Site | CA_Victoria |
| Entry | DUNE_CA_Victoria_dune-condor_whole |
| Last heartbeat | 2024-09-27 07:16:05 |
| From worker node | Hostname | dune--heprc--3456932580--41021190986552-2 |
| cpuinfo | Intel Core Processor (Broadwell, IBRS) |
| OS release | Scientific Linux release 7.9 (Nitrogen) |
| Processors | 1 |
| RSS bytes | 4193255424 (3999 MiB) |
| Wall seconds limit | 171000 (47 hours) |
| Inner Apptainer? | True |
| Job state | jobscript_error |
| Allocator name | justin-allocator-pro.dune.hep.ac.uk |
| Started | 2024-09-27 05:29:55 |
| Input files | hd-protodune:np04hd_raw_run027385_0274_dataflow0_datawriter_0_20240622T162646.hdf5
|
| Jobscript | Exit code | 139 |
| Real time | 0m (0s) |
| CPU time | 0m (0s = 0%) |
| Outputting started | |
| Output files | |
| Finished | 2024-09-27 07:16:05 |
| Saved logs | justin-logs:264613.186-justin-prod-sched01.dune.hep.ac.uk.logs.tgz |
| List job events Wrapper job log |
Jobscript log (last 10,000 characters)
ror detected in HDF5 (1.12.2) thread 0:
#000: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5G.c line 510 in H5Gopen2(): unable to open group
major: Symbol table
minor: Can't open object
#001: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5VLcallback.c line 4187 in H5VL_group_open(): group open failed
major: Virtual Object Layer
minor: Can't open object
#002: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5VLcallback.c line 4154 in H5VL__group_open(): group open failed
major: Virtual Object Layer
minor: Can't open object
#003: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5VLnative_group.c line 123 in H5VL__native_group_open(): unable to open group
major: Symbol table
minor: Can't open object
#004: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Gint.c line 275 in H5G__open_name(): can't get object type
major: Symbol table
minor: Can't get value
#005: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Oint.c line 1651 in H5O_obj_type(): unable to load object header
major: Object header
minor: Unable to protect metadata
#006: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Oint.c line 1051 in H5O_protect(): unable to load object header
major: Object header
minor: Unable to protect metadata
#007: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5AC.c line 1426 in H5AC_protect(): H5C_protect() failed
major: Object cache
minor: Unable to protect metadata
#008: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5C.c line 2370 in H5C_protect(): can't load entry
major: Object cache
minor: Unable to load metadata into cache
#009: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5C.c line 7209 in H5C__load_entry(): Can't read image*
major: Object cache
minor: Read failed
#010: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Fio.c line 148 in H5F_block_read(): read through page buffer failed
major: Low-level I/O
minor: Read failed
#011: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5PB.c line 721 in H5PB_read(): read through metadata accumulator failed
major: Page Buffering
minor: Read failed
#012: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Faccum.c line 202 in H5F__accum_read(): driver read request failed
major: Low-level I/O
minor: Read failed
#013: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5FDint.c line 189 in H5FD_read(): driver read request failed
major: Virtual File Layer
minor: Read failed
#014: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5FDsec2.c line 755 in H5FD__sec2_read(): file read failed: time = Fri Sep 27 07:15:36 2024
, filename = 'root://dcdndoor.sdcc.bnl.gov:1094//pnfs/sdcc.bnl.gov/data/dune/RSE/hd-protodune/68/60/np04hd_raw_run027385_0274_dataflow0_datawriter_0_20240622T162646.hdf5', file descriptor = 24, errno = 116, error message = 'Stale file handle', buf = 0x10748e40, total read size = 512, bytes this sub-read = 512, bytes actually read = 18446744073709551615, offset = 0
major: Low-level I/O
minor: Read failed
HDF5-DIAG: Error detected in HDF5 (1.12.2) thread 0:
#000: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5I.c line 456 in H5Idec_ref(): can't decrement ID ref count
major: Object atom
minor: Unable to decrement reference count
#001: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Iint.c line 1018 in H5I_dec_app_ref(): can't decrement ID ref count
major: Object atom
minor: Unable to decrement reference count
#002: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Fint.c line 251 in H5F__close_cb(): unable to close file
major: File accessibility
minor: Unable to close file
#003: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5VLcallback.c line 3983 in H5VL_file_close(): file close failed
major: Virtual Object Layer
minor: Unable to close file
#004: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5VLcallback.c line 3952 in H5VL__file_close(): file close failed
major: Virtual Object Layer
minor: Unable to close file
#005: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5VLnative_file.c line 838 in H5VL__native_file_close(): can't close file
major: File accessibility
minor: Unable to decrement reference count
#006: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Fint.c line 2349 in H5F__close(): can't close file
major: File accessibility
minor: Unable to close file
#007: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Fint.c line 2522 in H5F_try_close(): problems closing file
major: File accessibility
minor: Unable to close file
#008: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5Fint.c line 1605 in H5F__dest(): unable to close file
major: File accessibility
minor: Unable to close file
#009: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5FD.c line 830 in H5FD_close(): close failed
major: Virtual File Layer
minor: Unable to close file
#010: /scratch/workspace/build-single/BUILDTYPE/prof/QUAL/e26/label1/swarm/label2/SLF7/build/hdf5/v1_12_2a/source/hdf5-1.12.2/src/H5FDsec2.c line 456 in H5FD__sec2_close(): unable to close file, errno = 95, error message = 'Operation not supported'
major: Low-level I/O
minor: Unable to close file
HighFive::~Object: reference counter decrease failure
===================================================================================================================================
TimeTracker printout (sec) Min Avg Max Median RMS nEvts
===================================================================================================================================
Full event 184.73 278.05 503.13 216.676 103.518 11
-----------------------------------------------------------------------------------------------------------------------------------
source:HDF5RawInput3(read) 0.00141461 0.00340225 0.00723472 0.00299583 0.00152844 11
produce:tpcrawdecoder:PDHDTPCReader 38.3148 105.954 265.29 58.0961 81.9847 11
produce:triggerrawdecoder:PDHDTriggerReader3 0.182946 0.736267 2.25402 0.224384 0.733288 11
produce:timingrawdecoder:PDHDTimingRawDecoder 0.0775903 0.351897 1.02034 0.106122 0.361048 11
produce:pdhddaphne:DAPHNEReaderPDHD 8.48963 21.6197 47.031 15.3235 12.3691 11
produce:fembfilter:PDHDFEMBFilter 0.0208175 0.0507317 0.237664 0.0323973 0.0594187 11
produce:wclsdatahdfilter:WireCellToolkit 59.6031 86.9909 107.779 84.9635 15.4129 11
[art]:TriggerResults:TriggerResultInserter 0.00157742 0.0107969 0.0343206 0.00626957 0.0100756 11
end_path:out1:RootOutput 0.000158025 0.00112283 0.00767711 0.000383452 0.00209524 11
end_path:out1:RootOutput(write) 35.8594 62.1902 104.168 65.8409 17.7622 11
===================================================================================================================================
====================================================================================================
MemoryTracker summary (base-10 MB units used)
Peak virtual memory usage (VmPeak) : 3182.92 MB
Peak resident set size usage (VmHWM): 95.2975 MB
Details saved in: 'mem.db'
====================================================================================================
%MSG-s ArtException: PostEndJob 27-Sep-2024 07:15:40 UTC ModuleEndJob
Unable to open the group "TriggerRecord38436.0000": (Low-level I/O) Read failed
%MSG
../justin-jobscript: line 145: 1314 Segmentation fault LD_PRELOAD=$XROOTD_LIB/libXrdPosixPreload.so lar -c ${FCL1} -n ${nevents} ${extra_line} ${pfn}
Error in reco1 