[1182] | 1 | #!/bin/ksh |
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| 2 | |
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| 3 | #************************************************************** |
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| 4 | # Author: Sebastien Denvil |
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| 5 | # Contact: Sebastien.Denvil__at__ipsl.jussieu.fr |
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| 6 | # $Revision:: $ Revision of last commit |
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| 7 | # $Author:: $ Author of last commit |
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| 8 | # $Date:: $ Date of last commit |
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| 9 | # IPSL (2006) |
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| 10 | # This software is governed by the CeCILL licence see libIGCM/libIGCM_CeCILL.LIC |
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| 11 | # |
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| 12 | #************************************************************** |
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| 13 | |
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| 14 | #========================================================= |
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| 15 | # The documentation of this file can be automatically generated |
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| 16 | # if you use the prefix #D- for comments to be extracted. |
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| 17 | # Extract with command: cat lib* | grep "^#D-" | cut -c "4-" |
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| 18 | #========================================================= |
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| 19 | |
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| 20 | #D-#================================================== |
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[1558] | 21 | #D-LibIGCM_sys for IPSL ESPRI MESO cluster: spirit and spiritx |
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[1182] | 22 | #D-#================================================== |
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| 23 | #D- |
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| 24 | #D- This ksh library if a layer under some usefull |
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| 25 | #D-environment variables and shell commands. |
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| 26 | #D-All those definitions depend on host particularities. |
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| 27 | #D-It manages a stack mechanism and test validity of operations. |
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| 28 | #D-All function described bellow must be prefixed by IGCM_sys. |
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| 29 | |
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| 30 | #==================================================== |
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| 31 | # libIGCM_sys PARAMETERS |
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| 32 | #==================================================== |
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| 33 | |
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| 34 | #==================================================== |
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| 35 | # set DEBUG_sys to true to output calls of function |
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| 36 | typeset -r DEBUG_sys=${DEBUG_sys:=true} |
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| 37 | |
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| 38 | #==================================================== |
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| 39 | # Turn in dry run mode ? (sys_Put_Rest, sys_Put_Out, sys_Get) |
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[1569] | 40 | if ([ X${DRYRUN} != X ] && [ ${DRYRUN} = 4 ]) ; then |
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| 41 | typeset -r DRYRUN=0 |
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| 42 | typeset -r DRYRUN_DEBUG=4 |
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| 43 | else |
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| 44 | typeset -r DRYRUN=${DRYRUN:=0} |
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| 45 | typeset -r DRYRUN_DEBUG=0 |
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| 46 | fi |
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[1182] | 47 | |
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| 48 | # YOU MUST COMPILE YOUR EXE FILES FOR DRYRUN MODE ! |
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| 49 | # ------------------------------------------------------------------------------------- |
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| 50 | # | DRYRUN= | Date computations, | sys_Get | Exe | sys_Put_Out; sys_Put_Rest | |
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| 51 | # | | Cp/Exe/param/files | | | | |
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| 52 | # | | Chmod Qsub | | | | |
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| 53 | # ------------------------------------------------------------------------------------- |
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| 54 | # | 0 | yes | yes | yes | yes | |
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| 55 | # ------------------------------------------------------------------------------------- |
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| 56 | # | 1 | yes | yes | yes | no | |
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| 57 | # ------------------------------------------------------------------------------------- |
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| 58 | # | 2 | yes | yes | no | no | |
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| 59 | # ------------------------------------------------------------------------------------- |
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| 60 | # | 3 | yes | no | no | no | |
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| 61 | # ------------------------------------------------------------------------------------- |
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[1569] | 62 | # | 4 | yes | yes | creation of RUN_DIR and Job_debug | |
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| 63 | # ------------------------------------------------------------------------------------- |
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[1182] | 64 | |
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| 65 | #===================================================== |
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| 66 | # Global Variables : |
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| 67 | #===================================================== |
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| 68 | # Language : "fr" or "en" |
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| 69 | typeset -r MYLANG="fr" |
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| 70 | |
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| 71 | #===================================================== |
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[1296] | 72 | # Host user names project maxCpuTime |
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[1182] | 73 | # $hostname ou hostname |
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| 74 | typeset HOST=${HOST:=$( hostname )} |
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| 75 | # $username ou whoami |
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| 76 | typeset LOGIN=${LOGIN:=$( whoami )} |
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| 77 | # $hostname of the MASTER job |
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| 78 | typeset MASTER=${MASTER:=$( hostname )} |
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[1201] | 79 | # project name |
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| 80 | typeset PROJECT=NONE |
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| 81 | # jobWarningDelay in seconds |
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[1558] | 82 | #typeset jobWarningDelay=${PBS_WALLTIME} |
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[1182] | 83 | |
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| 84 | #D- |
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| 85 | #D-#================================================== |
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| 86 | #D-Program used in libIGCM |
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| 87 | #D-#================================================== |
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| 88 | |
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| 89 | # Submit command |
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[1558] | 90 | typeset SUBMIT=${SUBMIT:=sbatch} |
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[1182] | 91 | # rsync with path |
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| 92 | typeset -r RSYNC=/usr/bin/rsync |
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| 93 | # RSYNC_opt args to rsync |
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| 94 | typeset -r RSYNC_opt="-va" |
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| 95 | # ie storage filesystem |
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| 96 | typeset -r STOREHOST=${MASTER} |
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| 97 | |
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| 98 | #==================================================== |
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| 99 | # Access to module command |
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| 100 | #==================================================== |
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[1558] | 101 | . /etc/profile.d/modules.sh |
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[1182] | 102 | |
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| 103 | #==================================================== |
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| 104 | # Set environment tools (ferret, nco, cdo, rebuild, ...) |
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| 105 | #==================================================== |
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[1485] | 106 | if [ X${TaskType} = Xcomputing ] ; then |
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| 107 | IGCM_debug_Print 1 "Modules will be loaded later in IGCM_sys_activ_variables." |
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[1314] | 108 | else |
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[1558] | 109 | if [ $CENTER == spirit ] ; then |
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| 110 | # At spirit |
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| 111 | . /home/igcmg/MachineEnvironment/mesoipsl/atlas_env_mesoipsl |
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| 112 | elif [ $CENTER == spiritx ] ; then |
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| 113 | # At spiritx |
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| 114 | . /ciclad-home/igcmg/MachineEnvironment/mesoipsl/atlas_env_mesoipsl |
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[1485] | 115 | fi |
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[1314] | 116 | fi |
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| 117 | |
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[1210] | 118 | [ ! X${TaskType} = Xchecking ] && IGCM_debug_Print 1 "List of loaded modules:" |
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| 119 | [ ! X${TaskType} = Xchecking ] && module list |
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[1208] | 120 | |
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[1182] | 121 | #==================================================== |
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| 122 | # Host specific DIRECTORIES |
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| 123 | #==================================================== |
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[1485] | 124 | # For rebuild |
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[1558] | 125 | if [ $CENTER == spirit ] ; then |
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| 126 | export PATH=${PATH}:/home/igcmg/rebuild/spirit/modipsl/modeles/IOIPSL/bin/ |
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[1485] | 127 | else |
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[1558] | 128 | export PATH=${PATH}:/ciclad-home/igcmg/rebuild/spirit/modipsl/modeles/IOIPSL/bin/ |
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[1485] | 129 | fi |
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[1182] | 130 | #==================================================== |
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| 131 | #- MirrorlibIGCM for frontend |
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| 132 | typeset -r MirrorlibIGCM=${MirrorlibIGCM:=false} |
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| 133 | |
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| 134 | #==================================================== |
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| 135 | #- libIGCM_POST for frontend |
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| 136 | typeset -r libIGCM_POST=${libIGCM} |
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| 137 | |
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| 138 | #==================================================== |
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| 139 | #- R_EXE (==> BIN_DIR = ${MODIPSL}/bin ) |
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| 140 | typeset -r R_EXE="${MODIPSL}/bin" |
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| 141 | |
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| 142 | #==================================================== |
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| 143 | #- SUBMIT_DIR : submission dir |
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[1558] | 144 | if [ X${SLURM_SUMBIT_DIR} != X ] ; then |
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| 145 | typeset -x SUBMIT_DIR=${SUBMIT_DIR:=${SLURM_SUBMIT_DIR}} |
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[1182] | 146 | else |
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| 147 | typeset -x SUBMIT_DIR=${SUBMIT_DIR:=${PWD}} |
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| 148 | fi |
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| 149 | |
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| 150 | #==================================================== |
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| 151 | #- IN |
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[1541] | 152 | typeset -r R_IN=${R_IN:=/projsu/igcmg/IGCM} |
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[1182] | 153 | |
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| 154 | #==================================================== |
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[1558] | 155 | #- RUN_DIR_PATH : Temporary working directory |
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| 156 | |
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| 157 | if [ $CENTER == spirit ] ; then |
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| 158 | RUN_DIR_PATH=${RUN_DIR_PATH:=/scratchu/${LOGIN}/RUN_DIR} |
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[1182] | 159 | else |
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[1558] | 160 | RUN_DIR_PATH=${RUN_DIR_PATH:=/scratchx/${LOGIN}/RUN_DIR} |
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[1182] | 161 | fi |
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[1558] | 162 | if [ X${SLURM_JOBID} != X ] ; then |
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| 163 | typeset -r RUN_DIR_PATH=${RUN_DIR_PATH}/${SLURM_JOBID}_${$} |
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| 164 | else |
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| 165 | typeset -r RUN_DIR_PATH=${RUN_DIR_PATH}/${$} |
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| 166 | fi |
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[1182] | 167 | |
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| 168 | #==================================================== |
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| 169 | #- OUTCOMMAND_PATH : tmp place to store command lines standard error and outputs |
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[1558] | 170 | # Note that typeset -r can not be set at spirit because it sets the path as read-only |
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| 171 | typeset OUTCOMMAND_PATH=/tmp |
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[1182] | 172 | |
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| 173 | #==================================================== |
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| 174 | #- HOST_MPIRUN_COMMAND |
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| 175 | typeset -r HOST_MPIRUN_COMMAND=${HOST_MPIRUN_COMMAND:="time mpirun"} |
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| 176 | |
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| 177 | #==================================================== |
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| 178 | #- Max number of arguments passed to nco operator or demigration command |
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| 179 | UNIX_MAX_LIMIT=360 |
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| 180 | |
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| 181 | #==================================================== |
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[1558] | 182 | #- set PackDefault to false on meso-ipsl |
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[1182] | 183 | PackDefault=false |
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| 184 | |
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| 185 | #==================================================== |
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| 186 | #- Default number of MPI task for IPSL coupled model |
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| 187 | #- required for backward compatibility |
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| 188 | #- |
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[1296] | 189 | DEFAULT_NUM_PROC_OCE=5 |
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[1182] | 190 | DEFAULT_NUM_PROC_CPL=1 |
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| 191 | (( DEFAULT_NUM_PROC_ATM = BATCH_NUM_PROC_TOT - DEFAULT_NUM_PROC_OCE - DEFAULT_NUM_PROC_CPL )) |
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| 192 | |
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| 193 | #D-#================================================== |
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| 194 | #D-function IGCM_sys_defineArchives |
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| 195 | #D-* Purpose: |
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| 196 | #D-* Define ARCHIVE : Dedicated to large files |
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| 197 | #D-* Define STORAGE : Dedicated to small/medium files |
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| 198 | #D-* Define R_OUT : Output tree located on ARCHIVE |
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| 199 | #D-* Define R_FIG : Output tree located on STORAGE hosting figures (monitoring and atlas, and/or small files) |
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| 200 | #D-* Define R_BUF : Output tree located on STORAGE hosting files waiting for rebuild or pack processes |
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| 201 | #D-* if SpaceName=TEST nothing special will hapen |
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| 202 | #D-* Examples: |
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| 203 | #D- |
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| 204 | function IGCM_sys_defineArchives { |
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| 205 | IGCM_debug_PushStack "IGCM_sys_defineArchives" |
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| 206 | |
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| 207 | if [ ! X${config_UserChoices_ARCHIVE} = X ]; then |
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| 208 | #==================================================== |
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| 209 | #- ARCHIVE (dedicated to large files) |
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| 210 | ARCHIVE=${config_UserChoices_ARCHIVE} |
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| 211 | else |
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| 212 | #==================================================== |
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| 213 | #- ARCHIVE (dedicated to large files) |
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[1558] | 214 | if [ $CENTER == spirit ] ; then |
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| 215 | # At spirit |
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[1314] | 216 | ARCHIVE=${ARCHIVE:=/data/${LOGIN}} |
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| 217 | else |
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[1558] | 218 | # At spiritx |
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[1314] | 219 | ARCHIVE=${ARCHIVE:=/homedata/${LOGIN}} |
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| 220 | fi |
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[1182] | 221 | fi |
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| 222 | |
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| 223 | if [ ! X${config_UserChoices_STORAGE} = X ]; then |
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| 224 | #==================================================== |
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| 225 | #- STORAGE (dedicated to small/medium files) |
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| 226 | STORAGE=${config_UserChoices_STORAGE} |
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| 227 | else |
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| 228 | #==================================================== |
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| 229 | #- STORAGE (dedicated to small/medium files) |
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| 230 | STORAGE=${ARCHIVE} |
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| 231 | fi |
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| 232 | |
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[1558] | 233 | # ON MESO-IPSL NO SPECIAL CASE WHEN X${config_UserChoices_SpaceName} = XTEST |
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[1182] | 234 | |
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| 235 | #==================================================== |
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| 236 | #- R_OUT |
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| 237 | R_OUT=${ARCHIVE}/IGCM_OUT |
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| 238 | |
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| 239 | #==================================================== |
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| 240 | #- R_FIG (hosting figures : monitoring and atlas, and/or small files) |
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| 241 | R_FIG=${STORAGE}/IGCM_OUT |
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| 242 | |
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| 243 | #==================================================== |
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[1431] | 244 | #- CMIP6 (hosting CMIP6 files produced by XIOS2 and configured by dr2xml) |
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| 245 | CMIP6_BUF=${STORAGE}/IGCM_OUT |
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| 246 | |
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| 247 | #==================================================== |
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[1182] | 248 | #- R_BUF (ONLY FOR double copy an scratch) |
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| 249 | R_BUF=${STORAGE}/IGCM_OUT |
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| 250 | |
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| 251 | IGCM_debug_Print 1 "R_OUT has been defined = ${R_OUT}" |
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| 252 | IGCM_debug_Print 1 "R_BUF has been defined = ${R_BUF}" |
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| 253 | IGCM_debug_Print 1 "R_FIG has been defined = ${R_FIG}" |
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| 254 | |
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| 255 | IGCM_debug_PopStack "IGCM_sys_defineArchives" |
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| 256 | } |
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| 257 | |
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| 258 | #D-#================================================== |
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| 259 | #D-function IGCM_sys_RshArchive |
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| 260 | #D-* Purpose: Archive rsh command |
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| 261 | #D-* Examples: |
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| 262 | #D- |
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| 263 | function IGCM_sys_RshArchive { |
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| 264 | IGCM_debug_PushStack "IGCM_sys_RshArchive" $@ |
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| 265 | /bin/ksh <<-EOF |
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| 266 | ${@} |
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| 267 | EOF |
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| 268 | status=$? |
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| 269 | if [ ${status} -gt 0 ] ; then |
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| 270 | IGCM_debug_Print 2 "IGCM_sys_RshArchive : command failed error code ${status}" |
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| 271 | IGCM_debug_Exit "IGCM_sys_RshArchive" |
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| 272 | fi |
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| 273 | IGCM_debug_PopStack "IGCM_sys_RshArchive" |
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| 274 | } |
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| 275 | |
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| 276 | #D-#================================================== |
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| 277 | #D-function IGCM_sys_RshArchive_NoError |
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| 278 | #D-* Purpose: Archive rsh command, without error |
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| 279 | #D-* used only in monitoring.job |
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| 280 | #D-* Examples: |
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| 281 | #D- |
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| 282 | function IGCM_sys_RshArchive_NoError { |
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| 283 | IGCM_debug_PushStack "IGCM_sys_RshArchive_NoError" $@ |
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| 284 | /bin/ksh <<-EOF |
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| 285 | ${@} 2> /dev/null |
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| 286 | EOF |
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| 287 | IGCM_debug_PopStack "IGCM_sys_RshArchive_NoError" |
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| 288 | } |
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| 289 | |
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| 290 | #D-#================================================== |
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| 291 | #D-function IGCM_sys_MkdirArchive |
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| 292 | #D-* Purpose: Mkdir on Archive |
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| 293 | #D-* Examples: |
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| 294 | #D- |
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| 295 | function IGCM_sys_MkdirArchive { |
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| 296 | IGCM_debug_PushStack "IGCM_sys_MkdirArchive" $@ |
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| 297 | if ( $DEBUG_sys ) ; then |
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| 298 | echo "IGCM_sys_MkdirArchive :" $@ |
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| 299 | fi |
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| 300 | #- creation de repertoire sur le serveur fichier |
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| 301 | if [ ! -d ${1} ]; then |
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| 302 | \mkdir -p $1 |
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| 303 | status=$? |
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| 304 | |
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| 305 | if [ ${status} -gt 0 ] ; then |
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| 306 | IGCM_debug_Print 2 "IGCM_sys_MkdirArchive : mkdir failed error code ${status}" |
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| 307 | IGCM_debug_Exit "IGCM_sys_MkdirArchive" |
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| 308 | fi |
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| 309 | fi |
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| 310 | IGCM_debug_PopStack "IGCM_sys_MkdirArchive" |
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| 311 | } |
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| 312 | |
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| 313 | #D-#================================================== |
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| 314 | #D-function IGCM_sys_TestDirArchive |
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| 315 | #D-* Purpose: Test Directory that must exists on Archive |
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| 316 | #D-* Examples: |
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| 317 | #D- |
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| 318 | function IGCM_sys_TestDirArchive { |
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| 319 | IGCM_debug_PushStack "IGCM_sys_TestDirArchive" $@ |
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| 320 | if ( $DEBUG_sys ) ; then |
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| 321 | echo "IGCM_sys_TestDirArchive :" $@ |
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| 322 | fi |
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| 323 | typeset ExistFlag |
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| 324 | ExistFlag=$( [ -d $1 ] && echo 0 || echo 1 ) |
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| 325 | IGCM_debug_PopStack "IGCM_sys_TestDirArchive" |
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| 326 | return ${ExistFlag} |
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| 327 | } |
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| 328 | |
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| 329 | #D-#================================================== |
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| 330 | #D-function IGCM_sys_IsFileArchived |
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| 331 | #D-* Purpose: Test file that must NOT EXISTS on Archive based on filename only |
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| 332 | #D-* Examples: |
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| 333 | #D- |
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| 334 | function IGCM_sys_IsFileArchived { |
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| 335 | IGCM_debug_PushStack "IGCM_sys_IsFileArchived" $@ |
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| 336 | if ( $DEBUG_sys ) ; then |
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| 337 | echo "IGCM_sys_IsFileArchived :" $@ |
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| 338 | fi |
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| 339 | typeset IsArchivedFlag |
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| 340 | # Never archived for this system |
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| 341 | IsArchivedFlag=1 |
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| 342 | IGCM_debug_PopStack "IGCM_sys_IsFileArchived" |
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| 343 | |
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| 344 | return ${IsArchivedFlag} |
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| 345 | } |
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| 346 | |
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| 347 | #D-#================================================== |
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| 348 | #D-function IGCM_sys_TestFileArchive |
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| 349 | #D-* Purpose: Test file that must NOT EXISTS on Archive |
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| 350 | #D-* Examples: |
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| 351 | #D- |
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| 352 | function IGCM_sys_TestFileArchive { |
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| 353 | IGCM_debug_PushStack "IGCM_sys_TestFileArchive" $@ |
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| 354 | typeset ExistFlag |
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| 355 | ExistFlag=$( [ -f $1 ] && echo 0 || echo 1 ) |
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| 356 | IGCM_debug_PopStack "IGCM_sys_TestFileArchive" |
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| 357 | |
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| 358 | return ${ExistFlag} |
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| 359 | } |
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| 360 | |
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| 361 | #D-#================================================== |
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| 362 | #D-function IGCM_sys_CountFileArchive |
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| 363 | #D-* Purpose: Count files on Archive filesystem |
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| 364 | #D-* Examples: |
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| 365 | #D- |
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| 366 | function IGCM_sys_CountFileArchive { |
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| 367 | IGCM_debug_PushStack "IGCM_sys_CountFileArchive" $@ |
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| 368 | ls ${@} 2>/dev/null | wc -l |
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| 369 | if [ $? -gt 0 ] ; then |
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| 370 | echo "IGCM_sys_CountFileArchive : erreur." |
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| 371 | fi |
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| 372 | IGCM_debug_PopStack "IGCM_sys_CountFileArchive" |
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| 373 | } |
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| 374 | |
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| 375 | #D-#================================================== |
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| 376 | #D-function IGCM_sys_Tree |
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| 377 | #D-* Purpose: Tree directories with files on ${ARCHIVE} |
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| 378 | #D-* Examples: IGCM_sys_Tree ${R_IN} ${R_OUT} |
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| 379 | #D- |
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| 380 | function IGCM_sys_Tree { |
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| 381 | IGCM_debug_PushStack "IGCM_sys_Tree" $@ |
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| 382 | if ( $DEBUG_sys ) ; then |
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| 383 | echo "IGCM_sys_Tree :" $@ |
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| 384 | fi |
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| 385 | |
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[1296] | 386 | \ls -lR ${@} |
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[1182] | 387 | |
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| 388 | IGCM_debug_PopStack "IGCM_sys_Tree" |
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| 389 | } |
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| 390 | |
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| 391 | #D-#================================================== |
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| 392 | #D-function IGCM_sys_Qsub |
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| 393 | #D-* Purpose: Qsub new job |
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| 394 | #D-* Examples: |
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| 395 | #D- |
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| 396 | function IGCM_sys_Qsub { |
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| 397 | IGCM_debug_PushStack "IGCM_sys_Qsub" $@ |
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| 398 | if ( $DEBUG_sys ) ; then |
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| 399 | echo "IGCM_sys_Qsub :" $@ |
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| 400 | fi |
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| 401 | typeset options status |
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[1558] | 402 | options="-o ${SUBMIT_DIR}/${Script_Output} -e ${SUBMIT_DIR}/${Script_Output}" |
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| 403 | /usr/bin/time sbatch ${options} $1 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
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[1182] | 404 | status=$? |
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| 405 | |
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| 406 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
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| 407 | if [ ${status} -gt 0 ] ; then |
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| 408 | IGCM_debug_Print 2 "IGCM_sys_Qsub ${options} $1 : error code ${status}" |
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| 409 | IGCM_debug_Exit "IGCM_sys_Qsub" |
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| 410 | else |
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[1558] | 411 | JobID=$( gawk {'print $4'} ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ ) |
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[1182] | 412 | fi |
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| 413 | IGCM_debug_PopStack "IGCM_sys_Qsub" |
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| 414 | } |
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| 415 | |
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| 416 | #D-#================================================== |
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| 417 | #D-function IGCM_sys_QsubPost |
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| 418 | #D-* Purpose: Qsub new job on scalaire |
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| 419 | #D-* Examples: |
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| 420 | #D- |
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| 421 | function IGCM_sys_QsubPost { |
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| 422 | IGCM_debug_PushStack "IGCM_sys_QsubPost" $@ |
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| 423 | if ( $DEBUG_sys ) ; then |
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| 424 | echo "IGCM_sys_QsubPost :" $@ |
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| 425 | fi |
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| 426 | typeset options status |
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[1558] | 427 | options="-o ${POST_DIR}/${Script_Post_Output}.out -e ${POST_DIR}/${Script_Post_Output}.out" |
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| 428 | sbatch ${options} ${libIGCM_POST}/$1.job > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
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[1182] | 429 | status=$? |
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| 430 | |
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| 431 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
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| 432 | if [ ${status} -gt 0 ] ; then |
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| 433 | IGCM_debug_Print 2 "IGCM_sys_QsubPost ${options} ${libIGCM_POST}/$1.job : error code ${status}" |
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| 434 | IGCM_debug_Exit "IGCM_sys_QsubPost" |
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| 435 | else |
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[1558] | 436 | JobID=$( gawk {'print $4'} ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ ) |
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[1182] | 437 | fi |
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| 438 | IGCM_debug_PopStack "IGCM_sys_QsubPost" |
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| 439 | } |
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| 440 | |
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| 441 | #D-************************* |
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| 442 | #D- File transfer functions |
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| 443 | #D-************************* |
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| 444 | #D- |
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| 445 | |
---|
| 446 | #D-#================================================== |
---|
| 447 | #D-function IGCM_sys_RmRunDir |
---|
| 448 | #D-* Purpose: rm tmpdir (dummy function most of the time batch |
---|
| 449 | #D- scheduler will do the job) |
---|
| 450 | #D-* Examples: |
---|
| 451 | #D- |
---|
| 452 | function IGCM_sys_RmRunDir { |
---|
| 453 | IGCM_debug_PushStack "IGCM_sys_RmRunDir" $@ |
---|
| 454 | if ( $DEBUG_sys ) ; then |
---|
| 455 | echo "IGCM_sys_RmRunDir :" $@ |
---|
| 456 | fi |
---|
| 457 | |
---|
| 458 | typeset status |
---|
| 459 | |
---|
| 460 | echo rm $@ > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 461 | \rm $@ >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 462 | status=$? |
---|
| 463 | |
---|
| 464 | if [ ${status} -gt 0 ] ; then |
---|
| 465 | IGCM_debug_Print 1 "IGCM_sys_RmRunDir : rm error code is ${status}." |
---|
| 466 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 467 | IGCM_debug_Exit "IGCM_sys_RmRunDir" |
---|
| 468 | else |
---|
| 469 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 470 | fi |
---|
| 471 | IGCM_debug_PopStack "IGCM_sys_RmRunDir" |
---|
| 472 | } |
---|
| 473 | |
---|
| 474 | #D-#================================================== |
---|
| 475 | #D-function IGCM_sys_Put_Dir |
---|
| 476 | #D-* Purpose: Copy a complete directory on $(ARCHIVE) |
---|
| 477 | #D-* Examples: |
---|
| 478 | #D- |
---|
| 479 | function IGCM_sys_Put_Dir { |
---|
| 480 | IGCM_debug_PushStack "IGCM_sys_Put_Dir" $@ |
---|
| 481 | if ( $DEBUG_sys ) ; then |
---|
| 482 | echo "IGCM_sys_Put_Dir :" $@ |
---|
| 483 | fi |
---|
| 484 | if [ $DRYRUN = 0 ]; then |
---|
| 485 | if [ ! -d ${1} ] ; then |
---|
| 486 | echo "WARNING : IGCM_sys_Put_Dir ${1} DOES NOT EXIST ." |
---|
| 487 | IGCM_debug_PopStack "IGCM_sys_Put_Dir" |
---|
| 488 | return |
---|
| 489 | fi |
---|
| 490 | |
---|
| 491 | typeset status |
---|
| 492 | |
---|
| 493 | # Only if we use rsync |
---|
| 494 | #IGCM_sys_TestDirArchive $( dirname $2 ) |
---|
| 495 | # |
---|
| 496 | #USUAL WAY |
---|
| 497 | \cp -r $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 498 | status=$? |
---|
| 499 | |
---|
| 500 | if [ ${status} -gt 0 ] ; then |
---|
| 501 | IGCM_debug_Print 2 "IGCM_sys_Put_Dir : cp failed error code ${status}" |
---|
| 502 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 503 | IGCM_debug_Exit "IGCM_sys_Put_Dir" |
---|
| 504 | else |
---|
| 505 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 506 | fi |
---|
| 507 | fi |
---|
| 508 | IGCM_debug_PopStack "IGCM_sys_Put_Dir" |
---|
| 509 | } |
---|
| 510 | |
---|
| 511 | #D-#================================================== |
---|
| 512 | #D-function IGCM_sys_Get_Dir |
---|
| 513 | #D-* Purpose: Copy a complete directory from ${ARCHIVE} |
---|
| 514 | #D-* Examples: |
---|
| 515 | #D- |
---|
| 516 | function IGCM_sys_Get_Dir { |
---|
| 517 | IGCM_debug_PushStack "IGCM_sys_Get_Dir" $@ |
---|
| 518 | if ( $DEBUG_sys ) ; then |
---|
| 519 | echo "IGCM_sys_Get_Dir :" $@ |
---|
| 520 | fi |
---|
| 521 | if [ $DRYRUN = 0 ]; then |
---|
| 522 | typeset NB_ESSAI DELAI status i |
---|
| 523 | # number of tentative |
---|
| 524 | NB_ESSAI=3 |
---|
| 525 | # time delay between tentative |
---|
| 526 | DELAI=2 |
---|
| 527 | |
---|
| 528 | # |
---|
| 529 | # USUAL WAY |
---|
| 530 | i=0 |
---|
| 531 | while [ $i -lt $NB_ESSAI ] ; do |
---|
| 532 | \cp -ur $1 $2 >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 533 | status=$? |
---|
| 534 | if [ ${status} -gt 0 ] ; then |
---|
| 535 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : cp failed error code ${status} ${i}/${NB_ESSAI}" |
---|
| 536 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : sleep ${DELAI} seconds and try again." |
---|
| 537 | sleep $DELAI |
---|
| 538 | else |
---|
| 539 | break |
---|
| 540 | fi |
---|
| 541 | (( i = i + 1 )) |
---|
| 542 | done |
---|
| 543 | |
---|
| 544 | if [ ${status} -gt 0 ] ; then |
---|
| 545 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : cp failed error code ${status}" |
---|
| 546 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 547 | IGCM_debug_Exit "IGCM_sys_Get_Dir" |
---|
| 548 | else |
---|
| 549 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 550 | fi |
---|
| 551 | fi |
---|
| 552 | IGCM_debug_PopStack "IGCM_sys_Get_Dir" |
---|
| 553 | } |
---|
| 554 | |
---|
| 555 | #D-#================================================== |
---|
| 556 | #D-function IGCM_sys_Put_Rest |
---|
| 557 | #D-* Purpose: Put computied restarts on ${ARCHIVE}. |
---|
| 558 | #D- File and target directory must exist. |
---|
| 559 | #D-* Examples: |
---|
| 560 | #D- |
---|
| 561 | function IGCM_sys_Put_Rest { |
---|
| 562 | IGCM_debug_PushStack "IGCM_sys_Put_Rest" $@ |
---|
| 563 | if ( $DEBUG_sys ) ; then |
---|
| 564 | echo "IGCM_sys_Put_Rest :" $@ |
---|
| 565 | fi |
---|
| 566 | if [ $DRYRUN = 0 ]; then |
---|
| 567 | if [ ! -f ${1} ] ; then |
---|
| 568 | echo "ERROR : IGCM_sys_Put_Rest ${1} DOES NOT EXIST ." |
---|
| 569 | IGCM_debug_Exit "IGCM_sys_Put_Rest" |
---|
| 570 | fi |
---|
| 571 | |
---|
| 572 | typeset status |
---|
| 573 | # |
---|
| 574 | # USUAL WAY |
---|
| 575 | \cp $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 576 | status=$? |
---|
| 577 | |
---|
| 578 | # #RSYNC WITH NETWORK SSH CALL |
---|
| 579 | # echo ${RSYNC} ${RSYNC_opt} -e ssh ${RUN_DIR}/$1 ${STOREHOST}:${2} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 580 | # ${RSYNC} ${RSYNC_opt} -e ssh ${RUN_DIR}/$1 ${STOREHOST}:${2} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 581 | |
---|
| 582 | # #RSYNC WITH NFS USE |
---|
| 583 | # echo ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 584 | # ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 585 | |
---|
| 586 | # status=$? |
---|
| 587 | # IGCM_sys_Rsync_out $status |
---|
| 588 | |
---|
| 589 | # ${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 590 | # (( status=status+$? )) |
---|
| 591 | |
---|
| 592 | if [ ${status} -gt 0 ] ; then |
---|
| 593 | IGCM_debug_Print 2 "IGCM_sys_Put_Rest : cp failed error code ${status}" |
---|
| 594 | [ -f ${1} ] && ls -l ${1} |
---|
| 595 | [ -f ${2} ] && ls -l ${2} |
---|
| 596 | [ -f ${2}/${1} ] && ls -l ${2}/${1} |
---|
| 597 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 598 | IGCM_debug_Exit "IGCM_sys_Put_Rest" |
---|
| 599 | else |
---|
| 600 | |
---|
| 601 | if [ X${JobType} = XRUN ] ; then |
---|
| 602 | [ -f ${2} ] && IGCM_sys_Chmod 444 ${2} |
---|
| 603 | [ -f ${2}/${1} ] && IGCM_sys_Chmod 444 ${2}/${1} |
---|
| 604 | fi |
---|
| 605 | |
---|
| 606 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 607 | fi |
---|
| 608 | fi |
---|
| 609 | IGCM_debug_PopStack "IGCM_sys_Put_Rest" |
---|
| 610 | } |
---|
| 611 | |
---|
| 612 | #D-#================================================== |
---|
| 613 | #D-function IGCM_sys_Put_Out |
---|
| 614 | #D-* Purpose: Copy a file on ${ARCHIVE} after having chmod it in readonly |
---|
| 615 | #D-* Examples: |
---|
| 616 | #D- |
---|
| 617 | function IGCM_sys_Put_Out { |
---|
| 618 | IGCM_debug_PushStack "IGCM_sys_Put_Out" $@ |
---|
| 619 | if ( $DEBUG_sys ) ; then |
---|
| 620 | echo "IGCM_sys_Put_Out :" $@ |
---|
| 621 | fi |
---|
| 622 | |
---|
| 623 | typeset status |
---|
| 624 | |
---|
| 625 | if [ $DRYRUN = 0 ]; then |
---|
| 626 | if [ ! -f ${1} ] ; then |
---|
| 627 | echo "WARNING : IGCM_sys_Put_Out ${1} DOES NOT EXIST ." |
---|
| 628 | IGCM_debug_PopStack "IGCM_sys_Put_Out" |
---|
| 629 | return 1 |
---|
| 630 | fi |
---|
| 631 | # |
---|
| 632 | IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
| 633 | # |
---|
| 634 | if [ X${JobType} = XRUN ] ; then |
---|
| 635 | if [ X${3} = X ] ; then |
---|
| 636 | IGCM_sys_Chmod 444 ${1} |
---|
| 637 | fi |
---|
| 638 | fi |
---|
| 639 | # |
---|
| 640 | |
---|
| 641 | echo ${RSYNC} ${RSYNC_opt} $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 642 | ${RSYNC} ${RSYNC_opt} $1 $2 >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 643 | status=$? |
---|
| 644 | IGCM_sys_Rsync_out $status |
---|
| 645 | |
---|
| 646 | ${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 647 | (( status=status+$? )) |
---|
| 648 | |
---|
| 649 | if [ ${status} -gt 0 ] ; then |
---|
| 650 | IGCM_debug_Print 2 "IGCM_sys_Put_Out : rsync failed error code ${status}" |
---|
| 651 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 652 | IGCM_debug_Exit "IGCM_sys_Put_Out" |
---|
| 653 | else |
---|
| 654 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 655 | fi |
---|
| 656 | fi |
---|
| 657 | IGCM_debug_PopStack "IGCM_sys_Put_Out" |
---|
| 658 | return 0 |
---|
| 659 | } |
---|
| 660 | |
---|
| 661 | #D-#================================================== |
---|
| 662 | #D-function IGCM_sys_Get |
---|
| 663 | #D-* Purpose: Get a file from ${ARCHIVE} |
---|
| 664 | #D-* Examples: IGCM_sys_Get myfile /destpath/myfile_with_PREFIX |
---|
| 665 | #D- IGCM_sys_Get /l Array_contain_myfiles /destpath/ |
---|
| 666 | function IGCM_sys_Get { |
---|
| 667 | IGCM_debug_PushStack "IGCM_sys_Get" $@ |
---|
| 668 | |
---|
| 669 | typeset DEST status dm_liste |
---|
| 670 | |
---|
| 671 | if ( $DEBUG_sys ) ; then |
---|
| 672 | echo "IGCM_sys_Get :" $@ |
---|
| 673 | fi |
---|
| 674 | if [ $DRYRUN -le 2 ]; then |
---|
| 675 | if [ X${1} = X'/l' ] ; then |
---|
| 676 | eval set +A dm_liste \${${2}} |
---|
| 677 | else |
---|
| 678 | dm_liste=${1} |
---|
| 679 | fi |
---|
| 680 | eval DEST=\${${#}} |
---|
| 681 | |
---|
| 682 | # test if the (first) file is present in the old computation : |
---|
| 683 | IGCM_sys_TestFileArchive ${dm_liste[0]} |
---|
| 684 | status=$? |
---|
| 685 | if [ ${status} -gt 0 ] ; then |
---|
| 686 | echo "IGCM_sys_Get, ERROR : regular file ${dm_liste[0]} DOES NOT EXIST ." |
---|
| 687 | IGCM_debug_Exit "IGCM_sys_Get" |
---|
| 688 | return |
---|
| 689 | fi |
---|
| 690 | |
---|
| 691 | #USUAL WAY |
---|
| 692 | \cp ${dm_liste[*]} ${DEST} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 693 | status=$? |
---|
| 694 | |
---|
| 695 | if [ ${status} -gt 0 ] ; then |
---|
| 696 | IGCM_debug_Print 2 "IGCM_sys_Get : cp failed error code ${status}" |
---|
| 697 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 698 | IGCM_debug_Exit "IGCM_sys_Get" |
---|
| 699 | else |
---|
| 700 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 701 | fi |
---|
| 702 | fi |
---|
| 703 | IGCM_debug_PopStack "IGCM_sys_Get" |
---|
| 704 | } |
---|
| 705 | |
---|
| 706 | #D-#================================================== |
---|
| 707 | #D-function IGCM_sys_GetDate_Monitoring |
---|
| 708 | #D-* Purpose: get the last year for which the monitoring has been computed |
---|
| 709 | #D-* Examples: |
---|
| 710 | #D- |
---|
| 711 | function IGCM_sys_GetDate_Monitoring { |
---|
| 712 | IGCM_debug_PushStack "IGCM_sys_GetDate_Monitoring" $@ |
---|
| 713 | if ( $DEBUG_sys ) ; then |
---|
| 714 | echo "IGCM_sys_GetDate_Monitoring :" $@ |
---|
| 715 | fi |
---|
| 716 | |
---|
| 717 | eval ${2}=$( cdo showyear ${1} 2> /dev/null | gawk '{ print $NF }' ) |
---|
| 718 | |
---|
| 719 | IGCM_debug_PopStack "IGCM_sys_GetDate_Monitoring" |
---|
| 720 | } |
---|
| 721 | |
---|
| 722 | #D-#================================================== |
---|
| 723 | #D-function IGCM_sys_Dods_Rm |
---|
| 724 | #D-* Purpose: DO NOTHING ! Put ${ARCHIVE} files on DODS internet protocole. |
---|
| 725 | #D-* Examples: |
---|
| 726 | #D- |
---|
| 727 | function IGCM_sys_Dods_Rm { |
---|
| 728 | if ( $DEBUG_sys ) ; then |
---|
| 729 | echo "IGCM_sys_Dods_Rm :" $@ |
---|
| 730 | fi |
---|
| 731 | return 0 |
---|
| 732 | } |
---|
| 733 | |
---|
| 734 | #D-#================================================== |
---|
| 735 | #D-function IGCM_sys_Dods_Cp |
---|
| 736 | #D-* Purpose: Copy $(ARCHIVE) files on DODS internet protocole. |
---|
| 737 | #D-* Examples: |
---|
| 738 | #D- |
---|
| 739 | function IGCM_sys_Dods_Cp { |
---|
| 740 | if ( $DEBUG_sys ) ; then |
---|
| 741 | echo "IGCM_sys_Dods_Cp :" $@ |
---|
| 742 | fi |
---|
| 743 | return 0 |
---|
| 744 | } |
---|
| 745 | |
---|
| 746 | #D-#================================================== |
---|
| 747 | #D-function IGCM_sys_Put_Dods |
---|
| 748 | #D-* Purpose: Put ${ARCHIVE} files on DODS internet protocole. Dummy function here |
---|
| 749 | #D-* Examples: |
---|
| 750 | #D- |
---|
| 751 | function IGCM_sys_Put_Dods { |
---|
| 752 | IGCM_debug_PushStack "IGCM_sys_Put_Dods" $@ |
---|
| 753 | if ( $DEBUG_sys ) ; then |
---|
| 754 | echo "IGCM_sys_Put_Dods :" $@ |
---|
| 755 | fi |
---|
| 756 | IGCM_debug_PopStack "IGCM_sys_Put_Dods" |
---|
| 757 | } |
---|
| 758 | |
---|
| 759 | ############################################################## |
---|
| 760 | # REBUILD OPERATOR |
---|
| 761 | |
---|
| 762 | #D-#================================================== |
---|
| 763 | #D-function IGCM_sys_sync |
---|
[1296] | 764 | #D-* Purpose: flush buffer on disk (dummy function on Ciclad) |
---|
[1182] | 765 | #D-* Examples: |
---|
| 766 | #D- |
---|
| 767 | function IGCM_sys_sync { |
---|
| 768 | IGCM_debug_PushStack "IGCM_sys_sync" $@ |
---|
| 769 | if ( $DEBUG_sys ) ; then |
---|
| 770 | echo "IGCM_sys_sync :" $@ |
---|
| 771 | echo "Dummy call, let the system do that." |
---|
| 772 | fi |
---|
| 773 | IGCM_debug_PopStack "IGCM_sys_sync" |
---|
| 774 | } |
---|
| 775 | |
---|
| 776 | ############################################################ |
---|
| 777 | # Activate Running Environnment Variables |
---|
| 778 | |
---|
| 779 | #D-#================================================== |
---|
[1239] | 780 | #D-function IGCM_sys_activ_variables |
---|
[1182] | 781 | #D-* Purpose: set environement variables prior to execution |
---|
| 782 | #D-* Examples: |
---|
| 783 | #D- |
---|
| 784 | function IGCM_sys_activ_variables { |
---|
| 785 | IGCM_debug_PushStack "IGCM_sys_activ_variables" |
---|
| 786 | if ( $DEBUG_sys ) ; then |
---|
| 787 | echo "IGCM_sys_activ_variables" |
---|
| 788 | fi |
---|
| 789 | |
---|
| 790 | # -------------------------------------------------------------------- |
---|
[1485] | 791 | #D- MODULE specifications |
---|
| 792 | # -------------------------------------------------------------------- |
---|
| 793 | # Source the file EnvFile containing all module load needed to run the model. |
---|
| 794 | # EnvFile can be specified in config.card. If this is the case and if the file exists, |
---|
| 795 | # it will be used. Otherwise a default file will be used. |
---|
| 796 | if [ ! X${config_UserChoices_EnvFile} = X ] && [ -f ${config_UserChoices_EnvFile} ] ; then |
---|
| 797 | # EnvFile is set in config.card and the file exists |
---|
| 798 | IGCM_debug_Print 1 "EnvFile set in config.card will be used" |
---|
| 799 | EnvFile=${config_UserChoices_EnvFile} |
---|
| 800 | else |
---|
| 801 | IGCM_debug_Print 1 "IGCM_sys_active_variables : Default modules will be used" |
---|
[1558] | 802 | if [ $CENTER == spirit ] ; then |
---|
| 803 | # At spirit |
---|
| 804 | EnvFile=/home/igcmg/MachineEnvironment/mesoipsl/atlas_env_mesoipsl |
---|
[1485] | 805 | else |
---|
[1558] | 806 | # At spirit |
---|
| 807 | EnvFile=/ciclad-home/igcmg/MachineEnvironment/mesoipsl/atlas_env_mesoipsl |
---|
[1485] | 808 | fi |
---|
| 809 | fi |
---|
| 810 | IGCM_debug_Print 1 "IGCM_sys_active_variables : Following EnvFile will be used :" |
---|
| 811 | IGCM_debug_Print 1 ${EnvFile} |
---|
| 812 | . ${EnvFile} |
---|
| 813 | |
---|
[1558] | 814 | |
---|
| 815 | IGCM_debug_Print 1 "IGCM_sys_active_variables : Now loaded modules for meso-ipsl . " |
---|
[1485] | 816 | module list |
---|
[1558] | 817 | |
---|
[1485] | 818 | |
---|
| 819 | # -------------------------------------------------------------------- |
---|
[1182] | 820 | #D- MPI specifications |
---|
| 821 | # -------------------------------------------------------------------- |
---|
| 822 | |
---|
| 823 | # -------------------------------------------------------------------- |
---|
| 824 | #D- Other specifications |
---|
| 825 | # -------------------------------------------------------------------- |
---|
| 826 | |
---|
| 827 | ulimit -s unlimited |
---|
| 828 | |
---|
| 829 | IGCM_debug_PopStack "IGCM_sys_activ_variables" |
---|
| 830 | } |
---|
| 831 | |
---|
| 832 | ############################################################ |
---|
| 833 | # Desactivate Running Environnment Variables |
---|
| 834 | |
---|
| 835 | #D-#================================================== |
---|
| 836 | #D-function IGCM_sys_desactiv_variables |
---|
| 837 | #D-* Purpose: unset environement variables after execution |
---|
| 838 | #D-* Examples: |
---|
| 839 | #D- |
---|
| 840 | function IGCM_sys_desactiv_variables { |
---|
| 841 | IGCM_debug_PushStack "IGCM_sys_desactiv_variables" |
---|
| 842 | if ( $DEBUG_sys ) ; then |
---|
| 843 | echo "IGCM_sys_desactiv_variables" |
---|
| 844 | fi |
---|
| 845 | # -------------------------------------------------------------------- |
---|
| 846 | #D- MPI specifications |
---|
| 847 | # -------------------------------------------------------------------- |
---|
| 848 | |
---|
| 849 | # -------------------------------------------------------------------- |
---|
| 850 | #D- Other specifications |
---|
| 851 | # -------------------------------------------------------------------- |
---|
| 852 | |
---|
| 853 | IGCM_debug_PopStack "IGCM_sys_desactiv_variables" |
---|
| 854 | } |
---|
| 855 | |
---|
| 856 | ############################################################ |
---|
[1239] | 857 | # Update job headers to be used by the scheduler |
---|
| 858 | |
---|
| 859 | #D-#================================================== |
---|
| 860 | #D-function IGCM_sys_updateHeaders |
---|
| 861 | #D-* Purpose: Update job headers to be used by the scheduler |
---|
| 862 | #D-* Examples: IGCM_sys_updateHeaders /path/to/Job_MYEXP |
---|
| 863 | #D- |
---|
| 864 | function IGCM_sys_updateHeaders { |
---|
| 865 | IGCM_debug_PushStack "IGCM_sys_updateHeaders" |
---|
| 866 | if ( $DEBUG_sys ) ; then |
---|
| 867 | echo "IGCM_sys_updateHeaders" |
---|
| 868 | fi |
---|
| 869 | typeset file |
---|
| 870 | file=$1 |
---|
| 871 | |
---|
| 872 | if [ ${executionType} -eq 1 ] ; then |
---|
| 873 | # MPMD + MPI |
---|
| 874 | sed -e "/::openMPthreads::/d" \ |
---|
| 875 | -e "s/::JobNumProcTot::/${coreNumber}/" \ |
---|
| 876 | ${file} > ${file}.tmp |
---|
| 877 | |
---|
| 878 | elif [ ${executionType} -eq 2 ] ; then |
---|
| 879 | # MPMD + MPI + OMP |
---|
[1558] | 880 | (( nodeNumber = coreNumber / NB_CORE_PER_NODE )) |
---|
| 881 | [ $(( ${coreNumber} % ${NB_CORE_PER_NODE} )) -ne 0 ] && (( nodeNumber = nodeNumber + 1 )) |
---|
| 882 | sed -e "/::openMPthreads::/d" \ |
---|
| 883 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 884 | -e "/ntasks/i\#SBATCH --nodes=${nodeNumber}"\ |
---|
| 885 | -e "/ntasks/i\#SBATCH --exclusive" \ |
---|
| 886 | ${file} > ${file}.tmp |
---|
[1239] | 887 | elif [ ${executionType} -eq 3 ] ; then |
---|
| 888 | # SPMD + MPI/OMP |
---|
| 889 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
| 890 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 891 | ${file} > ${file}.tmp |
---|
| 892 | |
---|
| 893 | elif [ ${executionType} -eq 4 ] ; then |
---|
| 894 | # SPMD + MPI only |
---|
| 895 | sed -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 896 | -e "/::openMPthreads::/d" \ |
---|
| 897 | ${file} > ${file}.tmp |
---|
| 898 | |
---|
| 899 | elif [ ${executionType} -eq 5 ] ; then |
---|
| 900 | # SPMD + OMP only |
---|
| 901 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
| 902 | -e "/::JobNumProcTot::/d" \ |
---|
| 903 | ${file} > ${file}.tmp |
---|
| 904 | |
---|
| 905 | elif [ ${executionType} -eq 6 ] ; then |
---|
| 906 | # SEQUENTIAL THEN |
---|
| 907 | sed -e "s/::JobNumProcTot::/1/" \ |
---|
| 908 | -e "/::openMPthreads::/d" \ |
---|
| 909 | ${file} > ${file}.tmp |
---|
| 910 | |
---|
| 911 | fi |
---|
| 912 | |
---|
| 913 | IGCM_sys_Mv ${file}.tmp ${file} |
---|
| 914 | |
---|
| 915 | IGCM_debug_PopStack "IGCM_sys_updateHeaders" |
---|
| 916 | } |
---|
| 917 | |
---|
| 918 | ############################################################ |
---|
[1182] | 919 | # Build MPI/OMP scripts run file (dummy function) |
---|
| 920 | |
---|
| 921 | #D-#================================================== |
---|
| 922 | #D-function IGCM_sys_build_run_file |
---|
| 923 | #D-* Purpose: build run file (deprecated) |
---|
| 924 | #D-* Examples: |
---|
| 925 | #D- |
---|
| 926 | function IGCM_sys_build_run_file { |
---|
| 927 | IGCM_debug_Print 3 " dummy function : IGCM_sys_build_run_file " |
---|
| 928 | } |
---|
| 929 | |
---|
| 930 | ############################################################ |
---|
| 931 | # Build MPI/OMP scripts |
---|
| 932 | |
---|
| 933 | #D-#================================================== |
---|
| 934 | #D-function IGCM_sys_build_execution_scripts |
---|
| 935 | #D-* Purpose: build execution scripts to be launch by ${HOST_MPIRUN_COMMAND} |
---|
| 936 | #D-* Examples: |
---|
| 937 | #D- |
---|
| 938 | function IGCM_sys_build_execution_scripts |
---|
| 939 | { |
---|
| 940 | IGCM_debug_PushStack "IGCM_sys_build_execution_scripts" $@ |
---|
| 941 | if ( $DEBUG_sys ) ; then |
---|
| 942 | echo "IGCM_sys_build_execution_scripts " $@ |
---|
| 943 | fi |
---|
[1558] | 944 | IGCM_debug_Print 1 "executionType= ${executionType}" |
---|
[1296] | 945 | EXECUTION=${HOST_MPIRUN_COMMAND} |
---|
[1182] | 946 | |
---|
| 947 | if ( ${OK_PARA_MPMD} ) ; then |
---|
| 948 | |
---|
[1558] | 949 | # MPMD mode |
---|
| 950 | # 1 MPI only : executionType=1 |
---|
| 951 | # 2 MPI/OpenMP : executionType=2 |
---|
[1182] | 952 | |
---|
[1558] | 953 | if [ -f run_file ] ; then |
---|
| 954 | IGCM_sys_Rm -f run_file |
---|
| 955 | fi |
---|
| 956 | touch run_file |
---|
[1182] | 957 | |
---|
[1558] | 958 | # case 1 : Only MPI (MPMD) |
---|
| 959 | if ( ! ${OK_PARA_OMP} ) ; then |
---|
[1296] | 960 | # Build run_file |
---|
[1558] | 961 | current_core=0 |
---|
[1296] | 962 | # First loop on the components for the coupler ie oasis (only if oasis3) |
---|
| 963 | # the coupler ie oasis3 must be the first one |
---|
| 964 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 965 | |
---|
| 966 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 967 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 968 | |
---|
[1558] | 969 | # Only if the component has an executable |
---|
| 970 | if ( [ "X${ExeNameOut}" != X\"\" ] ) ; then |
---|
[1296] | 971 | |
---|
[1558] | 972 | # eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 973 | # (( end_core = ${current_core} + ${comp_proc_mpi_loc} - 1 )) |
---|
| 974 | # echo "${current_core}-${end_core} ./${ExeNameOut}" >> run_file |
---|
| 975 | # (( current_core = ${end_core} + 1 )) |
---|
[1296] | 976 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 977 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 978 | echo "-np ${comp_proc_mpi_loc} ./${ExeNameOut}" >> run_file |
---|
[1558] | 979 | |
---|
| 980 | fi |
---|
[1296] | 981 | done |
---|
| 982 | |
---|
| 983 | EXECUTION="${HOST_MPIRUN_COMMAND} --app ./run_file" |
---|
| 984 | |
---|
| 985 | IGCM_sys_Chmod u+x run_file |
---|
| 986 | if ( $DEBUG_sys ) ; then |
---|
| 987 | echo "run_file contains : " |
---|
| 988 | cat run_file |
---|
| 989 | fi |
---|
| 990 | |
---|
[1558] | 991 | else |
---|
[1182] | 992 | |
---|
[1558] | 993 | # 2 MPI/OpenMP : executionType=2 |
---|
[1182] | 994 | |
---|
[1558] | 995 | # MPI-OpenMP (MPMD) |
---|
| 996 | # export SLURM_HOSTFILE=./hostlist |
---|
| 997 | # srun --cpu-bind=none --distribution=arbitrary --multi-prog ./run_file |
---|
| 998 | # example of hostlist file : |
---|
| 999 | # r3i3n33 |
---|
| 1000 | # r3i3n33 |
---|
| 1001 | # ... |
---|
| 1002 | # example of run_file : |
---|
| 1003 | # 0-70 ./prog_lmdz.x.sh %o %t |
---|
| 1004 | # 71-430 ./prog_opa.xx.sh %o %t |
---|
| 1005 | # 431-431 ./prog_xios.x.sh %o %t |
---|
| 1006 | # examples of prog_file : |
---|
| 1007 | # prog_lmdz.x.sh : |
---|
| 1008 | # (( init = 0 + $1 )) |
---|
| 1009 | # (( index = init * 10 )) |
---|
| 1010 | # (( slot = index % 40 )) |
---|
| 1011 | # taskset -c $slot-$((slot + 10 - 1)) ./script_lmdz.x.ksh |
---|
| 1012 | # that will become |
---|
| 1013 | # taskset -c 0-9 ./script_lmdz.x.ksh |
---|
| 1014 | # ... |
---|
| 1015 | # with script_lmdz.x.ksh |
---|
| 1016 | # export OMP_STACKSIZE=3g |
---|
| 1017 | # export OMP_PLACES=cores |
---|
| 1018 | # export OMP_NUM_THREADS=10 |
---|
| 1019 | # ./lmdz.x > out_lmdz.x.out.${SLURM_PROCID} 2>out_lmdz.x.err.${SLURM_PROCID} |
---|
[1182] | 1020 | |
---|
[1558] | 1021 | # Hosts treatment |
---|
| 1022 | _bkIFS=$IFS; |
---|
| 1023 | IFS=$'\n'; set -f |
---|
| 1024 | listnodes=($(< <( scontrol show hostnames $SLURM_JOB_NODELIST ))) |
---|
| 1025 | IFS=$_bkIFS; set +f |
---|
| 1026 | rm -f hostlist |
---|
[1182] | 1027 | |
---|
[1558] | 1028 | # Loop on the components to build run_file and script_exec files |
---|
| 1029 | rank=0 |
---|
| 1030 | current_core=0 |
---|
| 1031 | current_core_mpi=0 |
---|
[1182] | 1032 | |
---|
| 1033 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1034 | |
---|
[1296] | 1035 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 1036 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
[1182] | 1037 | |
---|
[1296] | 1038 | # Not possible if oasis has an executable (i.e old version of oasis3) |
---|
| 1039 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" = "XCPL" ] ) ; then |
---|
| 1040 | IGCM_debug_Exit "ERROR MPMD with hybrid MPI-OpenMP is not available with oasis3 version" |
---|
| 1041 | IGCM_debug_Print 2 "Only available with oasis3-MCT version coupler" |
---|
| 1042 | IGCM_debug_Verif_Exit |
---|
[1182] | 1043 | fi |
---|
| 1044 | |
---|
| 1045 | # Only if we really have an executable for the component : |
---|
[1296] | 1046 | if [ "X${ExeNameOut}" != X\"\" ] ; then |
---|
[1182] | 1047 | |
---|
| 1048 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1049 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
[1558] | 1050 | eval comp_proc_nod_loc=\${${comp}_PROC_NOD} |
---|
| 1051 | |
---|
[1182] | 1052 | |
---|
[1558] | 1053 | # Build script files |
---|
| 1054 | |
---|
[1182] | 1055 | echo "#!/bin/ksh" > script_${ExeNameOut}.ksh |
---|
| 1056 | echo "" >> script_${ExeNameOut}.ksh |
---|
[1296] | 1057 | if [ ${comp_proc_omp_loc} -gt 1 ] ; then |
---|
[1558] | 1058 | # Check if the number of threads is correct |
---|
| 1059 | case ${comp_proc_omp_loc} in |
---|
| 1060 | 2|4|5|10|20) |
---|
| 1061 | IGCM_debug_Print 1 "You run ${ExeNameOut} on ${comp_proc_omp_loc} OMP threads" |
---|
| 1062 | ;; |
---|
| 1063 | *) |
---|
| 1064 | IGCM_debug_Exit "ERROR with OMP parameters !" |
---|
| 1065 | IGCM_debug_Print 2 "${comp_proc_omp_loc} is not possible as number of OMP threads" |
---|
| 1066 | IGCM_debug_Print 2 "Only 2,4,5,10,20 as number of OMP threads are possible " |
---|
| 1067 | IGCM_debug_Verif_Exit |
---|
| 1068 | ;; |
---|
| 1069 | esac |
---|
| 1070 | echo "export OMP_STACKSIZE=3g" >> script_${ExeNameOut}.ksh |
---|
| 1071 | echo "export OMP_PLACES=cores" >> script_${ExeNameOut}.ksh |
---|
| 1072 | echo "export OMP_NUM_THREADS=${comp_proc_omp_loc}" >> script_${ExeNameOut}.ksh |
---|
[1296] | 1073 | |
---|
| 1074 | fi |
---|
[1318] | 1075 | |
---|
[1558] | 1076 | # to have out/err per process on different files |
---|
| 1077 | echo "./${ExeNameOut} > out_${ExeNameOut}.out.\${SLURM_PROCID} 2>out_${ExeNameOut}.err.\${SLURM_PROCID}" >> script_${ExeNameOut}.ksh |
---|
| 1078 | |
---|
[1182] | 1079 | IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh |
---|
| 1080 | |
---|
[1558] | 1081 | # Build run_file |
---|
| 1082 | # Only if the component has an executable |
---|
| 1083 | if ( [ "X${ExeNameOut}" != X\"\" ] ) ; then |
---|
| 1084 | |
---|
| 1085 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1086 | (( end_core = ${current_core_mpi} + ${comp_proc_mpi_loc} - 1 )) |
---|
| 1087 | echo "${current_core_mpi}-${end_core} ./prog_${ExeNameOut}.sh %o %t" >> run_file |
---|
| 1088 | (( current_core_mpi = ${end_core} + 1 )) |
---|
| 1089 | fi |
---|
| 1090 | |
---|
| 1091 | if [ ${comp_proc_nod_loc} -gt 1 ] ; then |
---|
| 1092 | (( offset_comp_proc_loc = NB_CORE_PER_NODE / (comp_proc_mpi_loc / comp_proc_nod_loc) )) |
---|
[1296] | 1093 | else |
---|
[1558] | 1094 | (( offset_comp_proc_loc = comp_proc_omp_loc )) |
---|
[1296] | 1095 | fi |
---|
[1182] | 1096 | |
---|
[1558] | 1097 | # Build configuration file |
---|
| 1098 | |
---|
| 1099 | echo "#!/bin/sh" > prog_${ExeNameOut}.sh |
---|
| 1100 | echo "(( init = $current_core + \$1 ))" >> prog_${ExeNameOut}.sh |
---|
| 1101 | echo "(( index = init * $comp_proc_omp_loc ))" >> prog_${ExeNameOut}.sh |
---|
| 1102 | echo "(( slot = index % 40 ))" >> prog_${ExeNameOut}.sh |
---|
| 1103 | echo "echo ${ExeNameOut} taskset -c \$slot"-"\$((slot + $comp_proc_omp_loc - 1))" >> prog_${ExeNameOut}.sh |
---|
| 1104 | echo "taskset -c \$slot"-"\$((slot + $comp_proc_omp_loc - 1)) ./script_${ExeNameOut}.ksh" >> prog_${ExeNameOut}.sh |
---|
[1182] | 1105 | |
---|
[1558] | 1106 | IGCM_sys_Chmod u+x prog_${ExeNameOut}.sh |
---|
| 1107 | |
---|
| 1108 | # Build hostlist file |
---|
| 1109 | |
---|
[1296] | 1110 | for nb_proc_mpi in `seq 0 $(($comp_proc_mpi_loc-1))`; do |
---|
[1558] | 1111 | (( index_host = current_core / NB_CORE_PER_NODE )) |
---|
| 1112 | host_value=${listnodes[${index_host}]} |
---|
| 1113 | echo "$host_value" >> hostlist |
---|
| 1114 | (( current_core = current_core + offset_comp_proc_loc )) |
---|
[1182] | 1115 | done |
---|
| 1116 | fi |
---|
| 1117 | done |
---|
| 1118 | |
---|
[1558] | 1119 | ## variable added to stop after 60s instead of 600s by default. |
---|
| 1120 | ## This is used when no error comes from executables and when something stopped an executable without notice. |
---|
| 1121 | export SLURM_WAIT=60 |
---|
| 1122 | |
---|
| 1123 | EXECUTION="${HOST_MPIRUN_COMMAND} --cpu-bind=none --distribution=arbitrary --multi-prog ./run_file" |
---|
| 1124 | |
---|
| 1125 | IGCM_sys_Chmod u+x run_file |
---|
| 1126 | if ( $DEBUG_sys ) ; then |
---|
| 1127 | echo "run_file contains : " |
---|
| 1128 | cat run_file |
---|
| 1129 | fi |
---|
| 1130 | |
---|
| 1131 | fi # if ${OK_PARA_MPMD} |
---|
| 1132 | |
---|
[1296] | 1133 | else |
---|
[1558] | 1134 | # Only one executable (SPMD mode): executionType=3, 4, 5 and 6 |
---|
[1182] | 1135 | |
---|
| 1136 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1137 | |
---|
| 1138 | # Only if we really have an executable for the component : |
---|
| 1139 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 1140 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${ExeNameOut}" != "Xinca.dat" ] ) ; then |
---|
| 1141 | |
---|
[1558] | 1142 | # Build script files |
---|
| 1143 | |
---|
[1182] | 1144 | echo "#!/bin/ksh" > script_${ExeNameOut}.ksh |
---|
| 1145 | echo "" >> script_${ExeNameOut}.ksh |
---|
[1558] | 1146 | IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh |
---|
| 1147 | |
---|
[1182] | 1148 | if ( ${OK_PARA_OMP} ) ; then |
---|
[1558] | 1149 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 1150 | # Check if the number of threads is correct |
---|
| 1151 | case ${comp_proc_omp_loc} in |
---|
| 1152 | 2|4|5|10|20) |
---|
| 1153 | IGCM_debug_Print 1 "You run ${ExeNameOut} on ${comp_proc_omp_loc} OMP threads" |
---|
| 1154 | ;; |
---|
| 1155 | *) |
---|
| 1156 | IGCM_debug_Exit "ERROR with OMP parameters !" |
---|
| 1157 | IGCM_debug_Print 2 "${comp_proc_omp_loc} is not possible as number of OMP threads" |
---|
| 1158 | IGCM_debug_Print 2 "Only 2,4,5,10,20 as number of OMP threads are possible " |
---|
| 1159 | IGCM_debug_Verif_Exit |
---|
| 1160 | ;; |
---|
| 1161 | esac |
---|
| 1162 | echo "" >> script_${ExeNameOut}.ksh |
---|
| 1163 | echo "export OMP_STACKSIZE=3g" >> script_${ExeNameOut}.ksh |
---|
| 1164 | echo "export OMP_PLACES=cores" >> script_${ExeNameOut}.ksh |
---|
| 1165 | echo "OMP_NUM_THREADS=${comp_proc_omp_loc}" >> script_${ExeNameOut}.ksh |
---|
[1182] | 1166 | fi |
---|
| 1167 | |
---|
[1558] | 1168 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1169 | |
---|
| 1170 | # To have out/err per process on different files |
---|
| 1171 | echo "./${ExeNameOut} > out_${ExeNameOut}.out.\${SLURM_PROCID} 2>out_${ExeNameOut}.err.\${SLURM_PROCID}" >> script_${ExeNameOut}.ksh |
---|
| 1172 | EXECUTION="${HOST_MPIRUN_COMMAND} ./script_${ExeNameOut}.ksh" |
---|
| 1173 | |
---|
| 1174 | IGCM_debug_Print 1 "sys Jean-Zay : script_${ExeNameOut}.ksh contains" |
---|
[1182] | 1175 | cat script_${ExeNameOut}.ksh |
---|
| 1176 | |
---|
| 1177 | fi |
---|
| 1178 | |
---|
| 1179 | done |
---|
| 1180 | |
---|
[1558] | 1181 | fi # ${OK_PARA_MPMD} |
---|
[1182] | 1182 | |
---|
[1558] | 1183 | IGCM_debug_Print 1 "sys meso-ipsl : execution command is " |
---|
[1182] | 1184 | IGCM_debug_Print 1 "$EXECUTION" |
---|
| 1185 | |
---|
| 1186 | IGCM_debug_PopStack "IGCM_sys_build_execution_scripts" |
---|
| 1187 | } |
---|
| 1188 | |
---|
| 1189 | #D-#================================================== |
---|
| 1190 | #D-function IGCM_sys_check_path |
---|
| 1191 | #D-* Purpose: check that RUN_DIR_PATH that will be removed on some machine |
---|
| 1192 | #D-* do not point to an important use directory. Stop immediately in that case. |
---|
| 1193 | #D-* Examples: |
---|
| 1194 | #D- |
---|
| 1195 | function IGCM_sys_check_path { |
---|
| 1196 | IGCM_debug_PushStack "IGCM_sys_check_path" |
---|
| 1197 | if ( $DEBUG_sys ) ; then |
---|
| 1198 | echo "IGCM_sys_check_path" |
---|
| 1199 | fi |
---|
| 1200 | |
---|
| 1201 | if ( [ X${RUN_DIR_PATH} = X${HOME} ] || [ X${RUN_DIR_PATH} = X${ARCHIVE} ] ) ; then |
---|
| 1202 | IGCM_debug_Print 1 "Variable RUN_DIR_PATH is pointing to an important directory : ${RUN_DIR_PATH}" |
---|
| 1203 | IGCM_debug_Print 1 "Please check the RUN_DIR_PATH definition in your Job : Job_${config_UserChoices_JobName}" |
---|
| 1204 | IGCM_debug_Exit "This will stop the job" |
---|
| 1205 | fi |
---|
| 1206 | IGCM_debug_PopStack "IGCM_sys_check_path" |
---|
| 1207 | } |
---|
| 1208 | |
---|
| 1209 | #D-#================================================== |
---|
| 1210 | #D-function IGCM_sys_check_quota. Dummy call here |
---|
| 1211 | #D-* Purpose: check user quota. Stop the simulation if quota above 90% |
---|
| 1212 | #D-* Examples: |
---|
| 1213 | #D- |
---|
| 1214 | function IGCM_sys_check_quota { |
---|
| 1215 | IGCM_debug_PushStack "IGCM_sys_check_quota" |
---|
| 1216 | if ( $DEBUG_sys ) ; then |
---|
| 1217 | echo "IGCM_sys_check_quota" |
---|
| 1218 | fi |
---|
| 1219 | |
---|
| 1220 | # TO BE IMPLEMENTED |
---|
| 1221 | |
---|
| 1222 | IGCM_debug_PopStack "IGCM_sys_check_quota" |
---|
| 1223 | } |
---|
| 1224 | |
---|
| 1225 | #D-#================================================== |
---|
[1286] | 1226 | #D-function IGCM_sys_projectAccounting |
---|
| 1227 | #D-* Purpose: store project accounting information in a file |
---|
| 1228 | #D-* Examples: |
---|
| 1229 | #D- |
---|
| 1230 | function IGCM_sys_projectAccounting { |
---|
| 1231 | IGCM_debug_PushStack "IGCM_sys_projectAccounting" |
---|
| 1232 | if ( $DEBUG_sys ) ; then |
---|
| 1233 | echo "IGCM_sys_check_quota" |
---|
| 1234 | fi |
---|
| 1235 | |
---|
| 1236 | touch $1 |
---|
| 1237 | |
---|
| 1238 | IGCM_debug_PopStack "IGCM_sys_projectAccounting" |
---|
| 1239 | } |
---|
| 1240 | |
---|
| 1241 | #D-#================================================== |
---|
[1244] | 1242 | #D-function IGCM_sys_getJobSchedulerID |
---|
| 1243 | #D-* Purpose: Get the job ID during execution |
---|
| 1244 | #D-* Examples: IGCM_sys_getJobSchedulerID jobSchedulerID |
---|
| 1245 | #D- |
---|
| 1246 | function IGCM_sys_getJobSchedulerID { |
---|
| 1247 | IGCM_debug_PushStack "IGCM_sys_getJobSchedulerID" |
---|
| 1248 | if ( $DEBUG_sys ) ; then |
---|
| 1249 | echo "IGCM_sys_getJobSchedulerID" |
---|
| 1250 | fi |
---|
| 1251 | |
---|
| 1252 | eval ${1}=$( echo ${PBS_JOBID} | awk -F. '{print $1}' ) |
---|
| 1253 | |
---|
| 1254 | IGCM_debug_PopStack "IGCM_sys_getJobSchedulerID" |
---|
| 1255 | } |
---|
| 1256 | |
---|
| 1257 | #D-#================================================== |
---|
[1182] | 1258 | #D-function IGCM_sys_GetJobID |
---|
[1244] | 1259 | #D-* Purpose: Get the job ID from the JobName |
---|
[1182] | 1260 | #D-* Examples: IGCM_sys_GetJobID ${JobName} ${TargetUsr} JobID |
---|
| 1261 | #D- |
---|
| 1262 | function IGCM_sys_GetJobID { |
---|
| 1263 | IGCM_debug_PushStack "IGCM_sys_GetJobID" |
---|
| 1264 | if ( $DEBUG_sys ) ; then |
---|
| 1265 | echo "IGCM_sys_GetJobID" |
---|
| 1266 | fi |
---|
| 1267 | |
---|
| 1268 | # With -f option, the full job name is given in the last column |
---|
| 1269 | ID="$( qstat -u $2 | grep -w $1 | gawk '-F ' '{print $10}' )" |
---|
| 1270 | |
---|
| 1271 | eval ${3}=${ID} |
---|
| 1272 | IGCM_debug_PopStack "IGCM_sys_GetJobID" |
---|
| 1273 | } |
---|
| 1274 | |
---|
| 1275 | #D-#================================================== |
---|
| 1276 | #D-function IGCM_sys_CountJobInQueue |
---|
[1244] | 1277 | #D-* Purpose: Count number of users job |
---|
[1182] | 1278 | #D-* Examples: IGCM_sys_CountJobInQueue ${JobName} NbRun |
---|
| 1279 | #D- |
---|
| 1280 | function IGCM_sys_CountJobInQueue { |
---|
| 1281 | IGCM_debug_PushStack "IGCM_sys_CountJobInQueue" |
---|
| 1282 | if ( $DEBUG_sys ) ; then |
---|
| 1283 | echo "IGCM_sys_CountJobInQueue" |
---|
| 1284 | fi |
---|
| 1285 | IGCM_debug_PopStack "IGCM_sys_CountJobInQueue" |
---|
| 1286 | } |
---|
[1272] | 1287 | |
---|
| 1288 | #D-#================================================== |
---|
| 1289 | #D-function IGCM_sys_atlas |
---|
| 1290 | #D-* Purpose: encapsulate atlas call so as to manage error code and curie specificity |
---|
| 1291 | #D-* Examples: |
---|
| 1292 | #D- |
---|
| 1293 | function IGCM_sys_atlas { |
---|
| 1294 | IGCM_debug_PushStack "IGCM_sys_atlas" $@ |
---|
| 1295 | if ( $DEBUG_sys ) ; then |
---|
| 1296 | echo "IGCM_sys_atlas :" $@ |
---|
| 1297 | fi |
---|
| 1298 | |
---|
| 1299 | typeset status |
---|
| 1300 | |
---|
| 1301 | \atlas $@ > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 1302 | status=$? |
---|
| 1303 | if [ ${status} -gt 0 ] ; then |
---|
| 1304 | echo "IGCM_sys_atlas : error code ${status}" |
---|
| 1305 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 1306 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 1307 | IGCM_debug_PopStack "IGCM_sys_atlas" |
---|
| 1308 | return 1 |
---|
| 1309 | else |
---|
| 1310 | IGCM_debug_PopStack "IGCM_sys_atlas" |
---|
| 1311 | return 0 |
---|
| 1312 | fi |
---|
| 1313 | |
---|
| 1314 | IGCM_debug_PopStack "IGCM_sys_atlas" |
---|
| 1315 | } |
---|
| 1316 | |
---|
[1380] | 1317 | #D-#================================================== |
---|
| 1318 | #D-function IGCM_sys_rebuild_nemo |
---|
| 1319 | #D-* Purpose: rebuild nemo parallel files with general rebuild |
---|
| 1320 | #D-* Examples: |
---|
| 1321 | #D- |
---|
| 1322 | |
---|
| 1323 | function IGCM_sys_rebuild_nemo { |
---|
| 1324 | IGCM_debug_PushStack "IGCM_sys_rebuild_nemo" $@ |
---|
| 1325 | if ( $DEBUG_sys ) ; then |
---|
| 1326 | echo "IGCM_sys_rebuild_nemo :" $@ |
---|
| 1327 | fi |
---|
| 1328 | |
---|
| 1329 | nemo_generic_restart_file_name_out=${1} |
---|
| 1330 | nemo_extension_out=${3} |
---|
| 1331 | shift ; shift ; shift |
---|
| 1332 | |
---|
| 1333 | IGCM_sys_rebuild -o ${nemo_generic_restart_file_name_out}.${nemo_extension_out} $@ |
---|
| 1334 | |
---|
| 1335 | IGCM_debug_PopStack "IGCM_sys_rebuild_nemo" |
---|
| 1336 | } |
---|
| 1337 | |
---|
| 1338 | |
---|
| 1339 | |
---|