Add out subdir to input list

job_script.sh

@@ -9,24 +9,29 @@ echo " odir=$odir"
 
 if [[ -n ${SLURM_ARRAY_TASK_ID} ]]; then
     echo "ARRAY: ${SLURM_ARRAY_TASK_ID} in ${pattern}"
-    file=$(sed -n $((${SLURM_ARRAY_TASK_ID}+1))p ${pattern})
+    line=$(sed -n $((${SLURM_ARRAY_TASK_ID}+1))p ${pattern})
+    IFS=' ' read -ra linearr <<< "$line"
+    file=${linearr[0]}
+    sodir=${linearr[1]}
 else
     echo "NO ARRAY"
     file=$pattern
 fi
 
-. /lustre/hades/user/rlalik/hades/profile_feb22.sh
+[ -e job_profile.sh ] && . job_profile.sh
 
-cd /lustre/hades/user/rlalik/hades/feb22/sim/geant
-
-odir=$(readlink -e $odir)
-mkdir $odir
+mkdir -p $odir/$sodir
+odir=$(readlink -e $odir/$sodir)
 
 #file=$(readlink -e $file)
 
 echo file=$file
 echo events=$events
 echo odir=$odir
+
+crashfile=$odir/crash_await_${SLURM_ARRAY_JOB_ID}_${SLURM_ARRAY_TASK_ID}.txt
+echo $file > $crashfile
+
 root -b -q
 
 card_file_base=simul_p4500p_fwdet_feb22
@@ -37,11 +42,18 @@ date
 truncate -s0 ${odir}/$(basename ${file} .evt)_1.root
 
 # update placeholders and generate temporary file
+echo "*********************************************"
+echo "*********************************************"
+
 sed \
     -e "s|@wd@|$(pwd)|g" \
     -e "s|@input@|${file}|" \
     -e "s|@output@|$(basename ${file} .evt)_.root|" \
-    ${card_file_base}.dat > ${card_file}
+    ${card_file_base}.dat | tee ${card_file}
+
+echo "*********************************************"
+echo "*********************************************"
+
 
 if [ -z ${SLURM_TMPDIR+x} ]; then
     echo "SLURM_TMPDIR is unset"
@@ -64,12 +76,7 @@ fi
 
 mv $(basename ${file} .evt)_*.root ${odir}/ -v
 
-echo "*********************************************"
-cat ${card_file}
-echo "*********************************************"
-
-cat ${card_file}
-
 cd -
 rm -rfv ${tmpdirname}
 rm -fv ${card_file}
+rm -v $crashfile