Workflow 3322, Stage 1

Priority	50
Processors	1
Wall seconds	80000
RSS bytes	4194304000 (4000 MiB)
Max distance for inputs	30.0
Enabled input RSEs	CERN_PDUNE_EOS, 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, MANCHESTER, MONTECARLO, NIKHEF, PRAGUE, QMUL, RAL-PP, RAL_ECHO, SURFSARA, T3_US_NERSC
Enabled output RSEs	CERN_PDUNE_EOS, 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, MANCHESTER, 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, IN_TIFR, IT_CNAF, UK_Bristol, UK_Brunel, UK_Durham, UK_Edinburgh, UK_Imperial, UK_Lancaster, UK_Liverpool, UK_Manchester, UK_Oxford, UK_RAL-Tier1, UK_Sheffield, US_BNL, US_Caltech, US_Colorado, US_FNAL-FermiGrid, US_FNAL-T1, US_Michigan, US_MIT, US_Nebraska, 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
1	https://fndcadoor.fnal.gov:2880/dune/scratch/users/amoor/03322/1	*_hist.root

Environment variables

Name	Value
INPUT_TAR_DIR_LOCAL	/cvmfs/fifeuser3.opensciencegrid.org/sw/dune/36cd515f81496cd78de9c544b1945390cb3498ef
NUM_EVENTS	-1

File states

Total files	Finding	Unallocated	Allocated	Outputting	Processed	Not found	Failed
1709	0	1384	0	0	296	0	29

Job states

Total	Submitted	Started	Processing	Outputting	Finished	Notused	Aborted	Stalled	Jobscript error	Outputting failed	None processed
576	0	0	0	0	296	0	0	10	270	0	0

RSEs used

Name	Inputs	Outputs
DUNE_US_FNAL_DISK_STAGE	576	0

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

File reset events, by site

Site	Allocated	Outputting
US_NotreDame	9	1

Jobscript

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

To use this jobscript to process n files through the reco2 stage
and put the output in pnfs scratch,
use this command to create the workflow:

justin simple-workflow \
--mql "$MQL_QUERY" \
--jobscript my-reco1.jobscript --max-distance 30 --rss-mb 4000 -- env NUM_EVENTS=10\
--scope usertests --output-pattern "*_reco_data_*.root:afm-ana-test" --lifetime-days 1

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

EOF
echo "AFM ana jobscript."
# fcl file and DUNE software version/qualifier to be used
FCL_FILE=${FCL_FILE:-rsj_standard_ana_dune10kt_1x2x6.fcl}
DUNE_VERSION=${DUNE_VERSION:-v09_75_03d00}
DUNE_QUALIFIER=${DUNE_QUALIFIER:-e20:prof}

# 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 "No input files provided."
  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"

# Setup DUNE environment
source /cvmfs/dune.opensciencegrid.org/products/dune/setup_dune.sh

# the xroot lib for streaming non-root files is in testproducts, 
# so add it to the start of the path
export PRODUCTS=/cvmfs/dune.opensciencegrid.org/products/dune/testproducts:${PRODUCTS}
setup dunesw "$DUNE_VERSION" -q "$DUNE_QUALIFIER"
export TF_NUM_THREADS=${JUSTIN_PROCESSORS}   
export OPENBLAS_NUM_THREADS=${JUSTIN_PROCESSORS} 
export JULIA_NUM_THREADS=${JUSTIN_PROCESSORS} 
export MKL_NUM_THREADS=${JUSTIN_PROCESSORS} 
export NUMEXPR_NUM_THREADS=${JUSTIN_PROCESSORS} 
export OMP_NUM_THREADS=${JUSTIN_PROCESSORS}

# 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}_reco_data_${now}.root

campaign="justIN.w${JUSTIN_WORKFLOW_ID}s${JUSTIN_STAGE_ID}"
 
(
# Do the scary preload stuff in a subshell!
export LD_PRELOAD=${XROOTD_LIB}/libXrdPosixPreload.so
echo "$LD_PRELOAD"
echo $INPUT_TAR_DIR_LOCAL
export FHICL_FILE_PATH=$INPUT_TAR_DIR_LOCAL:$FHICL_FILE_PATH
echo $FHICL_FILE_PATH

lar -c $FCL_FILE $events_option -o $outFile "$pfn"  > ${fname}_reco_${now}.log 2>&1
)

echo '=== Start last 200 lines of lar log file ==='
tail -200 ${fname}_reco_${now}.log
echo '=== End last 200 lines of lar log file ==='

# Subshell exits with exit code of last command
larExit=$?
echo "lar exit code $larExit"
jobscriptExit=1

if [ $larExit -eq 0 ] ; then
  # write metadata file if lar succeeded
  extractor_prod.py --infile "$outFile" --no_crc --appname reco \
    --appversion ${DUNE_VERSION} --appfamily art \
    --campaign ${campaign} > $outFile.ext.json  
  extractorExit=$?
  echo "extractor_prod.py exit code $extractorExit"

  # Run pdjson2meta. THIS SHOULD MOVE TO SOMEWHERE LIKE duneutil ?
  /cvmfs/dune.opensciencegrid.org/products/dune/justin/pro/NULL/jobutils/pdjson2metadata \
     $outFile.ext.json all-input-dids.txt > $outFile.json
  p2mExit=$?
  echo "pdjson2metadata exit code $p2mExit"

  if [ $extractorExit -eq 0 -a $p2mExit -eq 0 ] ; then
    echo "Metadata extraction succeeds"
    echo "$pfn" > justin-processed-pfns.txt
    echo "===Metadata JSON==="
    cat $outFile.json
    echo
    echo "==================="
    jobscriptExit=0
  fi
fi

ls -lRS

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