Workflow 12593, Stage 1

Workflow	12593
Campaign	933
Priority	50
Processors	1
Wall seconds	80000
Image	/cvmfs/singularity.opensciencegrid.org/fermilab/fnal-wn-sl7:latest
RSS bytes	4194304000 (4000 MiB)
Max distance for inputs	0.0
Enabled input RSEs	CERN_PDUNE_EOS, DUNE_CA_SFU, DUNE_CERN_EOS, DUNE_ES_PIC, DUNE_FR_CCIN2P3_DISK, DUNE_IN_TIFR, DUNE_IT_INFN_CNAF, DUNE_UK_GLASGOW, DUNE_UK_LANCASTER_CEPH, DUNE_UK_MANCHESTER_CEPH, DUNE_US_BNL_SDCC, DUNE_US_FNAL_DISK_STAGE, FNAL_DCACHE, FNAL_DCACHE_STAGING, FNAL_DCACHE_TEST, MONTECARLO, NIKHEF, PRAGUE, QMUL, RAL-PP, RAL_ECHO, SURFSARA, T3_US_NERSC
Enabled output RSEs	CERN_PDUNE_EOS, DUNE_CA_SFU, DUNE_CERN_EOS, DUNE_ES_PIC, DUNE_FR_CCIN2P3_DISK, DUNE_IN_TIFR, DUNE_IT_INFN_CNAF, DUNE_UK_GLASGOW, DUNE_UK_LANCASTER_CEPH, DUNE_UK_MANCHESTER_CEPH, DUNE_US_BNL_SDCC, DUNE_US_FNAL_DISK_STAGE, FNAL_DCACHE, FNAL_DCACHE_STAGING, FNAL_DCACHE_TEST, NIKHEF, PRAGUE, QMUL, RAL-PP, RAL_ECHO, SURFSARA, T3_US_NERSC
Enabled sites	BR_CBPF, CA_SFU, CA_Victoria, CERN, CH_UNIBE-LHEP, CZ_FZU, ES_CIEMAT, ES_PIC, FR_CCIN2P3, IT_CNAF, NL_NIKHEF, NL_SURFsara, UK_Bristol, UK_Brunel, UK_Durham, UK_Edinburgh, UK_Glasgow, UK_Imperial, UK_Lancaster, UK_Liverpool, UK_Manchester, UK_Oxford, UK_QMUL, UK_RAL-PPD, UK_RAL-Tier1, UK_Sheffield, US_BNL, US_Colorado, US_FNAL-FermiGrid, US_FNAL-T1, US_Michigan, US_NotreDame, US_PuertoRico, US_SU-ITS, US_Swan, US_UChicago, US_UConn-HPC, US_UCSD, US_Wisconsin
Scope	usertests
Events for this stage

Output patterns

	Destination	Pattern	Lifetime	For next stage	RSE expression
1	https://fndcadoor.fnal.gov:2880/dune/scratch/users/schellma/fnal/12593/1	*.root

Environment variables

Name	Value
DIRECTORY	test_larsoft
PROCESS_TYPE	analyze

File states

Total files	Finding	Unallocated	Allocated	Outputting	Processed	Not found	Failed
2	0	0	0	0	2	0	0

Job states

Total	Submitted	Started	Processing	Outputting	Finished	Notused	Aborted	Stalled	Jobscript error	Outputting failed	None processed
3	0	0	0	0	3	0	0	0	0	0	0

RSEs used

Name	Inputs	Outputs
DUNE_US_FNAL_DISK_STAGE	2	0

Stats of processed input files as CSV or JSON, and of uploaded output files as CSV or JSON (up to 10000 files included)

Jobscript

#!/bin/bash
:<<'EOF'

To use this jobscript to process 5 files from the dataset fardet-hd__fd_mc_2023a_reco2__full-reconstructed__v09_81_00d02__standard_reco2_dune10kt_nu_1x2x6__prodgenie_nu_dune10kt_1x2x6__out1__validation
data and put the output logs in the `usertests` namespace and saves the output in /scratch

Use these commands to set up ahead of time:

export DUNE_VERSION=<dune version>
export DUNE_QUALIFIER=<dune qualifier>
export FCL_FILE=<top level fcl>
export INPUT_TAR_DIR_LOCAL=<cvmfs directory returned by cvmfs>
export MQL=<your file query>
export DIRECTORY=<directory name inside the tar file>

Use this command to create the workflow:

justin simple-workflow \
--mql "$MQL" \
--jobscript submit_local_code.jobscript.sh --rss-mb 4000 \
 --output-pattern "*.root:${FNALURL}/${USERF}" --env PROCESS_TYPE=${PROCESS_TYPE} --env DIRECTORY=${DIRECTORY} --scope usertests --lifetime 30 


The following optional environment variables can be set when creating the
workflow/stage: FCL_FILE, PROCESS_TYPE, NUM_EVENTS, DUNE_VERSION, DUNE_QUALIFIER 

EOF

# fcl file and DUNE software version/qualifier to be used
FCL_FILE=${FCL_FILE:-${INPUT_TAR_DIR_LOCAL}/${DIRECTORY}/my_code/fcls/my_reco.fcl}
PROCESS_TYPE=${PROCESS_TYPE:-reco2}
#DUNE_VERSION=${DUNE_VERSION:-v09_85_00d00}
#DUNE_QUALIFIER=${DUNE_QUALIFIER:-e26:prof}

echo "Check environment"
echo "DIRECTORY=$DIRECTORY"
echo "DUNE_VERSION=$DUNE_VERSION"
echo "DUNE_QUALIFIER=$DUNE_QUALIFIER" 
echo "FCL_FILE=$FCL_FILE"
echo "MQK=$MQL" 
echo "PROCESS_TYPE=$PROCESS_TYPE"
echo "USERF=$USERF" 
echo "NUM_EVENTS=$NUM_EVENTS" 
echo "INPUT_TAR_DIR_LOCAL=$INPUT_TAR_DIR_LOCAL"



echo "Current working directory is `pwd`"


# number of events to process from the input file
if [ "$NUM_EVENTS" != "" ] ; then
 events_option="-n $NUM_EVENTS"
fi

# First get an unprocessed file from this stage
did_pfn_rse=`$JUSTIN_PATH/justin-get-file`

if [ "$did_pfn_rse" = "" ] ; then
  echo "Nothing to process - exit jobscript"
  exit 0
fi

# Keep a record of all input DIDs, for pdjson2meta file -> DID mapping
echo "$did_pfn_rse" | cut -f1 -d' ' >>all-input-dids.txt

# pfn is also needed when creating justin-processed-pfns.txt
pfn=`echo $did_pfn_rse | cut -f2 -d' '`
echo "Input PFN = $pfn"

echo "TARDIR ${INPUT_TAR_DIR_LOCAL}"
echo "CODE DIR ${DIRECTORY}"

# Setup DUNE environment
localProductsdir=`ls -c1d ${INPUT_TAR_DIR_LOCAL}/${DIRECTORY}/localProducts*`

echo "localProductsdir ${localProductsdir}"


# seems to require the right name for the setup script 

echo " check that there is a setup in ${localProductsdir}"
ls -lrt  ${localProductsdir}/setup
source /cvmfs/dune.opensciencegrid.org/products/dune/setup_dune.sh
export PRODUCTS="${localProductsdir}/:$PRODUCTS"

# Then we can set up our local products
setup duneana "$DUNE_VERSION" -q "$DUNE_QUALIFIER"
setup dunesw "$DUNE_VERSION" -q "$DUNE_QUALIFIER"
source ${localProductsdir}/setup
mrbslp

# Construct outFile from input $pfn 
now=$(date -u +"%Y-%m-%dT_%H%M%SZ")
Ffname=`echo $pfn | awk -F/ '{print $NF}'`
fname=`echo $Ffname | awk -F. '{print $1}'`
outFile=${fname}_${PROCESS_TYPE}_${now}.root

campaign="justIN.w${JUSTIN_WORKFLOW_ID}s${JUSTIN_STAGE_ID}"

# Here is where the LArSoft command is call it 
(
# Do the scary preload stuff in a subshell!
export LD_PRELOAD=${XROOTD_LIB}/libXrdPosixPreload.so
echo "$LD_PRELOAD"

lar -c ${INPUT_TAR_DIR_LOCAL}/${DIRECTORY}/$FCL_FILE $events_option -o $outFile "$pfn" > ${fname}_${PROCESS_TYPE}_${now}.log 2>&1
)

echo '=== Start last 1000 lines of lar log file ==='
tail -1000 ${fname}_ana_${now}.log
echo '=== End last 1000 lines of lar log file ==='

# Subshell exits with exit code of last command
larExit=$?
echo "lar exit code $larExit"

if [ $larExit -eq 0 ] ; then
  # Success !
  echo "$pfn" > justin-processed-pfns.txt
  jobscriptExit=0
else
  # Oh !
  jobscriptExit=1
fi

# Create compressed tar file with all log files 
tar zcf `echo "$JUSTIN_JOBSUB_ID.logs.tgz" | sed 's/@/_/g'` *.log
exit $jobscriptExit