Jobsub ID 303766.11@dunegpschedd01.fnal.gov
| Jobsub ID | 303766.11@dunegpschedd01.fnal.gov |
| Workflow ID | 12723 |
| Stage ID | 1 |
| User name | calcuttj@fnal.gov |
| Requested | Processors | 1 |
| GPU | No |
| RSS bytes | 2097152000 (2000 MiB) |
| Wall seconds limit | 80000 (22 hours) |
| Submitted time | 2026-02-04 02:00:32 |
| Site | CERN |
| Entry | CMSHTPC_T2_CH_CERN_ce513 |
| Last heartbeat | 2026-02-04 02:03:38 |
| From worker node | Hostname | b9p17p7474.cern.ch |
| cpuinfo | Intel(R) Xeon(R) Silver 4216 CPU @ 2.10GHz |
| OS release | Scientific Linux release 7.9 (Nitrogen) |
| Processors | 1 |
| RSS bytes | 2097152000 (2000 MiB) |
| Wall seconds limit | 343800 (95 hours) |
| GPU | |
| Inner Apptainer? | True |
| Job state | none_processed |
| Started | 2026-02-04 02:02:01 |
| Input files | vd-protodune:np02vd_raw_run040380_0015_df-s04-d0_dw_0_20251105T180240.hdf5
|
| Outputting started | 2026-02-04 02:03:18 |
| Output files | |
| Finished | 2026-02-04 02:03:38 |
| List job events Cached HTCondor job logs |
Jobscript log (last 10,000 characters)
Setting up larsoft UPS area... /cvmfs/larsoft.opensciencegrid.org
Setting up DUNE UPS area... /cvmfs/dune.opensciencegrid.org/products/dune/
Pip installing snakemake
WARNING: The script pulptest is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The script tabulate is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The script humanfriendly is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The scripts docutils, rst2html, rst2html4, rst2html5, rst2latex, rst2man, rst2odt, rst2pseudoxml, rst2s5, rst2xetex and rst2xml are installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The script normalizer is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The script yte is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The scripts jupyter, jupyter-migrate and jupyter-troubleshoot are installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The script jsonschema is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The script jupyter-trust is installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
WARNING: The scripts snakemake and snakemake-bash-completion are installed in '/home/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.
[notice] A new release of pip is available: 23.0 -> 26.0
[notice] To update, run: pip install --upgrade pip
7.32.4
workflow/Snakefile
Building DAG of jobs...
Using shell: /usr/bin/bash
Provided cores: 1 (use --cores to define parallelism)
Rules claiming more threads will be scaled down.
Singularity containers: ignored
Job stats:
job count
----- -------
all 1
jgf 1
total 2
Select jobs to execute...
Calling justin get file -- 0
0
justin-get-file successful: vd-protodune:np02vd_raw_run040380_0015_df-s04-d0_dw_0_20251105T180240.hdf5 root://eospublic.cern.ch:1094//eos/experiment/neutplatform/protodune/dune/vd-protodune/50/24/np02vd_raw_run040380_0015_df-s04-d0_dw_0_20251105T180240.hdf5 DUNE_CERN_EOS
Select jobs to execute...
input:
find: '/home/ubuntu/lardon/.pixi': No such file or directory
Found xrootd_posix_preload:
/usr/bin/bash: line 10: lardon: command not found
[Wed Feb 4 03:03:17 2026]
Error in rule test:
jobid: 5
input: justin_input_pfns.txt
output: test.txt
shell:
echo "input:"
input_file=$(head -n 1 justin_input_pfns.txt)
#echo "xrd posix preload: ${xrootd_posix_preload}"
if [ -z "${xrootd_posix_preload:-}" ]; then
export xrootd_posix_preload=$(find /home/ubuntu/lardon/.pixi -name "libXrdPosixPreload.so")
echo "Found xrootd_posix_preload: ${xrootd_posix_preload}"
fi
LD_PRELOAD=$xrootd_posix_preload lardon -file $input_file -out lardon -trk
output_file=$(ls *lardon.h5 | head -n 1)
echo $output_file > test.txt
(one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
Shutting down, this might take some time.
Exiting because a job execution failed. Look above for error message
Complete log: .snakemake/log/2026-02-04T030316.451079.snakemake.log
Done running snakemake 