[5268] | 1 | #!/bin/bash |
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| 2 | |
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[5383] | 3 | |
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[5438] | 4 | comments() { |
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[5509] | 5 | state=$1; LAST_TIME_STEP=0 |
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[5453] | 6 | |
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[5465] | 7 | if [ "$state" == 'E R R O R' ]; then |
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[5509] | 8 | [ -e time.step ] && LAST_TIME_STEP=$( cat time.step | tr -d [:space:] ) |
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[5521] | 9 | export ${LAST_TIME_STEP} |
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[5455] | 10 | fi |
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[5453] | 11 | |
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[5485] | 12 | [ -e ocean.output ] && line=$( grep -m1 -A5 "$state" ocean.output | tr -d '\n' ) |
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[5521] | 13 | |
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[5485] | 14 | if [[ -e ${REFE_DIR}/model.log && $( diff -q model.log ${REFE_DIR}/model.log ) ]]; then |
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[5524] | 15 | line=$( diff model.log ${REFE_DIR}/model.log | grep '>' ) |
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[5455] | 16 | fi |
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| 17 | |
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[5465] | 18 | printf "Comments\n$line\n" | tee mesg_11_comments_${CFG_USER}_${CFG_ARCH}.txt |
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[5438] | 19 | } |
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| 20 | |
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[5509] | 21 | |
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[5402] | 22 | diff_inputs() { |
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[5438] | 23 | mesg='Same' |
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[5453] | 24 | for file in inputs_list.txt $( ls namelist_* ) $( ls *.xml ); do |
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[5521] | 25 | diff -q $file ${REFE_DIR}/$file > /dev/null |
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[5438] | 26 | [ $? -ne 0 ] && mesg='Different' |
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[5402] | 27 | done |
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| 28 | |
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[5521] | 29 | printf "Input files\n$mesg\n" | tee mesg_09_inputs_${CFG_USER}_${CFG_ARCH}.txt |
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[5402] | 30 | } |
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| 31 | |
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[5509] | 32 | diff_results() { |
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| 33 | for file in ocean.output $( ls *.stat ); do |
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[5521] | 34 | [ ! -e ${REFE_DIR}/$file ] && export ST='FAILED' && get_out 7 |
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[5509] | 35 | diff -q $file ${REFE_DIR}/$file |
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| 36 | [ $? -ne 0 ] && export ST='FAILED' |
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| 37 | done |
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| 38 | } |
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| 39 | |
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[5383] | 40 | diff_restart() { |
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[5521] | 41 | [ ! -e ${REFE_DIR}/time.step ] && export ST='FAILED' && get_out 9 |
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[5485] | 42 | |
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[5509] | 43 | export LAST_TIME_STEP=$( cat ${REFE_DIR}/time.step | tr -d [:space:] ) |
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| 44 | echo 'Last time step of standard run: '${LAST_TIME_STEP} |
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[5485] | 45 | |
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[5528] | 46 | if [ $( find -regex ".*_0+${LAST_TIME_STEP}_restart.*\.nc" -print -quit ) ]; then |
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| 47 | base_name=$( find -regex ".*_0+${LAST_TIME_STEP}_restart.*\.nc" -print -quit | awk -F/ '{print $NF}' \ |
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| 48 | | sed "s/^\(.*\)$LAST_TIME_STEP\_restart.*/\1$LAST_TIME_STEP\_/" ) |
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[5383] | 49 | |
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[5432] | 50 | for comp in restart restart_ice restart_trc; do |
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[5485] | 51 | file=${base_name}${comp} && printf "$file.nc: " |
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[5424] | 52 | |
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[5483] | 53 | nb_dom=$( find -name "${file}_[0-9]*.nc" | wc -l | awk '{print $1}' ) |
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[5523] | 54 | if [ ${nb_dom} -gt 1 ]; then |
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[5528] | 55 | ${NEMO_TRBD}/rebuild_nemo -t $NPROC $file ${nb_dom} > /dev/null |
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| 56 | [ $? -eq 0 ] && rm -f ${base_name}${comp}_[0-9]*.nc > /dev/null |
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[5523] | 57 | elif [ ${nb_dom} -eq 0 ]; then |
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| 58 | export ST='FAILED' && get_out 10 |
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[5424] | 59 | fi |
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| 60 | |
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[5485] | 61 | if [ -e ${REFE_DIR}/$file.nc ]; then |
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[5464] | 62 | # UNIX `cmp` not suitable (filename & timestamp in .nc file) |
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[5528] | 63 | nc_diff=$( $CDO diffn $file.nc ${REFE_DIR}/$file.nc 2> /dev/null \ |
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| 64 | | awk '/records/ {print $1}' ) |
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[5485] | 65 | |
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[5545] | 66 | if [[ ! -z ${nc_diff} && ${nc_diff} -ne 0 ]]; then |
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[5509] | 67 | export ST='FAILED' |
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[5485] | 68 | printf "$CDO ${nc_diff}\n" |
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| 69 | else |
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| 70 | printf "identical\n" |
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| 71 | fi |
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| 72 | |
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[5432] | 73 | else |
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[5523] | 74 | export ST='FAILED' && get_out 9 |
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[5432] | 75 | fi |
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[5438] | 76 | |
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[5424] | 77 | done |
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[5383] | 78 | |
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[5424] | 79 | else |
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[5509] | 80 | export ST='FAILED' |
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[5424] | 81 | fi |
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[5455] | 82 | |
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[5383] | 83 | } |
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| 84 | |
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[5472] | 85 | get_cpu_time() { |
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[5527] | 86 | real_cpu_time=$( eval ${JOB_TIME} ) |
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[5521] | 87 | printf "Real CPU time\n${real_cpu_time}\n" | tee mesg_10_cputime_${CFG_USER}_${CFG_ARCH}.txt |
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[5472] | 88 | } |
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| 89 | |
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| 90 | get_inputs() { |
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| 91 | if [ ! -z "${FORC_TAR}" ]; then |
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[5543] | 92 | cmd_iol="tar -tvf ${NEMO_FORC}/${FORC_TARF}"; cmd_iof="tar -vxf ${NEMO_FORC}/${FORC_TARF}" |
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[5472] | 93 | else |
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[5543] | 94 | cmd_iol="ls ${NEMO_FORC}/*" ; cmd_iof="\cp ${NEMO_FORC}/* ." |
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[5472] | 95 | fi |
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| 96 | |
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| 97 | ${cmd_iol} > inputs_list.txt |
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| 98 | ${cmd_iof} > /dev/null |
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| 99 | } |
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| 100 | |
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[5424] | 101 | get_soft_rel() { |
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[5383] | 102 | for rel in $CDO $COMPILER $MPI $NETCDF; do |
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[5509] | 103 | arch_rel=$( echo $LOADEDMODULES | sed "s#.*$rel/\([^:]*\).*#\1#" ) |
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| 104 | [ -z "${arch_rel}" ] && arch_rel=$( echo $PATH | sed "s#.*$rel/\([^/]*\).*#\1#" ) |
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[5465] | 105 | [ "$rel" == "$COMPILER" ] && arch_rel=$( $rel --version | grep -m1 -o ' [0-9.]* ' ) |
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[5464] | 106 | echo $rel ${arch_rel} >> model.log |
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[5383] | 107 | done |
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[5438] | 108 | |
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[5472] | 109 | sed -n 4p model.log | sed 'i\Fortran compiler' > mesg_06_compiler_${CFG_USER}_${CFG_ARCH}.txt |
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| 110 | sed -n 5p model.log | sed 'i\MPI libs' > mesg_07_mpi_${CFG_USER}_${CFG_ARCH}.txt |
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| 111 | sed -n 6p model.log | sed 'i\NetCDF libs' > mesg_08_netcdf_${CFG_USER}_${CFG_ARCH}.txt |
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[5383] | 112 | } |
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| 113 | |
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[5424] | 114 | get_nemo_rev() { |
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[5444] | 115 | svn_opt='status' |
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[5383] | 116 | |
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[5438] | 117 | # If -v|--version option has been set, modify svn command |
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[5523] | 118 | if [ $( echo ${NEMO_VERS} | grep "HEAD\|up\|update" ) ]; then |
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| 119 | svn_cmd='svn update -r HEAD' |
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| 120 | elif [ $( echo ${NEMO_VERS} | tr -d '[:alpha:][:punct:]' ) ]; then |
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| 121 | svn_cmd='svn update -r '$( echo ${NEMO_VERS} | tr -d '[:alpha:][:punct:]' ) |
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[5444] | 122 | else |
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| 123 | svn_cmd='svn '${svn_opt} |
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[5438] | 124 | fi |
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| 125 | |
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[5444] | 126 | rev=0 |
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[5464] | 127 | for dir in ${NEMO_ARCH} ${NEMO_CONF} ${NEMO_ENGI} \ |
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| 128 | ${NEMO_EIOI} ${NEMO_EFCM} \ |
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| 129 | ${NEMO_TCMP} ${NEMO_TRBD} \ |
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| 130 | ${DIR_XIOS} ; do |
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[5438] | 131 | |
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[5383] | 132 | # For time being, just get revision number from XIOS |
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[5465] | 133 | if [ "$dir" == "${DIR_XIOS}" ]; then |
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| 134 | rev_loc=$( svn info $dir | awk '(NR == 5) {print $NF}' ) |
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[5472] | 135 | echo 'XIOS '${rev_loc} >> model.log |
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| 136 | printf "XIOS rev.\n" > mesg_05_xios_${CFG_USER}_${CFG_ARCH}.txt |
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| 137 | printf "<a href=\"https://forge.ipsl.jussieu.fr/ioserver/changeset/${rev_loc}\" target=\"_blank\">${rev_loc}</a>" \ |
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| 138 | >> mesg_05_xios_${CFG_USER}_${CFG_ARCH}.txt |
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[5438] | 139 | continue |
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| 140 | fi |
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| 141 | |
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[5465] | 142 | echo ${svn_cmd} $dir': '$( ${svn_cmd} $dir ) |
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[5432] | 143 | rev_loc=$( svn info $dir | awk '(NR == 5) {print $NF}' ) |
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[5383] | 144 | (( ${rev_loc} >= $rev )) && rev=${rev_loc} |
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| 145 | done |
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| 146 | |
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[5472] | 147 | echo 'NEMOGCM '$rev >> model.log |
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| 148 | printf "NEMOGCM rev.\n" > mesg_04_nemogcm_${CFG_USER}_${CFG_ARCH}.txt |
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| 149 | printf "<a href=\"https://forge.ipsl.jussieu.fr/nemo/changeset/$rev\" target=\"_blank\">$rev</a>" \ |
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| 150 | >> mesg_04_nemogcm_${CFG_USER}_${CFG_ARCH}.txt |
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[5383] | 151 | } |
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| 152 | |
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| 153 | mesg_make() { |
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[5464] | 154 | paste -d ';' mesg_*_${CFG_USER}_${CFG_ARCH}.txt > trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.txt |
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| 155 | cat trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.txt |
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[5268] | 156 | } |
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| 157 | |
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[5383] | 158 | mesg_publish() { |
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[5268] | 159 | |
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| 160 | if [ $PUBLISH -eq 1 ]; then |
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| 161 | |
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[5472] | 162 | if [ -f ${REFE_DIR}/trusting_${CFG_USER}_${CFG_ARCH}.txt ]; then cmd='tail -1'; else cmd='cat'; fi |
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[5268] | 163 | |
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[5464] | 164 | $cmd trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.txt >> ${REFE_DIR}/trusting_${CFG_USER}_${CFG_ARCH}.txt |
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[5424] | 165 | |
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[5268] | 166 | # Send mail only when FAILED |
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[5509] | 167 | if [[ ! -z $EMAIL && "$ST" == 'FAILED' ]]; then |
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[5424] | 168 | cat << END_MAIL > trusting.mail |
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[5292] | 169 | XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX |
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[5472] | 170 | |
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[5268] | 171 | Dear $USER, |
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| 172 | |
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[5472] | 173 | The trusting sequence for ${REFE_CONF} has failed. |
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| 174 | Directory: ${TEST_DIR} |
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| 175 | Archive: ${REFE_DIR}/trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.tar.gz |
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[5268] | 176 | |
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[5292] | 177 | XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX |
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[5268] | 178 | |
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| 179 | END_MAIL |
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[5521] | 180 | |
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[5464] | 181 | if [ -e ${TEST_DIR}/trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.txt ]; then |
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| 182 | cat ${TEST_DIR}/trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.txt >> trusting.mail |
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| 183 | fi |
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[5509] | 184 | mail -s "[trusting ${REFE_CONF}] $ST $ERR" $EMAIL < trusting.mail |
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[5268] | 185 | fi |
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| 186 | |
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| 187 | fi |
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| 188 | } |
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| 189 | |
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[5509] | 190 | print_step() { printf "Step.....\n$1\n"; } |
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[5438] | 191 | |
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[5383] | 192 | get_out() { |
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[5521] | 193 | ERR=$1 |
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| 194 | |
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[5542] | 195 | cd ${TEST_DIR} |
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[5509] | 196 | printf "Status\n$ST\n" > mesg_02_status_${CFG_USER}_${CFG_ARCH}.txt |
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| 197 | |
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| 198 | if [ "$ST" == 'FAILED' ]; then |
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[5545] | 199 | file=mesg_09_inputs_${CFG_USER}_${CFG_ARCH}.txt |
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| 200 | [ ! -e $file ] && printf "Input files\n\n" > $file |
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| 201 | file=mesg_10_cputime_${CFG_USER}_${CFG_ARCH}.txt |
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| 202 | [ ! -e $file ] && printf "Real CPU time\n\n" > $file |
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| 203 | file=mesg_11_comments_${CFG_USER}_${CFG_ARCH}.txt |
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| 204 | [ ! -e $file ] && printf "Comments\n\n" > $file |
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[5521] | 205 | |
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[5509] | 206 | # Error identification |
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[5521] | 207 | case $ERR in |
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[5509] | 208 | # Compilation |
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[5529] | 209 | 1) ERR='XIOS compilation failed' ;; 2) ERR='NEMO compilation failed' ;; |
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[5509] | 210 | # Submission |
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[5529] | 211 | 3) ERR='Missing input files' ;; 4) ERR='Job submission error' ;; |
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[5509] | 212 | # Running |
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[5529] | 213 | 5) ERR='nemo.exe crashed at '${LAST_TIME_STEP};; 6) ERR='Exceeded time limit '${TIME_LIMI}'h';; |
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[5509] | 214 | # Results |
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[5529] | 215 | 7) ERR='Missing previous outputs ' ;; 8) ERR='New outputs differ/missing' ;; |
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| 216 | 9) ERR='Missing previous restarts' ;; 10) ERR='New restarts differ/missing' ;; |
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[5509] | 217 | # Undefined |
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[5529] | 218 | *) ERR='Unknown error' ;; |
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[5509] | 219 | esac |
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| 220 | |
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[5521] | 221 | export ERR |
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[5424] | 222 | fi |
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[5438] | 223 | |
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[5509] | 224 | printf "Result.....\n$ERR\n" > mesg_03_result_${CFG_USER}_${CFG_ARCH}.txt |
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[5438] | 225 | |
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[5521] | 226 | # Save tested configuration if trusting failed |
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| 227 | [ "$ST" == 'FAILED' ] && tar -czf ${REFE_DIR}/trusting_${DATESTR}_${CFG_USER}_${CFG_ARCH}.tar.gz * |
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| 228 | |
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[5509] | 229 | mesg_make |
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| 230 | mesg_publish |
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[5465] | 231 | |
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[5424] | 232 | exit 1 |
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[5268] | 233 | } |
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[5464] | 234 | |
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| 235 | job_pending() { |
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| 236 | time_elapsed=0; time_increment=30 |
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[5509] | 237 | |
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[5464] | 238 | sleep ${time_increment} |
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| 239 | while [[ $( ${JOB_LIST} | grep ${JOB_ID} ) && ${time_elapsed} -lt ${TIME_LIMI} ]]; do |
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[5527] | 240 | printf "\n####################################################\n" >> computation.log |
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| 241 | ${JOB_INFO} ${JOB_ID} >> computation.log |
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[5464] | 242 | sleep ${time_increment} |
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[5509] | 243 | time_elapsed=$(( ${time_elapsed} + ${time_increment} )) |
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[5464] | 244 | done |
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| 245 | sleep ${time_increment} |
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| 246 | |
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| 247 | if [ ${time_elapsed} -eq ${TIME_LIMI} ]; then |
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| 248 | ${JOB_DELE} ${JOB_ID} &> /dev/null |
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[5509] | 249 | TIME_LIMIT=$(( ${TIME_LIMI} / 3600 )) |
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| 250 | export ${TIME_LIMIT} |
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| 251 | get_out $ST ERR=6 |
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[5521] | 252 | fi |
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[5464] | 253 | } |
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