[771] | 1 | #!/bin/ksh |
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| 2 | |
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| 3 | #************************************************************** |
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| 4 | # Author: Sébastien 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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| 21 | #D-LibIGCM_sys for Ada |
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| 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=${DEBUG_sys:=true} |
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| 37 | |
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| 38 | #==================================================== |
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| 39 | # Turn in dry run mode ? (sys_Put_Rest, sys_Put_Out, sys_Get) |
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| 40 | typeset -r DRYRUN=${DRYRUN:=0} |
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| 41 | |
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| 42 | # YOU MUST COMPILE YOUR EXE FILES FOR DRYRUN MODE ! |
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| 43 | # ------------------------------------------------------------------------------------- |
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| 44 | # | DRYRUN= | Date computations, | sys_Get | Exe | sys_Put_Out; sys_Put_Rest | |
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[809] | 45 | # | | Cp/Exe/param/files | | | | |
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| 46 | # | | Chmod Qsub | | | | |
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[771] | 47 | # ------------------------------------------------------------------------------------- |
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| 48 | # | 0 | yes | yes | yes | yes | |
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| 49 | # ------------------------------------------------------------------------------------- |
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| 50 | # | 1 | yes | yes | yes | no | |
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| 51 | # ------------------------------------------------------------------------------------- |
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| 52 | # | 2 | yes | yes | no | no | |
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| 53 | # ------------------------------------------------------------------------------------- |
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| 54 | # | 3 | yes | no | no | no | |
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| 55 | # ------------------------------------------------------------------------------------- |
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| 56 | |
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| 57 | #===================================================== |
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| 58 | # Global Variables : |
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| 59 | #===================================================== |
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| 60 | # Language : "fr" or "en" |
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| 61 | typeset -r MYLANG="fr" |
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| 62 | |
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| 63 | #===================================================== |
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| 64 | # Host and user names |
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| 65 | # $hostname ou hostname |
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[1179] | 66 | typeset HOST=${HOST:=$( hostname )} |
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[771] | 67 | # $username ou whoami |
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[1179] | 68 | typeset LOGIN=${LOGIN:=$( whoami )} |
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[771] | 69 | # $hostname of the MASTER job |
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| 70 | typeset MASTER=ada |
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[1201] | 71 | # project name |
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| 72 | typeset PROJECT=$(echo ${LOADL_STEP_GROUP:=NONE}) |
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| 73 | # jobWarningDelay in seconds |
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[1236] | 74 | typeset jobWarningDelay=$( TZ=utc date -d '1970-01-01 '${wall_clock_limit} +%s ) |
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[771] | 75 | |
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| 76 | #D- |
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| 77 | #D-#================================================== |
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| 78 | #D-Program used in libIGCM |
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| 79 | #D-#================================================== |
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| 80 | |
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| 81 | # Submit command |
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| 82 | typeset SUBMIT=${SUBMIT:=llsubmit} |
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| 83 | # rsync with path |
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| 84 | typeset -r RSYNC=/usr/bin/rsync |
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| 85 | # RSYNC_opt args to rsync |
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| 86 | typeset -r RSYNC_opt="-va" |
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| 87 | # ie storage filesystem |
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[1012] | 88 | typeset -r STOREHOST=ergon |
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[1180] | 89 | typeset -r REMOTE_RSYNC=/usr/bin/rsync |
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[771] | 90 | |
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| 91 | #==================================================== |
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[1180] | 92 | # Set environment tools (ferret, nco, cdo, rebuild, ...) |
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[771] | 93 | #==================================================== |
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[993] | 94 | source /smplocal/pub/Modules/default/init/ksh |
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[1305] | 95 | if ( [ "X${LOADL_STEP_TYPE}" = "XPARALLEL" ] || [ "X${LOADL_STEP_TYPE}" = "XSERIAL" ] ) ; then |
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| 96 | . /smphome/rech/psl/rpsl035/.atlas_env_ada_intel_2013_0_bash > /dev/null 2>&1 |
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| 97 | else |
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| 98 | module load intel/2016.2 > /dev/null 2>&1 |
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| 99 | . /smphome/rech/psl/rpsl035/.atlas_env_ada_bash > /dev/null 2>&1 |
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[1308] | 100 | PCMDI_MP=/workgpfs/rech/psl/rpsl035/PCMDI-MP |
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| 101 | export UVCDAT_ANONYMOUS_LOG=no |
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[1305] | 102 | fi |
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[1210] | 103 | [ ! X${TaskType} = Xchecking ] && IGCM_debug_Print 1 "List of loaded modules:" |
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| 104 | [ ! X${TaskType} = Xchecking ] && module list |
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[1208] | 105 | |
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[993] | 106 | export PATH=${PATH}:/smphome/rech/psl/rpsl035/AddNoise/src_X64_ADA/bin |
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[1026] | 107 | export PATH=${PATH}:/smphome/rech/psl/rpsl035/AddPerturbation/src_X64_ADA/bin |
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[1179] | 108 | export PATH=${PATH}:/smphome/rech/psl/rpsl035/bin/ |
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[771] | 109 | |
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| 110 | #==================================================== |
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| 111 | # Host specific DIRECTORIES |
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| 112 | #==================================================== |
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| 113 | |
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| 114 | #==================================================== |
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| 115 | #- MirrorlibIGCM for frontend |
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| 116 | typeset -r MirrorlibIGCM=${MirrorlibIGCM:=false} |
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| 117 | |
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| 118 | #==================================================== |
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| 119 | #- libIGCM_POST for frontend |
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| 120 | typeset -r libIGCM_POST=${libIGCM} |
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| 121 | |
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| 122 | #==================================================== |
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| 123 | #- R_EXE (==> BIN_DIR = ${MODIPSL}/bin ) |
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| 124 | typeset -r R_EXE="${MODIPSL}/bin" |
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| 125 | |
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| 126 | #==================================================== |
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| 127 | #- SUBMIT_DIR : submission dir |
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[1012] | 128 | typeset -x SUBMIT_DIR=${SUBMIT_DIR:=${LOADL_STEP_INITDIR}} |
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[771] | 129 | |
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| 130 | #==================================================== |
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| 131 | #- IN |
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| 132 | typeset -r R_IN=${R_IN:=/workgpfs/rech/psl/rpsl035/IGCM} |
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| 133 | typeset -r R_IN_ECMWF=${R_IN_ECMWF:=/u/rech/psl/rpsl376} |
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| 134 | |
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| 135 | #==================================================== |
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| 136 | #- RUN_DIR_PATH : Temporary working directory (=> TMP) |
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| 137 | typeset -r RUN_DIR_PATH=${RUN_DIR_PATH:=${TMPDIR}} |
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| 138 | |
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| 139 | #==================================================== |
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[1179] | 140 | #- OUTCOMMAND_PATH : tmp place to store command lines standard error and outputs |
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[1186] | 141 | typeset -r OUTCOMMAND_PATH=${RUN_DIR_PATH:-/tmp} |
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[1179] | 142 | |
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| 143 | #==================================================== |
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[771] | 144 | #- HOST_MPIRUN_COMMAND |
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[1305] | 145 | if ( [ "X${LOADL_STEP_TYPE}" = "XPARALLEL" ] || [ "X${LOADL_STEP_TYPE}" = "XSERIAL" ] ) ; then |
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| 146 | typeset -r HOST_MPIRUN_COMMAND=${HOST_MPIRUN_COMMAND:="/usr/bin/time poe"} |
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| 147 | else |
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| 148 | typeset -r HOST_MPIRUN_COMMAND=${HOST_MPIRUN_COMMAND:="/usr/bin/time mpirun"} |
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| 149 | fi |
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[771] | 150 | #==================================================== |
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| 151 | #- Max number of arguments passed to nco operator or demigration command |
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| 152 | UNIX_MAX_LIMIT=360 |
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| 153 | |
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| 154 | #==================================================== |
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[1180] | 155 | #- set PackDefault to true on ada |
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[771] | 156 | PackDefault=true |
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| 157 | |
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| 158 | #==================================================== |
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[1305] | 159 | #- Number of cores per node |
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| 160 | core_per_node=32 |
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| 161 | |
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| 162 | #==================================================== |
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[771] | 163 | #- Default number of MPI task for IPSL coupled model |
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| 164 | #- required for backward compatibility |
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| 165 | #- |
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| 166 | DEFAULT_NUM_PROC_OCE=5 |
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| 167 | DEFAULT_NUM_PROC_CPL=1 |
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| 168 | (( DEFAULT_NUM_PROC_ATM = BATCH_NUM_PROC_TOT - DEFAULT_NUM_PROC_OCE - DEFAULT_NUM_PROC_CPL )) |
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| 169 | |
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| 170 | #D-#================================================== |
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[1057] | 171 | #D-function IGCM_sys_defineArchives |
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| 172 | #D-* Purpose: |
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| 173 | #D-* Define ARCHIVE : Dedicated to large files |
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| 174 | #D-* Define STORAGE : Dedicated to small/medium files |
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| 175 | #D-* Define R_OUT : Output tree located on ARCHIVE |
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| 176 | #D-* Define R_FIG : Output tree located on STORAGE hosting figures (monitoring and atlas, and/or small files) |
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| 177 | #D-* Define R_BUF : Output tree located on SCRATCHDIR hosting files waiting for rebuild or pack processes |
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| 178 | #D-* if SpaceName=TEST everything is stored on WORKDIR |
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[771] | 179 | #D-* Examples: |
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| 180 | #D- |
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[1057] | 181 | function IGCM_sys_defineArchives { |
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| 182 | IGCM_debug_PushStack "IGCM_sys_defineArchives" |
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[771] | 183 | |
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[1060] | 184 | if [ ! X${config_UserChoices_ARCHIVE} = X ]; then |
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[1057] | 185 | #==================================================== |
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| 186 | #- ARCHIVE (dedicated to large files) |
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[1063] | 187 | ARCHIVE=${config_UserChoices_ARCHIVE} |
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[1057] | 188 | else |
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| 189 | #==================================================== |
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| 190 | #- ARCHIVE (dedicated to large files) |
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[1063] | 191 | ARCHIVE=$(echo ${HOME} | sed -e "s,/.*home/,/arch/home/,") |
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[1057] | 192 | fi |
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[771] | 193 | |
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[1060] | 194 | if [ ! X${config_UserChoices_STORAGE} = X ]; then |
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[1057] | 195 | #==================================================== |
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| 196 | #- STORAGE (dedicated to small/medium files) |
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[1063] | 197 | STORAGE=${config_UserChoices_STORAGE} |
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[1057] | 198 | else |
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| 199 | #==================================================== |
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| 200 | #- STORAGE (dedicated to small/medium files) |
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[1063] | 201 | STORAGE=${WORKDIR} |
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[1057] | 202 | fi |
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[771] | 203 | |
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[1057] | 204 | if [ X${config_UserChoices_SpaceName} = XTEST ]; then |
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| 205 | #==================================================== |
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| 206 | #- R_OUT |
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[1063] | 207 | R_OUT=${WORKDIR}/IGCM_OUT |
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[1057] | 208 | |
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| 209 | #==================================================== |
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| 210 | #- R_FIG (hosting figures : monitoring and atlas, and/or small files) |
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[1063] | 211 | R_FIG=${WORKDIR}/IGCM_OUT |
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[1057] | 212 | |
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| 213 | IGCM_debug_Print 1 "SpaceName=TEST ==> OVERRULE destination path directories" |
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| 214 | |
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| 215 | else |
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| 216 | #==================================================== |
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| 217 | #- R_OUT |
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[1063] | 218 | R_OUT=${ARCHIVE}/IGCM_OUT |
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[1057] | 219 | |
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| 220 | #==================================================== |
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| 221 | #- R_FIG (hosting figures : monitoring and atlas, and/or small files) |
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[1063] | 222 | R_FIG=${ARCHIVE}/IGCM_OUT |
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[1057] | 223 | fi |
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| 224 | |
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| 225 | #==================================================== |
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| 226 | #- R_BUF (ONLY FOR double copy an scratch) |
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[1063] | 227 | R_BUF=${WORKDIR}/IGCM_OUT |
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[1057] | 228 | |
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| 229 | IGCM_debug_Print 1 "R_OUT has been defined = ${R_OUT}" |
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| 230 | IGCM_debug_Print 1 "R_BUF has been defined = ${R_BUF}" |
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| 231 | IGCM_debug_Print 1 "R_FIG has been defined = ${R_FIG}" |
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| 232 | |
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| 233 | IGCM_debug_PopStack "IGCM_sys_defineArchives" |
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[771] | 234 | } |
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| 235 | |
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| 236 | #D-#================================================== |
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| 237 | #D-function IGCM_sys_RshArchive |
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| 238 | #D-* Purpose: Archive rsh command |
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| 239 | #D-* Examples: |
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| 240 | #D- |
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| 241 | function IGCM_sys_RshArchive { |
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| 242 | IGCM_debug_PushStack "IGCM_sys_RshArchive" $@ |
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[798] | 243 | DEBUG_sys=false IGCM_sys_IsFileArchived "$@" |
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[1179] | 244 | if [ $? = 0 ] ; then |
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[798] | 245 | rsh ${STOREHOST} exec /bin/ksh <<-EOF |
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[771] | 246 | ${@} |
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| 247 | EOF |
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[798] | 248 | status=$? |
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| 249 | else |
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| 250 | /bin/ksh <<-EOF |
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| 251 | ${@} |
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| 252 | EOF |
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| 253 | status=$? |
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| 254 | fi |
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| 255 | if [ ${status} -gt 0 ] ; then |
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| 256 | IGCM_debug_Print 2 "IGCM_sys_RshArchive : rsh or command failed error code ${status}" |
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[771] | 257 | IGCM_debug_Exit "IGCM_sys_RshArchive" |
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| 258 | fi |
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| 259 | IGCM_debug_PopStack "IGCM_sys_RshArchive" |
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| 260 | } |
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| 261 | |
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| 262 | #D-#================================================== |
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[845] | 263 | #D-function IGCM_sys_RshArchive_NoError |
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| 264 | #D-* Purpose: Archive rsh command, without error |
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| 265 | #D-* used only in monitoring.job |
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| 266 | #D-* Examples: |
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| 267 | #D- |
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| 268 | function IGCM_sys_RshArchive_NoError { |
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| 269 | IGCM_debug_PushStack "IGCM_sys_RshArchive_NoError" $@ |
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| 270 | DEBUG_sys=false IGCM_sys_IsFileArchived "$@" |
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| 271 | if [ $? = 0 ] ; then |
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| 272 | rsh ${STOREHOST} exec /bin/ksh <<-EOF |
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| 273 | ${@} 2> /dev/null |
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| 274 | EOF |
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| 275 | else |
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| 276 | /bin/ksh <<-EOF |
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| 277 | ${@} 2> /dev/null |
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| 278 | EOF |
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| 279 | fi |
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| 280 | IGCM_debug_PopStack "IGCM_sys_RshArchive_NoError" |
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| 281 | } |
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| 282 | |
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| 283 | #D-#================================================== |
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[771] | 284 | #D-function IGCM_sys_MkdirArchive |
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| 285 | #D-* Purpose: Mkdir on Archive |
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| 286 | #D-* Examples: |
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| 287 | #D- |
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| 288 | function IGCM_sys_MkdirArchive { |
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| 289 | IGCM_debug_PushStack "IGCM_sys_MkdirArchive" $@ |
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| 290 | if ( $DEBUG_sys ) ; then |
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| 291 | echo "IGCM_sys_MkdirArchive :" $@ |
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| 292 | fi |
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| 293 | #- creation de repertoire sur le serveur fichier |
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[798] | 294 | DEBUG_sys=false IGCM_sys_IsFileArchived $1 |
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[793] | 295 | if [ $? = 0 ] ; then |
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| 296 | rsh ${STOREHOST} -n mkdir -p $1 |
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[794] | 297 | status=$? |
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[793] | 298 | else |
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| 299 | mkdir -p $1 |
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[794] | 300 | status=$? |
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[922] | 301 | fi |
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[771] | 302 | |
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[794] | 303 | if [ ${status} -gt 0 ] ; then |
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| 304 | IGCM_debug_Print 2 "IGCM_sys_MkdirArchive : rsh or mkdir failed error code ${status}" |
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[771] | 305 | IGCM_debug_Exit "IGCM_sys_MkdirArchive" |
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| 306 | fi |
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| 307 | IGCM_debug_PopStack "IGCM_sys_MkdirArchive" |
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| 308 | } |
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| 309 | |
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| 310 | #D-#================================================== |
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| 311 | #D-function IGCM_sys_TestDirArchive |
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| 312 | #D-* Purpose: Test Directory that must exists on Archive |
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| 313 | #D-* Examples: |
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| 314 | #D- |
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| 315 | function IGCM_sys_TestDirArchive { |
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| 316 | IGCM_debug_PushStack "IGCM_sys_TestDirArchive" $@ |
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| 317 | if ( $DEBUG_sys ) ; then |
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| 318 | echo "IGCM_sys_TestDirArchive :" $@ |
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| 319 | fi |
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[1027] | 320 | typeset ExistFlag |
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[796] | 321 | #Command depends on targeted file system |
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[798] | 322 | DEBUG_sys=false IGCM_sys_IsFileArchived $1 |
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[796] | 323 | if [ $? = 0 ] ; then |
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[1027] | 324 | ExistFlag=$( IGCM_sys_RshArchive "[ -d $1 ] && echo 0 || echo 1" ) |
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[796] | 325 | else |
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[1027] | 326 | ExistFlag=$( [ -d $1 ] && echo 0 || echo 1 ) |
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[796] | 327 | fi |
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[771] | 328 | IGCM_debug_PopStack "IGCM_sys_TestDirArchive" |
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| 329 | return ${ExistFlag} |
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| 330 | } |
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| 331 | |
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| 332 | #D-#================================================== |
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| 333 | #D-function IGCM_sys_IsFileArchived |
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[1012] | 334 | #D-* Purpose: Test file that must NOT EXISTS on Archive based on filename only |
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[771] | 335 | #D-* Examples: |
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| 336 | #D- |
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| 337 | function IGCM_sys_IsFileArchived { |
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| 338 | IGCM_debug_PushStack "IGCM_sys_IsFileArchived" $@ |
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| 339 | if ( $DEBUG_sys ) ; then |
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| 340 | echo "IGCM_sys_IsFileArchived :" $@ |
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| 341 | fi |
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| 342 | typeset IsArchivedFlag |
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[1171] | 343 | IsArchivedFlag=$( [ "X$( echo $@ | grep \/arch\/home )" != "X" ] && echo 0 || echo 1 ) |
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[771] | 344 | IGCM_debug_PopStack "IGCM_sys_IsFileArchived" |
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| 345 | |
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| 346 | return ${IsArchivedFlag} |
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| 347 | } |
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| 348 | |
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| 349 | #D-#================================================== |
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| 350 | #D-function IGCM_sys_TestFileArchive |
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| 351 | #D-* Purpose: Test file that must NOT EXISTS on Archive |
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| 352 | #D-* Examples: |
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| 353 | #D- |
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[1148] | 354 | function IGCM_sys_TestFileArchive { |
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| 355 | IGCM_debug_PushStack "IGCM_sys_TestFileArchive" $@ |
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[1179] | 356 | typeset ExistFlag |
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[1171] | 357 | ExistFlag=$( IGCM_sys_RshArchive "[ -f $1 ] && echo 0 || echo 1" ) |
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[1148] | 358 | IGCM_debug_PopStack "IGCM_sys_TestFileArchive" |
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| 359 | |
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| 360 | return ${ExistFlag} |
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| 361 | } |
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| 362 | |
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| 363 | #D-#================================================== |
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[1179] | 364 | #D-function IGCM_sys_CountFileArchive |
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| 365 | #D-* Purpose: Count files on Archive filesystem |
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| 366 | #D-* Examples: |
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| 367 | #D- |
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[1148] | 368 | function IGCM_sys_CountFileArchive { |
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| 369 | IGCM_debug_PushStack "IGCM_sys_CountFileArchive" $@ |
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| 370 | #Command depends on targeted file system |
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| 371 | DEBUG_sys=false IGCM_sys_IsFileArchived $1 |
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| 372 | if [ $? = 0 ] ; then |
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| 373 | IGCM_sys_RshArchive "ls ${@} 2>/dev/null | wc -l" |
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| 374 | status=$? |
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| 375 | else |
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| 376 | ls ${@} 2>/dev/null | wc -l |
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| 377 | status=$? |
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| 378 | fi |
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| 379 | if [ ${status} -gt 0 ] ; then |
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| 380 | echo "IGCM_sys_CountFileArchive : erreur." |
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| 381 | fi |
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| 382 | IGCM_debug_PopStack "IGCM_sys_CountFileArchive" |
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| 383 | } |
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| 384 | |
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| 385 | #D-#================================================== |
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[771] | 386 | #D-function IGCM_sys_Tree |
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| 387 | #D-* Purpose: Tree directories with files on ${ARCHIVE} |
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| 388 | #D-* Examples: IGCM_sys_Tree ${R_IN} ${R_OUT} |
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| 389 | #D- |
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| 390 | function IGCM_sys_Tree { |
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| 391 | IGCM_debug_PushStack "IGCM_sys_Tree" $@ |
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| 392 | if ( $DEBUG_sys ) ; then |
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| 393 | echo "IGCM_sys_Tree :" $@ |
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| 394 | fi |
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| 395 | |
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[1032] | 396 | \mfls -R $@ |
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[771] | 397 | |
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| 398 | IGCM_debug_PopStack "IGCM_sys_Tree" |
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| 399 | } |
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| 400 | |
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| 401 | #D-#================================================== |
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| 402 | #D-function IGCM_sys_Qsub |
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| 403 | #D-* Purpose: Qsub new job |
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| 404 | #D-* Examples: |
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| 405 | #D- |
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| 406 | function IGCM_sys_Qsub { |
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| 407 | IGCM_debug_PushStack "IGCM_sys_Qsub" $@ |
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| 408 | if ( $DEBUG_sys ) ; then |
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| 409 | echo "IGCM_sys_Qsub :" $@ |
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| 410 | fi |
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[1179] | 411 | typeset status |
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| 412 | |
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[771] | 413 | # We have to change output/error file |
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| 414 | [ ${#@} = 1 ] && REP_FOR_JOB=${SUBMIT_DIR} |
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| 415 | [ ${#@} = 2 ] && REP_FOR_JOB=${2} |
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[774] | 416 | sed -e "s:\# \@ output *= .*:\# \@ output = ${Script_Output}:" \ |
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[1305] | 417 | -e "s:\# \@ error *= .*:\# \@ error = ${Script_Output}:" \ |
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| 418 | $1 > ${REP_FOR_JOB}/JOB_FOR_IGCM |
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[1179] | 419 | cd $REP_FOR_JOB ; /usr/bin/llsubmit JOB_FOR_IGCM > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 ; status=$? ; cd - ; |
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[771] | 420 | |
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[1179] | 421 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
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[811] | 422 | if [ ${status} -gt 0 ] ; then |
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| 423 | IGCM_debug_Print 2 "IGCM_sys_Qsub $1 : error code ${status}" |
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[771] | 424 | IGCM_debug_Exit "IGCM_sys_Qsub" |
---|
| 425 | else |
---|
[1179] | 426 | JobID=$( gawk {'print $4'} ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ | tail -1 | sed -e s/\"//g ) |
---|
[771] | 427 | IGCM_sys_Rm ${REP_FOR_JOB}/JOB_FOR_IGCM |
---|
| 428 | fi |
---|
| 429 | IGCM_debug_PopStack "IGCM_sys_Qsub" |
---|
| 430 | } |
---|
| 431 | |
---|
| 432 | #D-#================================================== |
---|
| 433 | #D-function IGCM_sys_QsubPost |
---|
| 434 | #D-* Purpose: Qsub new job on scalaire |
---|
| 435 | #D-* Examples: |
---|
| 436 | #D- |
---|
| 437 | function IGCM_sys_QsubPost { |
---|
| 438 | IGCM_debug_PushStack "IGCM_sys_QsubPost" $@ |
---|
| 439 | if ( $DEBUG_sys ) ; then |
---|
| 440 | echo "IGCM_sys_QsubPost :" $@ |
---|
| 441 | fi |
---|
[1179] | 442 | typeset status |
---|
| 443 | |
---|
[771] | 444 | # We have to change output/error file |
---|
[784] | 445 | [ ${#@} = 1 ] && REP_FOR_JOB=${POST_DIR} |
---|
[771] | 446 | [ ${#@} = 2 ] && REP_FOR_JOB=${2} |
---|
| 447 | |
---|
[784] | 448 | sed -e "s:\# \@ output *= .*:\# \@ output = ${Script_Post_Output}.out:" \ |
---|
[1305] | 449 | -e "s:\# \@ error *= .*:\# \@ error = ${Script_Post_Output}.out:" \ |
---|
| 450 | ${libIGCM_POST}/$1.job > ${REP_FOR_JOB}/JOB_FOR_IGCM_$$ |
---|
[774] | 451 | |
---|
[1179] | 452 | cd $REP_FOR_JOB ; /usr/bin/llsubmit JOB_FOR_IGCM_$$ > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 ; status=$? ; cd - ; |
---|
[948] | 453 | |
---|
[1179] | 454 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[811] | 455 | if [ ${status} -gt 0 ] ; then |
---|
| 456 | IGCM_debug_Print 2 "IGCM_sys_QsubPost $1 : error code ${status}" |
---|
[771] | 457 | IGCM_debug_Exit "IGCM_sys_QsubPost" |
---|
| 458 | else |
---|
[1179] | 459 | JobID=$( gawk {'print $4'} ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ | tail -1 | sed -e s/\"//g ) |
---|
[887] | 460 | IGCM_sys_Rm ${REP_FOR_JOB}/JOB_FOR_IGCM_$$ |
---|
[771] | 461 | fi |
---|
| 462 | IGCM_debug_PopStack "IGCM_sys_QsubPost" |
---|
| 463 | } |
---|
| 464 | |
---|
| 465 | #D-************************* |
---|
| 466 | #D- File transfer functions |
---|
| 467 | #D-************************* |
---|
| 468 | #D- |
---|
| 469 | |
---|
| 470 | #D-#================================================== |
---|
| 471 | #D-function IGCM_sys_RmRunDir |
---|
| 472 | #D-* Purpose: rm tmpdir (dummy function most of the time batch |
---|
| 473 | #D- scheduler will do the job) |
---|
| 474 | #D-* Examples: |
---|
| 475 | #D- |
---|
| 476 | function IGCM_sys_RmRunDir { |
---|
[1057] | 477 | IGCM_debug_PushStack "IGCM_sys_RmRunDir" $@ |
---|
[771] | 478 | if ( $DEBUG_sys ) ; then |
---|
| 479 | echo "IGCM_sys_RmRunDir :" $@ |
---|
[1183] | 480 | IGCM_debug_Print 1 "Dummy call, let the scheduler do that." |
---|
[771] | 481 | fi |
---|
| 482 | IGCM_debug_PopStack "IGCM_sys_RmRunDir" |
---|
| 483 | } |
---|
| 484 | |
---|
| 485 | #D-#================================================== |
---|
| 486 | #D-function IGCM_sys_Put_Dir |
---|
| 487 | #D-* Purpose: Copy a complete directory on $(ARCHIVE) |
---|
| 488 | #D-* Examples: |
---|
| 489 | #D- |
---|
| 490 | function IGCM_sys_Put_Dir { |
---|
| 491 | IGCM_debug_PushStack "IGCM_sys_Put_Dir" $@ |
---|
| 492 | if ( $DEBUG_sys ) ; then |
---|
| 493 | echo "IGCM_sys_Put_Dir :" $@ |
---|
| 494 | fi |
---|
| 495 | if [ $DRYRUN = 0 ]; then |
---|
| 496 | if [ ! -d ${1} ] ; then |
---|
| 497 | echo "WARNING : IGCM_sys_Put_Dir ${1} DOES NOT EXIST ." |
---|
| 498 | IGCM_debug_PopStack "IGCM_sys_Put_Dir" |
---|
| 499 | return |
---|
| 500 | fi |
---|
| 501 | |
---|
| 502 | typeset status |
---|
| 503 | |
---|
| 504 | # Only if we use rsync |
---|
| 505 | #IGCM_sys_TestDirArchive $( dirname $2 ) |
---|
| 506 | # |
---|
[792] | 507 | #Command depends on targeted file system |
---|
[798] | 508 | DEBUG_sys=false IGCM_sys_IsFileArchived $2 |
---|
[792] | 509 | if [ $? = 0 ] ; then |
---|
[1179] | 510 | \rcp -r $1 ${STOREHOST}:$2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 511 | status=$? |
---|
| 512 | else |
---|
[1179] | 513 | \cp -r $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 514 | status=$? |
---|
| 515 | fi |
---|
[771] | 516 | |
---|
| 517 | if [ ${status} -gt 0 ] ; then |
---|
[792] | 518 | IGCM_debug_Print 2 "IGCM_sys_Put_Dir : rcp or cp failed error code ${status}" |
---|
[1179] | 519 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 520 | IGCM_debug_Exit "IGCM_sys_Put_Dir" |
---|
| 521 | else |
---|
[1179] | 522 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 523 | fi |
---|
| 524 | fi |
---|
| 525 | IGCM_debug_PopStack "IGCM_sys_Put_Dir" |
---|
| 526 | } |
---|
| 527 | |
---|
| 528 | #D-#================================================== |
---|
| 529 | #D-function IGCM_sys_Get_Dir |
---|
| 530 | #D-* Purpose: Copy a complete directory from ${ARCHIVE} |
---|
| 531 | #D-* Examples: |
---|
| 532 | #D- |
---|
| 533 | function IGCM_sys_Get_Dir { |
---|
| 534 | IGCM_debug_PushStack "IGCM_sys_Get_Dir" $@ |
---|
| 535 | if ( $DEBUG_sys ) ; then |
---|
| 536 | echo "IGCM_sys_Get_Dir :" $@ |
---|
| 537 | fi |
---|
| 538 | if [ $DRYRUN = 0 ]; then |
---|
| 539 | typeset NB_ESSAI DELAI status i |
---|
| 540 | # number of tentative |
---|
| 541 | NB_ESSAI=3 |
---|
| 542 | # time delay between tentative |
---|
| 543 | DELAI=2 |
---|
| 544 | |
---|
| 545 | # Only if we use rsync |
---|
| 546 | #IGCM_sys_TestDirArchive $( dirname $2 ) |
---|
| 547 | # |
---|
[793] | 548 | # Command depends on targeted filesystem |
---|
[798] | 549 | DEBUG_sys=false IGCM_sys_IsFileArchived $1 |
---|
[793] | 550 | if [ $? = 0 ] ; then |
---|
| 551 | # add dmget (to demigrate all offline files) to reduce time of this command : |
---|
[1012] | 552 | #IGCM_sys_RshArchive "dmfind $1 -state MIG -o -state OFL -o -state PAR | dmget -q -n" |
---|
[793] | 553 | i=0 |
---|
| 554 | while [ $i -lt $NB_ESSAI ] ; do |
---|
[1179] | 555 | \rcp -rp ${STOREHOST}:$1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[793] | 556 | status=$? |
---|
| 557 | if [ ${status} -gt 0 ]; then |
---|
| 558 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : rcp failed error code ${status} ${i}/${NB_ESSAI}" |
---|
| 559 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : sleep ${DELAI} seconds and try again." |
---|
| 560 | sleep $DELAI |
---|
| 561 | else |
---|
| 562 | break |
---|
| 563 | fi |
---|
| 564 | (( i = i + 1 )) |
---|
| 565 | done |
---|
| 566 | else |
---|
[1179] | 567 | \cp -rp $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 568 | status=$? |
---|
[793] | 569 | if [ ${status} -gt 0 ] ; then |
---|
| 570 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : cp failed error code ${status}" |
---|
[1179] | 571 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[793] | 572 | IGCM_debug_Exit "IGCM_sys_Get_Dir" |
---|
[771] | 573 | else |
---|
[1179] | 574 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 575 | fi |
---|
[793] | 576 | fi |
---|
[771] | 577 | if [ ${status} -gt 0 ] ; then |
---|
[1179] | 578 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : (r)cp failed error code ${status}" |
---|
| 579 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 580 | IGCM_debug_Exit "IGCM_sys_Get_Dir" |
---|
| 581 | else |
---|
[1179] | 582 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 583 | fi |
---|
| 584 | fi |
---|
| 585 | IGCM_debug_PopStack "IGCM_sys_Get_Dir" |
---|
| 586 | } |
---|
| 587 | |
---|
| 588 | #D-#================================================== |
---|
| 589 | #D-function IGCM_sys_Put_Rest |
---|
| 590 | #D-* Purpose: Put computied restarts on ${ARCHIVE}. |
---|
| 591 | #D- File and target directory must exist. |
---|
| 592 | #D-* Examples: |
---|
| 593 | #D- |
---|
| 594 | function IGCM_sys_Put_Rest { |
---|
| 595 | IGCM_debug_PushStack "IGCM_sys_Put_Rest" $@ |
---|
| 596 | if ( $DEBUG_sys ) ; then |
---|
| 597 | echo "IGCM_sys_Put_Rest :" $@ |
---|
| 598 | fi |
---|
| 599 | if [ $DRYRUN = 0 ]; then |
---|
| 600 | if [ ! -f ${1} ] ; then |
---|
| 601 | echo "ERROR : IGCM_sys_Put_Rest ${1} DOES NOT EXIST ." |
---|
| 602 | IGCM_debug_Exit "IGCM_sys_Put_Rest" |
---|
| 603 | fi |
---|
| 604 | |
---|
| 605 | typeset status |
---|
| 606 | # |
---|
| 607 | if [ X${JobType} = XRUN ] ; then |
---|
| 608 | IGCM_sys_Chmod 444 ${1} |
---|
| 609 | fi |
---|
| 610 | # |
---|
| 611 | # |
---|
[792] | 612 | #Command depends on targeted file system |
---|
[798] | 613 | DEBUG_sys=false IGCM_sys_IsFileArchived $2 |
---|
[792] | 614 | if [ $? = 0 ] ; then |
---|
[1179] | 615 | mfput $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 616 | status=$? |
---|
| 617 | else |
---|
[795] | 618 | IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
[1179] | 619 | \cp $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 620 | status=$? |
---|
| 621 | fi |
---|
[771] | 622 | |
---|
| 623 | # #RSYNC WITH NETWORK RSH CALL |
---|
[795] | 624 | # IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
[1179] | 625 | # echo ${RSYNC} ${RSYNC_opt} --rsync-path=${REMOTE_RSYNC} -e rsh ${RUN_DIR}/$1 ${STOREHOST}:${2} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 626 | # ${RSYNC} ${RSYNC_opt} --rsync-path=${REMOTE_RSYNC} -e rsh ${RUN_DIR}/$1 ${STOREHOST}:${2} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 627 | |
---|
| 628 | # #RSYNC WITH NFS USE |
---|
[1179] | 629 | # echo ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 630 | # ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 631 | |
---|
| 632 | # status=$? |
---|
| 633 | # IGCM_sys_Rsync_out $status |
---|
| 634 | |
---|
[1179] | 635 | # ${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 636 | # (( status=status+$? )) |
---|
| 637 | |
---|
| 638 | if [ ${status} -gt 0 ] ; then |
---|
[1179] | 639 | IGCM_debug_Print 2 "IGCM_sys_Put_Rest : mfput or cp failed error code ${status}" |
---|
| 640 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 641 | IGCM_debug_Exit "IGCM_sys_Put_Rest" |
---|
| 642 | else |
---|
[1179] | 643 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 644 | fi |
---|
| 645 | fi |
---|
| 646 | IGCM_debug_PopStack "IGCM_sys_Put_Rest" |
---|
| 647 | } |
---|
| 648 | |
---|
| 649 | #D-#================================================== |
---|
| 650 | #D-function IGCM_sys_Put_Out |
---|
| 651 | #D-* Purpose: Copy a file on ${ARCHIVE} after having chmod it in readonly |
---|
| 652 | #D-* Examples: |
---|
| 653 | #D- |
---|
| 654 | function IGCM_sys_Put_Out { |
---|
| 655 | IGCM_debug_PushStack "IGCM_sys_Put_Out" $@ |
---|
| 656 | if ( $DEBUG_sys ) ; then |
---|
| 657 | echo "IGCM_sys_Put_Out :" $@ |
---|
| 658 | fi |
---|
| 659 | |
---|
| 660 | typeset status |
---|
| 661 | |
---|
| 662 | if [ $DRYRUN = 0 ]; then |
---|
| 663 | if [ ! -f ${1} ] ; then |
---|
| 664 | echo "WARNING : IGCM_sys_Put_Out ${1} DOES NOT EXIST ." |
---|
| 665 | IGCM_debug_PopStack "IGCM_sys_Put_Out" |
---|
| 666 | return 1 |
---|
| 667 | fi |
---|
| 668 | # |
---|
| 669 | if [ X${JobType} = XRUN ] ; then |
---|
| 670 | if [ X${3} = X ] ; then |
---|
| 671 | IGCM_sys_Chmod 444 ${1} |
---|
| 672 | fi |
---|
| 673 | fi |
---|
| 674 | # |
---|
| 675 | # |
---|
[792] | 676 | #Command depends on targeted file system |
---|
[798] | 677 | DEBUG_sys=false IGCM_sys_IsFileArchived $2 |
---|
[792] | 678 | if [ $? = 0 ] ; then |
---|
[1179] | 679 | mfput $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 680 | status=$? |
---|
| 681 | else |
---|
[795] | 682 | IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
[1179] | 683 | \cp $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 684 | status=$? |
---|
| 685 | fi |
---|
[771] | 686 | |
---|
| 687 | # #RSYNC WITH NETWORK RSH CALL |
---|
[795] | 688 | # IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
[1179] | 689 | # echo ${RSYNC} ${RSYNC_opt} --rsync-path=${REMOTE_RSYNC} -e rsh ${RUN_DIR}/$1 ${STOREHOST}:${2} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 690 | # ${RSYNC} ${RSYNC_opt} --rsync-path=${REMOTE_RSYNC} -e rsh ${RUN_DIR}/$1 ${STOREHOST}:${2} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 691 | |
---|
| 692 | # #RSYNC WITH NFS USE |
---|
[1179] | 693 | # echo ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 694 | # ${RSYNC} ${RSYNC_opt} ${RUN_DIR}/$1 ${2} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 695 | |
---|
| 696 | # status=$? |
---|
| 697 | # IGCM_sys_Rsync_out $status |
---|
| 698 | |
---|
[1179] | 699 | # ${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 700 | # (( status=status+$? )) |
---|
| 701 | |
---|
| 702 | if [ ${status} -gt 0 ] ; then |
---|
[792] | 703 | IGCM_debug_Print 2 "IGCM_sys_Put_Out : mfput or cp failed error code ${status}" |
---|
[1179] | 704 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 705 | IGCM_debug_Exit "IGCM_sys_Put_Out" |
---|
| 706 | else |
---|
[1179] | 707 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 708 | fi |
---|
| 709 | fi |
---|
| 710 | IGCM_debug_PopStack "IGCM_sys_Put_Out" |
---|
| 711 | return 0 |
---|
| 712 | } |
---|
| 713 | |
---|
| 714 | #D-#================================================== |
---|
| 715 | #D-function IGCM_sys_Get |
---|
| 716 | #D-* Purpose: Get a file from ${ARCHIVE} |
---|
| 717 | #D-* Examples: IGCM_sys_Get myfile /destpath/myfile_with_PREFIX |
---|
| 718 | #D- IGCM_sys_Get /l Array_contain_myfiles /destpath/ |
---|
| 719 | function IGCM_sys_Get { |
---|
| 720 | IGCM_debug_PushStack "IGCM_sys_Get" $@ |
---|
| 721 | |
---|
| 722 | typeset DEST status dm_liste |
---|
| 723 | |
---|
| 724 | if ( $DEBUG_sys ) ; then |
---|
| 725 | echo "IGCM_sys_Get :" $@ |
---|
| 726 | fi |
---|
| 727 | if [ $DRYRUN -le 2 ]; then |
---|
| 728 | if [ X${1} = X'/l' ] ; then |
---|
| 729 | eval set +A dm_liste \${${2}} |
---|
| 730 | else |
---|
| 731 | dm_liste=${1} |
---|
| 732 | fi |
---|
| 733 | eval DEST=\${${#}} |
---|
| 734 | |
---|
| 735 | # test if the (first) file is present in the old computation : |
---|
[798] | 736 | DEBUG_sys=false IGCM_sys_IsFileArchived ${dm_liste[0]} |
---|
[796] | 737 | if [ $? = 0 ] ; then |
---|
| 738 | IGCM_sys_TestFileArchive ${dm_liste[0]} |
---|
| 739 | status=$? |
---|
| 740 | else |
---|
[798] | 741 | IGCM_sys_TestFileBuffer ${dm_liste[0]} |
---|
[796] | 742 | status=$? |
---|
| 743 | fi |
---|
| 744 | |
---|
[771] | 745 | if [ ${status} -gt 0 ] ; then |
---|
| 746 | echo "IGCM_sys_Get, ERROR : regular file ${dm_liste[0]} DOES NOT EXIST ." |
---|
| 747 | IGCM_debug_Exit "IGCM_sys_Get" |
---|
| 748 | return |
---|
| 749 | fi |
---|
| 750 | |
---|
[792] | 751 | #Command depends on targeted file system |
---|
[798] | 752 | DEBUG_sys=false IGCM_sys_IsFileArchived ${dm_liste[0]} |
---|
[792] | 753 | if [ $? = 0 ] ; then |
---|
[1179] | 754 | mfget ${dm_liste[*]} ${DEST} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 755 | status=$? |
---|
| 756 | else |
---|
[1179] | 757 | \cp ${dm_liste[*]} ${DEST} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[792] | 758 | status=$? |
---|
| 759 | fi |
---|
[771] | 760 | |
---|
| 761 | # #RSYNC WITH NETWORK RSH CALL |
---|
[1179] | 762 | # echo ${RSYNC} ${RSYNC_opt} --rsync-path=${REMOTE_RSYNC} -e rsh ${STOREHOST}:"${dm_liste}" ${STOREHOST}:${RUN_DIR}/${DEST} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 763 | # ${RSYNC} ${RSYNC_opt} --rsync-path=${REMOTE_RSYNC} -e rsh ${STOREHOST}:"${dm_liste}" ${STOREHOST}:${RUN_DIR}/${DEST} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 764 | |
---|
| 765 | # #RSYNC WITH NFS USE |
---|
[1179] | 766 | # echo ${RSYNC} ${RSYNC_opt} ${dm_liste} ${RUN_DIR}/${DEST} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 767 | # ${RSYNC} ${RSYNC_opt} ${dm_liste} ${RUN_DIR}/${DEST} >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[771] | 768 | |
---|
| 769 | # status=$? |
---|
| 770 | # IGCM_sys_Rsync_out $status |
---|
| 771 | |
---|
[1179] | 772 | # ${libIGCM}/libIGCM_sys/IGCM_analyse_rsync_out.awk ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 773 | # (( status=status+$? )) |
---|
| 774 | |
---|
| 775 | if [ ${status} -gt 0 ] ; then |
---|
[792] | 776 | IGCM_debug_Print 2 "IGCM_sys_Get : mfget or cp failed error code ${status}" |
---|
[1179] | 777 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 778 | IGCM_debug_Exit "IGCM_sys_Get" |
---|
| 779 | else |
---|
[1179] | 780 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[771] | 781 | fi |
---|
| 782 | fi |
---|
| 783 | IGCM_debug_PopStack "IGCM_sys_Get" |
---|
| 784 | } |
---|
| 785 | |
---|
| 786 | #D-#================================================== |
---|
[835] | 787 | #D-function IGCM_sys_GetDate_Monitoring |
---|
| 788 | #D-* Purpose: get the last year for which the monitoring has been computed |
---|
| 789 | #D-* Examples: |
---|
| 790 | #D- |
---|
| 791 | function IGCM_sys_GetDate_Monitoring { |
---|
| 792 | IGCM_debug_PushStack "IGCM_sys_GetDate_Monitoring" $@ |
---|
| 793 | if ( $DEBUG_sys ) ; then |
---|
| 794 | echo "IGCM_sys_GetDate_Monitoring :" $@ |
---|
| 795 | fi |
---|
| 796 | |
---|
| 797 | IGCM_sys_Cd /tmp |
---|
[1129] | 798 | # NASTY HACK. We force /tmp here. This function is called only from the front-end and interactively. |
---|
| 799 | RUN_DIR_PATH=/tmp IGCM_sys_Get ${1} . |
---|
[835] | 800 | eval ${2}=$( cdo showyear $( basename ${1} ) 2> /dev/null | gawk '{ print $NF }' ) |
---|
[1131] | 801 | # Need to erase this file to avoid collision (permission denied getting file) between users on the front-end |
---|
| 802 | IGCM_sys_Rm -f $( basename ${1} ) |
---|
[835] | 803 | IGCM_sys_Cd - |
---|
| 804 | |
---|
| 805 | IGCM_debug_PopStack "IGCM_sys_GetDate_Monitoring" |
---|
| 806 | } |
---|
| 807 | |
---|
| 808 | #D-#================================================== |
---|
[771] | 809 | #D-function IGCM_sys_Put_Dods |
---|
[1179] | 810 | #D-* Purpose: Put ${ARCHIVE} files on DODS internet protocole. |
---|
[771] | 811 | #D-* Examples: |
---|
| 812 | #D- |
---|
| 813 | function IGCM_sys_Put_Dods { |
---|
| 814 | IGCM_debug_PushStack "IGCM_sys_Put_Dods" $@ |
---|
| 815 | if ( $DEBUG_sys ) ; then |
---|
| 816 | echo "IGCM_sys_Put_Dods :" $@ |
---|
| 817 | fi |
---|
[1179] | 818 | typeset status |
---|
[771] | 819 | if [ $DRYRUN = 0 ]; then |
---|
| 820 | # We take our time on that |
---|
| 821 | sleep 10 |
---|
| 822 | IGCM_sys_TestDirArchive ${R_SAVE}/${1} |
---|
| 823 | if [ $? != 0 ] ; then |
---|
| 824 | echo "WARNING : IGCM_sys_Put_Dods ${R_SAVE}/${1} DOES NOT EXIST ." |
---|
| 825 | IGCM_debug_PopStack "IGCM_sys_Put_Dods" |
---|
| 826 | return |
---|
| 827 | fi |
---|
| 828 | |
---|
[1012] | 829 | rsh ${STOREHOST} exec /bin/ksh <<EOF |
---|
[771] | 830 | cd ${R_SAVE} |
---|
[1012] | 831 | /arch/local/bin/dods_rm DODS/pub/${LOGIN}/${R_DODS}/${1} > /dev/null 2>&1 |
---|
[771] | 832 | /bin/chmod -R u+w ${R_SAVE}/${1} |
---|
[1012] | 833 | /arch/local/bin/dods_cp ${1} DODS/pub/${LOGIN}/${R_DODS} > /dev/null 2>&1 |
---|
[771] | 834 | /bin/chmod -R +rX ${R_SAVE}/${1} |
---|
| 835 | /bin/chmod -R u+w ${R_SAVE}/${1} |
---|
| 836 | EOF |
---|
| 837 | status=$? |
---|
| 838 | |
---|
| 839 | if [ ${status} -gt 0 ] ; then |
---|
| 840 | echo "IGCM_sys_Put_Dods : error." |
---|
| 841 | IGCM_debug_Exit "IGCM_sys_Put_Dods" |
---|
| 842 | fi |
---|
| 843 | fi |
---|
| 844 | IGCM_debug_PopStack "IGCM_sys_Put_Dods" |
---|
| 845 | } |
---|
| 846 | |
---|
| 847 | ############################################################## |
---|
| 848 | # REBUILD OPERATOR |
---|
| 849 | |
---|
[811] | 850 | #D-#================================================== |
---|
[1163] | 851 | #D-function IGCM_sys_sync |
---|
| 852 | #D-* Purpose: flush buffer on disk (dummy function on Ada) |
---|
| 853 | #D-* Examples: |
---|
| 854 | #D- |
---|
| 855 | function IGCM_sys_sync { |
---|
| 856 | IGCM_debug_PushStack "IGCM_sys_sync" $@ |
---|
| 857 | if ( $DEBUG_sys ) ; then |
---|
| 858 | echo "IGCM_sys_sync :" $@ |
---|
| 859 | echo "Dummy call, let the system do that." |
---|
| 860 | fi |
---|
| 861 | IGCM_debug_PopStack "IGCM_sys_sync" |
---|
| 862 | } |
---|
| 863 | |
---|
[771] | 864 | ############################################################ |
---|
| 865 | # Activate Running Environnment Variables |
---|
| 866 | |
---|
[811] | 867 | #D-#================================================== |
---|
[1239] | 868 | #D-function IGCM_sys_activ_variables |
---|
[811] | 869 | #D-* Purpose: set environement variables prior to execution |
---|
| 870 | #D-* Examples: |
---|
| 871 | #D- |
---|
[771] | 872 | function IGCM_sys_activ_variables { |
---|
| 873 | IGCM_debug_PushStack "IGCM_sys_activ_variables" |
---|
| 874 | if ( $DEBUG_sys ) ; then |
---|
[811] | 875 | echo "IGCM_sys_activ_variables" |
---|
[771] | 876 | fi |
---|
| 877 | |
---|
[811] | 878 | # -------------------------------------------------------------------- |
---|
| 879 | #D- MPI specifications |
---|
| 880 | # -------------------------------------------------------------------- |
---|
| 881 | |
---|
| 882 | # -------------------------------------------------------------------- |
---|
| 883 | #D- Other specifications |
---|
| 884 | # -------------------------------------------------------------------- |
---|
| 885 | |
---|
[771] | 886 | ulimit -s unlimited |
---|
[1012] | 887 | ## to be done only one time |
---|
| 888 | ## export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:/smplocal/pub/NetCDF/4.1.3/lib:/smplocal/pub/HDF5/1.8.9/seq/lib |
---|
[1068] | 889 | ## echo ${LD_LIBRARY_PATH} | grep -i netcdf >/dev/null 2>&1 || export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:/smplocal/pub/NetCDF/4.1.3/lib:/smplocal/pub/HDF5/1.8.9/seq/lib |
---|
[1012] | 890 | IGCM_debug_Print 1 "set LD_LIBRARY_PATH=${LD_LIBRARY_PATH}" |
---|
[771] | 891 | |
---|
[959] | 892 | export MP_STDOUTMODE=combined |
---|
| 893 | IGCM_debug_Print 1 "set MP_STDOUTMODE=${MP_STDOUTMODE}" |
---|
| 894 | |
---|
[1195] | 895 | ## fix to reduce memory usage. Required since 2014/22/04. On ada IDRIS. |
---|
| 896 | #export MP_EUILIBPATH=/smplocal/lib/ibmhpc/pe12012/ppe.pami/gnu/lib64/pami64 |
---|
| 897 | #IGCM_debug_Print 1 "set MP_EUILIBPATH=${MP_EUILIBPATH}" |
---|
[1004] | 898 | |
---|
[771] | 899 | IGCM_debug_PopStack "IGCM_sys_activ_variables" |
---|
| 900 | } |
---|
| 901 | |
---|
| 902 | ############################################################ |
---|
| 903 | # Desactivate Running Environnment Variables |
---|
| 904 | |
---|
[811] | 905 | #D-#================================================== |
---|
| 906 | #D-function IGCM_sys_desactiv_variables |
---|
| 907 | #D-* Purpose: unset environement variables after execution |
---|
| 908 | #D-* Examples: |
---|
| 909 | #D- |
---|
[771] | 910 | function IGCM_sys_desactiv_variables { |
---|
| 911 | IGCM_debug_PushStack "IGCM_sys_desactiv_variables" |
---|
| 912 | if ( $DEBUG_sys ) ; then |
---|
[811] | 913 | echo "IGCM_sys_desactiv_variables" |
---|
[771] | 914 | fi |
---|
| 915 | # -------------------------------------------------------------------- |
---|
| 916 | #D- MPI specifications |
---|
| 917 | # -------------------------------------------------------------------- |
---|
| 918 | |
---|
| 919 | # -------------------------------------------------------------------- |
---|
| 920 | #D- Other specifications |
---|
| 921 | # -------------------------------------------------------------------- |
---|
| 922 | |
---|
| 923 | IGCM_debug_PopStack "IGCM_sys_desactiv_variables" |
---|
| 924 | } |
---|
| 925 | |
---|
| 926 | ############################################################ |
---|
[1238] | 927 | # Update job headers to be used by the scheduler |
---|
| 928 | |
---|
| 929 | #D-#================================================== |
---|
| 930 | #D-function IGCM_sys_updateHeaders |
---|
| 931 | #D-* Purpose: Update job headers to be used by the scheduler |
---|
| 932 | #D-* Examples: IGCM_sys_updateHeaders /path/to/Job_MYEXP |
---|
| 933 | #D- |
---|
| 934 | function IGCM_sys_updateHeaders { |
---|
| 935 | IGCM_debug_PushStack "IGCM_sys_updateHeaders" |
---|
| 936 | if ( $DEBUG_sys ) ; then |
---|
| 937 | echo "IGCM_sys_updateHeaders" |
---|
| 938 | fi |
---|
| 939 | typeset file |
---|
| 940 | file=$1 |
---|
| 941 | |
---|
| 942 | if [ ${executionType} -eq 1 ] ; then |
---|
| 943 | # MPMD + MPI |
---|
[1305] | 944 | if [ X${MPIEnvironment} = XIBM ] ; then |
---|
| 945 | sed -e "/::openMPthreads::/d" \ |
---|
[1238] | 946 | -e "s/::JobNumProcTot::/${coreNumber}/" \ |
---|
[1305] | 947 | ${file} > ${file}.tmp |
---|
| 948 | else |
---|
| 949 | sed -e "/::openMPthreads::/d" \ |
---|
| 950 | -e "s/@ job_type = parallel/@ job_type = mpich/" \ |
---|
| 951 | -e "s/::JobNumProcTot::/${coreNumber}/" \ |
---|
| 952 | ${file} > ${file}.tmp |
---|
| 953 | fi |
---|
[1238] | 954 | |
---|
| 955 | elif [ ${executionType} -eq 2 ] ; then |
---|
| 956 | # MPMD + MPI + OMP |
---|
[1305] | 957 | if [ X${MPIEnvironment} = XIBM ] ; then |
---|
| 958 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
[1242] | 959 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
[1305] | 960 | ${file} > ${file}.tmp |
---|
| 961 | else |
---|
| 962 | (( nodeNumber = coreNumber / core_per_node )) |
---|
| 963 | [ $(( ${coreNumber} % ${core_per_node} )) -ne 0 ] && (( nodeNumber = nodeNumber + 1 )) |
---|
| 964 | sed -e "/::openMPthreads::/d" \ |
---|
| 965 | -e "s/@ job_type = parallel/@ job_type = mpich/" \ |
---|
| 966 | -e "s/@ total_tasks = ::JobNumProcTot::/@ node = ${nodeNumber} /" \ |
---|
| 967 | -e "/@ as_limit = 3.5gb/d" \ |
---|
| 968 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 969 | ${file} > ${file}.tmp |
---|
| 970 | fi |
---|
[1238] | 971 | |
---|
| 972 | elif [ ${executionType} -eq 3 ] ; then |
---|
| 973 | # SPMD + MPI/OMP |
---|
[1305] | 974 | if [ X${MPIEnvironment} = XIBM ] ; then |
---|
| 975 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
[1238] | 976 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
[1305] | 977 | ${file} > ${file}.tmp |
---|
| 978 | else |
---|
| 979 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
| 980 | -e "s/@ job_type = parallel/@ job_type = mpich/" \ |
---|
| 981 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 982 | ${file} > ${file}.tmp |
---|
| 983 | fi |
---|
[1238] | 984 | |
---|
| 985 | elif [ ${executionType} -eq 4 ] ; then |
---|
| 986 | # SPMD + MPI only |
---|
[1305] | 987 | if [ X${MPIEnvironment} = XIBM ] ; then |
---|
| 988 | sed -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
[1238] | 989 | -e "/::openMPthreads::/d" \ |
---|
[1305] | 990 | ${file} > ${file}.tmp |
---|
| 991 | else |
---|
| 992 | sed -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 993 | -e "s/@ job_type = parallel/@ job_type = mpich/" \ |
---|
| 994 | -e "/::openMPthreads::/d" \ |
---|
| 995 | ${file} > ${file}.tmp |
---|
| 996 | fi |
---|
[1238] | 997 | |
---|
| 998 | elif [ ${executionType} -eq 5 ] ; then |
---|
| 999 | # SPMD + OMP only |
---|
| 1000 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
[1240] | 1001 | -e "s/@ job_type = parallel/@ job_type = serial/" \ |
---|
[1238] | 1002 | -e "/::JobNumProcTot::/d" \ |
---|
| 1003 | ${file} > ${file}.tmp |
---|
| 1004 | |
---|
| 1005 | elif [ ${executionType} -eq 6 ] ; then |
---|
| 1006 | # SEQUENTIAL THEN |
---|
| 1007 | sed -e "s/::JobNumProcTot::/1/" \ |
---|
[1240] | 1008 | -e "s/@ job_type = parallel/@ job_type = serial/" \ |
---|
[1238] | 1009 | -e "/::openMPthreads::/d" \ |
---|
| 1010 | ${file} > ${file}.tmp |
---|
| 1011 | |
---|
| 1012 | fi |
---|
| 1013 | |
---|
| 1014 | IGCM_sys_Mv ${file}.tmp ${file} |
---|
| 1015 | |
---|
| 1016 | IGCM_debug_PopStack "IGCM_sys_updateHeaders" |
---|
| 1017 | } |
---|
| 1018 | |
---|
| 1019 | ############################################################ |
---|
[771] | 1020 | # Build MPI/OMP scripts run file (dummy function) |
---|
| 1021 | |
---|
[811] | 1022 | #D-#================================================== |
---|
| 1023 | #D-function IGCM_sys_build_run_file |
---|
| 1024 | #D-* Purpose: build run file (deprecated) |
---|
| 1025 | #D-* Examples: |
---|
| 1026 | #D- |
---|
[771] | 1027 | function IGCM_sys_build_run_file { |
---|
| 1028 | |
---|
[811] | 1029 | IGCM_debug_Print 3 " dummy function : IGCM_sys_build_run_file " |
---|
[771] | 1030 | |
---|
| 1031 | } |
---|
| 1032 | |
---|
| 1033 | ############################################################ |
---|
| 1034 | # Build MPI/OMP scripts |
---|
[811] | 1035 | |
---|
| 1036 | #D-#================================================== |
---|
| 1037 | #D-function IGCM_sys_build_execution_scripts |
---|
| 1038 | #D-* Purpose: build execution scripts to be launch by ${HOST_MPIRUN_COMMAND} |
---|
| 1039 | #D-* Examples: |
---|
| 1040 | #D- |
---|
[771] | 1041 | function IGCM_sys_build_execution_scripts |
---|
| 1042 | { |
---|
| 1043 | IGCM_debug_PushStack "IGCM_sys_build_execution_scripts" $@ |
---|
| 1044 | if ( $DEBUG_sys ) ; then |
---|
| 1045 | echo "IGCM_sys_build_execution_scripts " $@ |
---|
| 1046 | fi |
---|
| 1047 | |
---|
| 1048 | EXECUTION=${HOST_MPIRUN_COMMAND} |
---|
| 1049 | |
---|
[1179] | 1050 | # MPMD mode |
---|
[771] | 1051 | if ( ${OK_PARA_MPMD} ) ; then |
---|
| 1052 | |
---|
[1305] | 1053 | # MPI IBM Environment |
---|
| 1054 | if ( [ "X${LOADL_STEP_TYPE}" = "XPARALLEL" ] || [ "X${LOADL_STEP_TYPE}" = "XSERIAL" ] ) ; then |
---|
| 1055 | IGCM_debug_Print 1 "You use IBM MPI environment" |
---|
| 1056 | if [ -f run_file ] ; then |
---|
| 1057 | IGCM_sys_Rm -f run_file |
---|
| 1058 | fi |
---|
| 1059 | touch run_file |
---|
[771] | 1060 | |
---|
[1305] | 1061 | # Build run_file |
---|
[771] | 1062 | |
---|
[1305] | 1063 | # First loop on the components for the coupler ie oasis (only if oasis3) |
---|
| 1064 | # the coupler ie oasis3 must be the first one |
---|
| 1065 | for comp in ${config_ListOfComponents[*]} ; do |
---|
[771] | 1066 | |
---|
[1305] | 1067 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 1068 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
[771] | 1069 | |
---|
[1305] | 1070 | # for CPL component only |
---|
| 1071 | if [ "X${comp}" = "XCPL" ] ; then |
---|
[771] | 1072 | |
---|
[1305] | 1073 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1074 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
[777] | 1075 | |
---|
[1305] | 1076 | if ( ${OK_PARA_MPI} ) ; then |
---|
| 1077 | (( mpi_count = 1 )) |
---|
| 1078 | until [ ${mpi_count} -gt ${comp_proc_mpi_loc} ] ; do |
---|
| 1079 | echo "./${ExeNameOut}" >> run_file |
---|
| 1080 | (( mpi_count = mpi_count + 1 )) |
---|
| 1081 | done |
---|
| 1082 | else |
---|
| 1083 | echo "./${ExeNameOut} " >> run_file |
---|
| 1084 | fi |
---|
[777] | 1085 | fi |
---|
[1305] | 1086 | |
---|
| 1087 | done |
---|
| 1088 | |
---|
| 1089 | # Then second loop on the components |
---|
| 1090 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1091 | |
---|
| 1092 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 1093 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 1094 | |
---|
| 1095 | # Only if we really have an executable for the component and not the coupler ie oasis: |
---|
| 1096 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" != "XCPL" ] ) ; then |
---|
| 1097 | |
---|
| 1098 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1099 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 1100 | |
---|
| 1101 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 1102 | # Check if the number of threads is correct |
---|
| 1103 | case ${comp_proc_omp_loc} in |
---|
| 1104 | 1|2|4) |
---|
| 1105 | IGCM_debug_Print 1 "You run ${ExeNameOut} on ${comp_proc_omp_loc} OMP threads on IBM MPI Environment" |
---|
| 1106 | IGCM_debug_Print 1 "Beware : it may you use more CPU than needed." |
---|
| 1107 | IGCM_debug_Print 1 "Think to the Intel MPI Environment to do what you want to do !" |
---|
| 1108 | ;; |
---|
| 1109 | 8|16) |
---|
| 1110 | IGCM_debug_Exit "ERROR with OMP parameters !" |
---|
| 1111 | IGCM_debug_Print 2 "Beware : ${comp_proc_omp_loc} is too much for MPMD mode" |
---|
| 1112 | IGCM_debug_Print 2 "You will use more CPU than needed : try to use Intel-MPI environment to do such a thing !" |
---|
| 1113 | IGCM_debug_Verif_Exit |
---|
| 1114 | ;; |
---|
| 1115 | *) |
---|
| 1116 | IGCM_debug_Exit "ERROR with OMP parameters !" |
---|
| 1117 | IGCM_debug_Print 2 "${comp_proc_omp_loc} is not possible as number of OMP threads" |
---|
| 1118 | IGCM_debug_Print 2 "Only 1,2,4,8,16 as number of OMP threads are possible " |
---|
| 1119 | IGCM_debug_Verif_Exit |
---|
| 1120 | ;; |
---|
| 1121 | esac |
---|
| 1122 | |
---|
| 1123 | fi |
---|
| 1124 | |
---|
| 1125 | if ( ${OK_PARA_MPI} ) ; then |
---|
| 1126 | (( mpi_count = 1 )) |
---|
| 1127 | until [ ${mpi_count} -gt ${comp_proc_mpi_loc} ] ; do |
---|
| 1128 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 1129 | echo "env OMP_NUM_THREADS=$comp_proc_omp_loc ./${ExeNameOut}" >> run_file |
---|
| 1130 | else |
---|
| 1131 | echo "./${ExeNameOut}" >> run_file |
---|
| 1132 | fi |
---|
| 1133 | (( mpi_count = mpi_count + 1 )) |
---|
| 1134 | done |
---|
| 1135 | else |
---|
| 1136 | echo "./${ExeNameOut} " >> run_file |
---|
| 1137 | fi |
---|
| 1138 | fi |
---|
| 1139 | done |
---|
| 1140 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 1141 | export KMP_STACKSIZE=200m |
---|
[771] | 1142 | fi |
---|
| 1143 | |
---|
[1305] | 1144 | EXECUTION="${HOST_MPIRUN_COMMAND} -pgmmodel mpmd -cmdfile ./run_file" |
---|
[771] | 1145 | |
---|
[1305] | 1146 | IGCM_sys_Chmod u+x run_file |
---|
| 1147 | if ( $DEBUG_sys ) ; then |
---|
| 1148 | echo "run_file contains : " |
---|
| 1149 | cat run_file |
---|
| 1150 | fi |
---|
[771] | 1151 | |
---|
| 1152 | |
---|
[1305] | 1153 | # MPI Intel Environment |
---|
| 1154 | else |
---|
| 1155 | IGCM_debug_Print 1 "You use Intel MPI environment" |
---|
[777] | 1156 | |
---|
[1305] | 1157 | # Only MPI (MPMD) |
---|
| 1158 | if ( ! ${OK_PARA_OMP} ) ; then |
---|
| 1159 | init_exec=n |
---|
| 1160 | |
---|
| 1161 | # First loop on the components for the coupler ie oasis (only if oasis3) |
---|
| 1162 | # the coupler ie oasis3 must be the first one |
---|
| 1163 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1164 | |
---|
| 1165 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 1166 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 1167 | |
---|
| 1168 | # for CPL component only |
---|
| 1169 | if [ "X${comp}" = "XCPL" ] && [ "X${ExeNameOut}" != X\"\" ] ; then |
---|
| 1170 | |
---|
| 1171 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1172 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 1173 | |
---|
| 1174 | echo "#!/bin/ksh" > script_${ExeNameOut}.ksh |
---|
| 1175 | echo "" >> script_${ExeNameOut}.ksh |
---|
| 1176 | echo "./${ExeNameOut}" >> script_${ExeNameOut}.ksh |
---|
| 1177 | IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh |
---|
| 1178 | EXECUTION="${EXECUTION} -np ${comp_proc_mpi_loc} ./script_${ExeNameOut}.ksh" |
---|
| 1179 | init_exec=y |
---|
| 1180 | fi |
---|
| 1181 | done |
---|
| 1182 | # Then second loop on the components |
---|
| 1183 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1184 | |
---|
| 1185 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 1186 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 1187 | |
---|
| 1188 | # Only if we really have an executable for the component and not the coupler ie oasis: |
---|
| 1189 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" != "XCPL" ] ) ; then |
---|
| 1190 | |
---|
| 1191 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1192 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 1193 | |
---|
| 1194 | echo "#!/bin/ksh" > script_${ExeNameOut}.ksh |
---|
| 1195 | echo "" >> script_${ExeNameOut}.ksh |
---|
| 1196 | echo "./${ExeNameOut}" >> script_${ExeNameOut}.ksh |
---|
| 1197 | IGCM_sys_Chmod u+x script_${ExeNameOut}.ksh |
---|
| 1198 | |
---|
| 1199 | if [ ${init_exec} = y ] ; then |
---|
| 1200 | EXECUTION="${EXECUTION} : -np ${comp_proc_mpi_loc} ./script_${ExeNameOut}.ksh" |
---|
[1093] | 1201 | else |
---|
[1305] | 1202 | EXECUTION="${EXECUTION} -np ${comp_proc_mpi_loc} ./script_${ExeNameOut}.ksh" |
---|
| 1203 | init_exec=y |
---|
[1093] | 1204 | fi |
---|
[1305] | 1205 | fi |
---|
| 1206 | done |
---|
| 1207 | # MPI-OpenMP (MPMD) |
---|
| 1208 | else |
---|
| 1209 | |
---|
| 1210 | # Execution specifications |
---|
| 1211 | EXECUTION="${EXECUTION} -configfile run_file" |
---|
| 1212 | export KMP_STACKSIZE=200m |
---|
| 1213 | if [ -f run_file ] ; then |
---|
| 1214 | IGCM_sys_Rm -f run_file |
---|
[777] | 1215 | fi |
---|
[1305] | 1216 | touch run_file |
---|
| 1217 | |
---|
| 1218 | # Initialisation of variables |
---|
| 1219 | string_final="" |
---|
| 1220 | string_final_hexa="" |
---|
| 1221 | current_core=0 |
---|
| 1222 | executable_nb=1 |
---|
| 1223 | |
---|
| 1224 | # Hosts treatment |
---|
| 1225 | for nodes in `echo $LOADL_PROCESSOR_LIST` |
---|
| 1226 | do |
---|
| 1227 | host[$i]=$nodes |
---|
| 1228 | i=$((i+1)) |
---|
| 1229 | done |
---|
| 1230 | |
---|
| 1231 | # Loop on the components |
---|
| 1232 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1233 | |
---|
| 1234 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 1235 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 1236 | |
---|
| 1237 | # Not possible if oasis has an executable (i.e old version of oasis3) |
---|
| 1238 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" = "XCPL" ] ) ; then |
---|
| 1239 | IGCM_debug_Exit "ERROR MPMD with hybrid MPI-OpenMP is not available with oasis3 version" |
---|
| 1240 | IGCM_debug_Print 2 "Only available with oasis3-MCT version coupler" |
---|
| 1241 | IGCM_debug_Verif_Exit |
---|
| 1242 | fi |
---|
| 1243 | |
---|
| 1244 | # Only if we really have an executable for the component : |
---|
| 1245 | if [ "X${ExeNameOut}" != X\"\" ] ; then |
---|
| 1246 | |
---|
| 1247 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1248 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 1249 | |
---|
| 1250 | # Check if the number of threads is correct |
---|
| 1251 | case ${comp_proc_omp_loc} in |
---|
| 1252 | 1|2|4|8|16) |
---|
| 1253 | IGCM_debug_Print 1 "You run ${ExeNameOut} on ${comp_proc_omp_loc} OMP threads" |
---|
| 1254 | ;; |
---|
| 1255 | *) |
---|
| 1256 | IGCM_debug_Exit "ERROR with OMP parameters !" |
---|
| 1257 | IGCM_debug_Print 2 "${comp_proc_omp_loc} is not possible as number of OMP threads" |
---|
| 1258 | IGCM_debug_Print 2 "Only 1,2,4,8,16 as number of OMP threads are possible " |
---|
| 1259 | IGCM_debug_Verif_Exit |
---|
| 1260 | ;; |
---|
| 1261 | esac |
---|
| 1262 | |
---|
| 1263 | |
---|
| 1264 | # Build run_file for Ada Intel-MPI environment : method used to assign cores and nodes for the MPI process by using hexadecimal mask |
---|
| 1265 | # Example of run_file : |
---|
| 1266 | #-host host0 -n 4 -env I_MPI_PIN_DOMAIN=[ff,ff00,ff0000,ff000000] ./a.out |
---|
| 1267 | #-host host1 -n 4 -env I_MPI_PIN_DOMAIN=[ff,ff00,ff0000,ff000000] ./a.out |
---|
| 1268 | #-host host2 -n 10 -env I_MPI_PIN_DOMAIN=[3,c,30,c0,300,c00,3000,c000,30000,c0000,100000,200000,400000,800000,1000000,2000000,4000000,8000000,10000000,20000000] ./b.out |
---|
| 1269 | #-host host2 -n 10 ./c.out |
---|
| 1270 | # Example of final command : |
---|
| 1271 | # mpirun -configfile run_file |
---|
| 1272 | |
---|
| 1273 | rank=0 |
---|
| 1274 | # For one specific executable, loop on mpi process |
---|
| 1275 | for nb_proc_mpi in `seq 0 $(($comp_proc_mpi_loc-1))`; do |
---|
| 1276 | (( index_host = current_core / core_per_node )) |
---|
| 1277 | host_value=${host[${index_host}]} |
---|
| 1278 | (( slot = current_core % core_per_node )) |
---|
| 1279 | # loop on omp threads for each mpi process (set the appropriate bit to 1 and append it to previous one) |
---|
| 1280 | for index in `seq $slot $(($slot+$comp_proc_omp_loc-1))`; do |
---|
| 1281 | string_final="1"$string_final |
---|
| 1282 | done |
---|
| 1283 | # convert binary mask to hexadecimal mask |
---|
| 1284 | if [ $rank -ne 0 ] ; then |
---|
| 1285 | string_final_hexa=$string_final_hexa","$( printf '%x\n' "$((2#$string_final))" ) |
---|
| 1286 | else |
---|
| 1287 | string_final_hexa=$( printf '%x\n' "$((2#$string_final))" ) |
---|
| 1288 | fi |
---|
| 1289 | # replace bit 1 by bit 0 in order to append next one (next one wil be 1) |
---|
| 1290 | string_final=$( echo $string_final | sed "s/1/0/g" ) |
---|
| 1291 | # mpi rank = mpi_rank + 1 |
---|
| 1292 | (( rank = rank + 1 )) |
---|
| 1293 | # current core takes into account the number of omp threads which was previously append |
---|
| 1294 | (( current_core = current_core + comp_proc_omp_loc )) |
---|
| 1295 | # We write to the configuration file either we switch to the next node or we switch to the next executable |
---|
| 1296 | if ( [ $(( current_core / core_per_node )) -ne $index_host ] || [ $nb_proc_mpi -eq $(($comp_proc_mpi_loc-1)) ] ) ; then |
---|
| 1297 | # I_MPI_PIN_DOMAIN variable must be given once per node |
---|
| 1298 | if [ $executable_nb -eq 1 ] ; then |
---|
| 1299 | echo "-host $host_value -n $rank -env I_MPI_PIN_DOMAIN=[$string_final_hexa] ./$ExeNameOut" >> run_file |
---|
| 1300 | else |
---|
| 1301 | sed -i "/$host_value/s/\]/\,$string_final_hexa\]/g" run_file |
---|
| 1302 | echo "-host $host_value -n $rank ./$ExeNameOut" >> run_file |
---|
| 1303 | fi |
---|
| 1304 | # +1 for the number of executbale on the same node |
---|
| 1305 | if [ $nb_proc_mpi -eq $(($comp_proc_mpi_loc-1)) ] ; then |
---|
| 1306 | (( executable_nb = executable_nb + 1 )) |
---|
| 1307 | fi |
---|
| 1308 | # Some initializations if we switch to the next node |
---|
| 1309 | if [ $(( current_core / core_per_node )) -ne $index_host ] ; then |
---|
| 1310 | string_final="" |
---|
| 1311 | string_final_hexa="" |
---|
| 1312 | rank=0 |
---|
| 1313 | executable_nb=1 |
---|
| 1314 | fi |
---|
| 1315 | fi |
---|
| 1316 | done |
---|
| 1317 | |
---|
| 1318 | fi |
---|
| 1319 | done |
---|
| 1320 | IGCM_sys_Chmod u+x run_file |
---|
| 1321 | if ( $DEBUG_sys ) ; then |
---|
| 1322 | echo "run_file contains : " |
---|
| 1323 | cat run_file |
---|
[1093] | 1324 | fi |
---|
[771] | 1325 | fi |
---|
| 1326 | fi |
---|
| 1327 | |
---|
[1180] | 1328 | # Only one executable (SPMD mode). |
---|
| 1329 | else |
---|
[771] | 1330 | |
---|
| 1331 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 1332 | |
---|
| 1333 | # Only if we really have an executable for the component : |
---|
| 1334 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 1335 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${ExeNameOut}" != "Xinca.dat" ] ) ; then |
---|
[847] | 1336 | |
---|
| 1337 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 1338 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
[853] | 1339 | export KMP_STACKSIZE=200m |
---|
| 1340 | #export KMP_LIBRARY=turnaround |
---|
[847] | 1341 | #echo "export KMP_STACKSIZE=3g" >> script_${ExeNameOut}.ksh |
---|
| 1342 | #echo "export KMP_LIBRARY=turnaround" >> script_${ExeNameOut}.ksh |
---|
| 1343 | #echo "export MKL_SERIAL=YES" >> script_${ExeNameOut}.ksh |
---|
| 1344 | fi |
---|
[1305] | 1345 | if ( ${OK_PARA_MPI} ) ; then |
---|
| 1346 | if ( [ "X${LOADL_STEP_TYPE}" = "XPARALLEL" ] || [ "X${LOADL_STEP_TYPE}" = "XSERIAL" ] ) ; then |
---|
| 1347 | EXECUTION="${HOST_MPIRUN_COMMAND} ./${ExeNameOut}" |
---|
| 1348 | else |
---|
| 1349 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 1350 | EXECUTION="${HOST_MPIRUN_COMMAND} -np ${comp_proc_mpi_loc} ./${ExeNameOut}" |
---|
| 1351 | fi |
---|
| 1352 | else |
---|
| 1353 | EXECUTION="/usr/bin/time ./${ExeNameOut}" |
---|
| 1354 | fi |
---|
[771] | 1355 | fi |
---|
| 1356 | |
---|
| 1357 | done |
---|
| 1358 | |
---|
| 1359 | fi |
---|
| 1360 | |
---|
| 1361 | IGCM_debug_Print 1 "sys ada : execution command is " |
---|
| 1362 | IGCM_debug_Print 1 "$EXECUTION" |
---|
| 1363 | |
---|
| 1364 | IGCM_debug_PopStack "IGCM_sys_build_execution_scripts" |
---|
| 1365 | } |
---|
| 1366 | |
---|
[933] | 1367 | #D-#================================================== |
---|
| 1368 | #D-function IGCM_sys_check_path |
---|
| 1369 | #D-* Purpose: check that RUN_DIR_PATH that will be removed on some machine |
---|
| 1370 | #D-* do not point to an important use directory. Stop immediately in that case. |
---|
| 1371 | #D-* Examples: |
---|
| 1372 | #D- |
---|
| 1373 | function IGCM_sys_check_path { |
---|
| 1374 | IGCM_debug_PushStack "IGCM_sys_check_path" |
---|
| 1375 | if ( $DEBUG_sys ) ; then |
---|
| 1376 | echo "IGCM_sys_check_path" |
---|
| 1377 | fi |
---|
[811] | 1378 | |
---|
[1012] | 1379 | if ( [ X${RUN_DIR_PATH} = X${HOME} ] || [ X${RUN_DIR_PATH} = X${WORKDIR} ] || [ X${RUN_DIR_PATH} = X${ARCHIVE} ] ) ; then |
---|
[933] | 1380 | IGCM_debug_Print 1 "Variable RUN_DIR_PATH is pointing to an important directory : ${RUN_DIR_PATH}" |
---|
| 1381 | IGCM_debug_Print 1 "Please check the RUN_DIR_PATH definition in your Job : Job_${config_UserChoices_JobName}" |
---|
[936] | 1382 | IGCM_debug_Exit "This will stop the job" |
---|
[933] | 1383 | fi |
---|
| 1384 | IGCM_debug_PopStack "IGCM_sys_check_path" |
---|
| 1385 | } |
---|
| 1386 | |
---|
[811] | 1387 | #D-#================================================== |
---|
| 1388 | #D-function IGCM_sys_check_quota |
---|
| 1389 | #D-* Purpose: check user quota. Stop the simulation if quota above 90% |
---|
| 1390 | #D-* Examples: |
---|
| 1391 | #D- |
---|
[771] | 1392 | function IGCM_sys_check_quota { |
---|
| 1393 | IGCM_debug_PushStack "IGCM_sys_check_quota" |
---|
| 1394 | if ( $DEBUG_sys ) ; then |
---|
[811] | 1395 | echo "IGCM_sys_check_quota" |
---|
[771] | 1396 | fi |
---|
| 1397 | # Limit of quota (in %) |
---|
| 1398 | limit_quota=90 |
---|
[811] | 1399 | |
---|
[771] | 1400 | # Check of the volume |
---|
[945] | 1401 | volume_quota=$(quota_u -w 2>/dev/null| grep 'Quota soft' | gawk '{print $5}') |
---|
[771] | 1402 | if [ ! X${volume_quota} = X ] ; then |
---|
| 1403 | quota_volume=${volume_quota%%\%} |
---|
| 1404 | # echo $quota_volume |
---|
[946] | 1405 | if [ $(echo "${quota_volume} > ${limit_quota}" | bc) -eq 1 ] ; then |
---|
[771] | 1406 | IGCM_debug_Print 1 "Please, check your quota of volume on workgpfs" |
---|
| 1407 | IGCM_debug_Print 1 "${quota_volume}% of your quota is used" |
---|
| 1408 | IGCM_debug_Print 1 "Use the quota_u -w command to check" |
---|
| 1409 | IGCM_debug_Print 1 "You must have more than 10% available to run" |
---|
| 1410 | IGCM_debug_Exit "Not enough space to run ! STOP HERE" |
---|
| 1411 | IGCM_debug_Verif_Exit |
---|
| 1412 | fi |
---|
| 1413 | |
---|
| 1414 | fi |
---|
| 1415 | IGCM_debug_PopStack "IGCM_sys_check_quota" |
---|
| 1416 | } |
---|
| 1417 | |
---|
| 1418 | #D-#================================================== |
---|
[1286] | 1419 | #D-function IGCM_sys_projectAccounting |
---|
| 1420 | #D-* Purpose: store project accounting information in a file |
---|
| 1421 | #D-* Examples: |
---|
| 1422 | #D- |
---|
| 1423 | function IGCM_sys_projectAccounting { |
---|
| 1424 | IGCM_debug_PushStack "IGCM_sys_projectAccounting" |
---|
| 1425 | if ( $DEBUG_sys ) ; then |
---|
| 1426 | echo "IGCM_sys_check_quota" |
---|
| 1427 | fi |
---|
| 1428 | |
---|
| 1429 | cpt > $1 |
---|
| 1430 | |
---|
| 1431 | IGCM_debug_PopStack "IGCM_sys_projectAccounting" |
---|
| 1432 | } |
---|
| 1433 | |
---|
| 1434 | #D-#================================================== |
---|
[1244] | 1435 | #D-function IGCM_sys_getJobSchedulerID |
---|
| 1436 | #D-* Purpose: Get the job ID during execution |
---|
| 1437 | #D-* Examples: IGCM_sys_getJobSchedulerID jobSchedulerID |
---|
| 1438 | #D- |
---|
| 1439 | function IGCM_sys_getJobSchedulerID { |
---|
| 1440 | IGCM_debug_PushStack "IGCM_sys_getJobSchedulerID" |
---|
| 1441 | if ( $DEBUG_sys ) ; then |
---|
| 1442 | echo "IGCM_sys_getJobSchedulerID" |
---|
| 1443 | fi |
---|
| 1444 | |
---|
| 1445 | eval ${1}=$( echo $LOADL_STEP_ID | awk -F. '{print $4}' ) |
---|
| 1446 | |
---|
| 1447 | IGCM_debug_PopStack "IGCM_sys_getJobSchedulerID" |
---|
| 1448 | } |
---|
| 1449 | |
---|
| 1450 | #D-#================================================== |
---|
[958] | 1451 | #D-function IGCM_sys_GetJobID |
---|
[1244] | 1452 | #D-* Purpose: Get the job ID from the JobName |
---|
[1179] | 1453 | #D-* Examples: IGCM_sys_GetJobID ${JobName} ${TargetUsr} JobID |
---|
[958] | 1454 | #D- |
---|
| 1455 | function IGCM_sys_GetJobID { |
---|
| 1456 | IGCM_debug_PushStack "IGCM_sys_GetJobID" |
---|
| 1457 | if ( $DEBUG_sys ) ; then |
---|
| 1458 | echo "IGCM_sys_GetJobID" |
---|
| 1459 | fi |
---|
| 1460 | |
---|
| 1461 | # Print only the full (-W) JobID (%id) and JobName (%jn) |
---|
| 1462 | ID=$( llq -u $2 -W -f %id %jn | \ |
---|
[1305] | 1463 | gawk -v JobName=$1 '( $NF ~ JobName ) { print $1 }' ) |
---|
[958] | 1464 | |
---|
| 1465 | eval ${3}=${ID} |
---|
| 1466 | IGCM_debug_PopStack "IGCM_sys_GetJobID" |
---|
| 1467 | } |
---|
| 1468 | |
---|
| 1469 | #D-#================================================== |
---|
[771] | 1470 | #D-function IGCM_sys_CountJobInQueue |
---|
[1244] | 1471 | #D-* Purpose: Count number of users job |
---|
[771] | 1472 | #D-* Examples: IGCM_sys_CountJobInQueue ${JobName} NbRun |
---|
| 1473 | #D- |
---|
| 1474 | function IGCM_sys_CountJobInQueue { |
---|
| 1475 | IGCM_debug_PushStack "IGCM_sys_CountJobInQueue" |
---|
| 1476 | if ( $DEBUG_sys ) ; then |
---|
| 1477 | echo "IGCM_sys_CountJobInQueue" |
---|
| 1478 | fi |
---|
| 1479 | |
---|
| 1480 | # Print only the full (-W) JobName (%jn) |
---|
| 1481 | NbRun=$( llq -W -f %jn | grep -c "$1" ) |
---|
| 1482 | |
---|
| 1483 | eval ${2}=${NbRun} |
---|
| 1484 | |
---|
| 1485 | IGCM_debug_PopStack "IGCM_sys_CountJobInQueue" |
---|
| 1486 | } |
---|
| 1487 | |
---|
[955] | 1488 | #D-#================================================== |
---|
| 1489 | #D-function IGCM_sys_ListJobInQueue |
---|
[1244] | 1490 | #D-* Purpose: Produce a list of users jobs |
---|
[955] | 1491 | #D-* Examples: IGCM_sys_ListJobInQueue ${User} JobNameList |
---|
| 1492 | #D- |
---|
| 1493 | function IGCM_sys_ListJobInQueue { |
---|
[1297] | 1494 | IGCM_debug_PushStack "IGCM_sys_ListJobInQueue" |
---|
[955] | 1495 | if ( $DEBUG_sys ) ; then |
---|
| 1496 | echo "IGCM_sys_ListJobInQueue" |
---|
| 1497 | fi |
---|
| 1498 | |
---|
[960] | 1499 | # With -W option, column width is as large as necessary |
---|
| 1500 | set -A JobList $( llq -u $1 -W -f %jn | head -n -2 | tail -n +3 | \ |
---|
[1305] | 1501 | gawk '( $1 != /TS/ && \ |
---|
[960] | 1502 | $1 !~ /PACK/ && \ |
---|
| 1503 | $1 !~ /REBUILD/ && \ |
---|
| 1504 | $1 !~ /pack/ ) \ |
---|
| 1505 | { print $1 }' | sed -e "s/\(.*\)\.[0-9]*/\1/" ) |
---|
[955] | 1506 | |
---|
| 1507 | eval set -A ${2} ${JobList[*]} |
---|
| 1508 | |
---|
| 1509 | IGCM_debug_PopStack "IGCM_sys_ListJobInQueue" |
---|
| 1510 | } |
---|
[1272] | 1511 | |
---|
| 1512 | #D-#================================================== |
---|
| 1513 | #D-function IGCM_sys_atlas |
---|
| 1514 | #D-* Purpose: encapsulate atlas call so as to manage error code and curie specificity |
---|
| 1515 | #D-* Examples: |
---|
| 1516 | #D- |
---|
| 1517 | function IGCM_sys_atlas { |
---|
| 1518 | IGCM_debug_PushStack "IGCM_sys_atlas" $@ |
---|
| 1519 | if ( $DEBUG_sys ) ; then |
---|
| 1520 | echo "IGCM_sys_atlas :" $@ |
---|
| 1521 | fi |
---|
| 1522 | |
---|
| 1523 | typeset status |
---|
| 1524 | |
---|
| 1525 | \atlas $@ > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
| 1526 | status=$? |
---|
| 1527 | if [ ${status} -gt 0 ] ; then |
---|
| 1528 | echo "IGCM_sys_atlas : error code ${status}" |
---|
[1305] | 1529 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 1530 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
| 1531 | IGCM_debug_PopStack "IGCM_sys_atlas" |
---|
| 1532 | return 1 |
---|
| 1533 | else |
---|
| 1534 | IGCM_debug_PopStack "IGCM_sys_atlas" |
---|
| 1535 | return 0 |
---|
| 1536 | fi |
---|
[1297] | 1537 | |
---|
[1305] | 1538 | IGCM_debug_PopStack "IGCM_sys_atlas" |
---|
| 1539 | } |
---|
[1297] | 1540 | |
---|