[428] | 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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[1061] | 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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[428] | 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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[809] | 16 | # if you use the prefix #D- for comments to be extracted. |
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[428] | 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 IITM IBM machine |
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| 22 | #D-#================================================== |
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| 23 | #D- |
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[809] | 24 | #D- This ksh library if a layer under some usefull |
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[428] | 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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[428] | 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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[809] | 64 | # Host and user names |
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[428] | 65 | # $hostname ou hostname |
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[1180] | 66 | typeset HOST=${HOST:=$( hostname )} |
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[428] | 67 | # $username ou whoami |
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[1180] | 68 | typeset LOGIN=${LOGIN:=$( whoami )} |
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[428] | 69 | # $hostname of the MASTER job |
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[1180] | 70 | typeset MASTER=iitm01 |
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[1201] | 71 | # project name |
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| 72 | typeset PROJECT=NONE |
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| 73 | # jobWarningDelay in seconds |
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| 74 | typeset jobWarningDelay=NONE |
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[428] | 75 | |
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| 76 | #D- |
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| 77 | #D-#================================================== |
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| 78 | #D-Program used in libIGCM |
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| 79 | #D-#================================================== |
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| 80 | |
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[810] | 81 | # Submit command |
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| 82 | typeset SUBMIT=${SUBMIT:=/usr/lpp/LoadL/full/bin/llsubmit} |
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[428] | 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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[810] | 87 | # ie storage filesystem |
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| 88 | typeset -r STOREHOST=iitm01 |
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| 89 | typeset -r REMOTE_RSYNC=/usr/bin/rsync |
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[428] | 90 | |
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| 91 | #==================================================== |
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[1180] | 92 | # Set environment tools (ferret, nco, cdo, rebuild, ...) |
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[810] | 93 | #==================================================== |
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[1180] | 94 | # Not applicable here. Only rebuild path |
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| 95 | export export PATH=${PATH}:/gpfs1/home/sebastien/REBUILD/ |
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[810] | 96 | |
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| 97 | #==================================================== |
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[428] | 98 | # Host specific DIRECTORIES |
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| 99 | #==================================================== |
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| 100 | |
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| 101 | #==================================================== |
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[1180] | 102 | #- MirrorlibIGCM for frontend |
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[810] | 103 | typeset -r MirrorlibIGCM=${MirrorlibIGCM:=false} |
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| 104 | |
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| 105 | #==================================================== |
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| 106 | #- libIGCM_POST for frontend |
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| 107 | typeset -r libIGCM_POST=${libIGCM} |
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| 108 | |
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| 109 | #==================================================== |
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[428] | 110 | #- R_EXE (==> BIN_DIR = ${MODIPSL}/bin ) |
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| 111 | typeset -r R_EXE="${MODIPSL}/bin" |
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| 112 | |
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| 113 | #==================================================== |
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| 114 | #- SUBMIT_DIR : submission dir |
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| 115 | typeset SUBMIT_DIR=${SUBMIT_DIR:=${LOADL_STEP_INITDIR}} |
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| 116 | |
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| 117 | #==================================================== |
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[725] | 118 | #- IN |
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| 119 | typeset -r R_IN=${R_IN:=/gpfs1/home/sabin} |
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| 120 | typeset -r R_IN_ECMWF=${R_IN_ECMWF:=/gpfs1/home/sabin} |
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| 121 | |
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| 122 | #==================================================== |
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[428] | 123 | #- RUN_DIR_PATH : Temporary working directory (=> TMP) |
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[1064] | 124 | typeset -r RUN_DIR_PATH=${RUN_DIR_PATH:=$( echo ${HOME} | sed -e "s/gpfs1/gpfs3/" )/RUN/${LOADL_STEP_ID}} |
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[428] | 125 | |
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| 126 | #==================================================== |
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[1179] | 127 | #- OUTCOMMAND_PATH : tmp place to store command lines standard error and outputs |
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[1186] | 128 | typeset -r OUTCOMMAND_PATH=/tmp |
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[1179] | 129 | |
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| 130 | #==================================================== |
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[428] | 131 | #- HOST_MPIRUN_COMMAND |
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[810] | 132 | typeset -r HOST_MPIRUN_COMMAND=${HOST_MPIRUN_COMMAND:="/usr/bin/time poe"} |
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[428] | 133 | |
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| 134 | #==================================================== |
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| 135 | #- Max number of arguments passed to nco operator or demigration command |
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| 136 | UNIX_MAX_LIMIT=360 |
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| 137 | |
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[810] | 138 | #==================================================== |
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[1180] | 139 | #- set PackDefault to false on iitm |
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[810] | 140 | PackDefault=false |
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| 141 | |
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| 142 | #==================================================== |
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| 143 | #- Number of core per node (max number of OpenMP task) |
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| 144 | NUM_COREPERNODE=2 |
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| 145 | |
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| 146 | #==================================================== |
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| 147 | #- Default number of MPI task for IPSL coupled model |
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| 148 | #- required for backward compatibility |
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| 149 | #- |
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| 150 | DEFAULT_NUM_PROC_OCE=5 |
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| 151 | DEFAULT_NUM_PROC_CPL=1 |
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| 152 | (( DEFAULT_NUM_PROC_ATM = BATCH_NUM_PROC_TOT - DEFAULT_NUM_PROC_OCE - DEFAULT_NUM_PROC_CPL )) |
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| 153 | |
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[428] | 154 | #D-#================================================== |
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[1057] | 155 | #D-function IGCM_sys_defineArchives |
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| 156 | #D-* Purpose: |
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| 157 | #D-* Define ARCHIVE : Dedicated to large files |
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| 158 | #D-* Define STORAGE : Dedicated to small/medium files |
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| 159 | #D-* Define R_OUT : Output tree located on ARCHIVE |
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| 160 | #D-* Define R_FIG : Output tree located on STORAGE hosting figures (monitoring and atlas, and/or small files) |
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| 161 | #D-* Define R_BUF : Output tree located on STORAGE hosting files waiting for rebuild or pack processes |
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| 162 | #D-* if SpaceName=TEST nothing special will hapen |
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[725] | 163 | #D-* Examples: |
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| 164 | #D- |
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[1057] | 165 | function IGCM_sys_defineArchives { |
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| 166 | IGCM_debug_PushStack "IGCM_sys_defineArchives" |
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| 167 | |
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[1060] | 168 | if [ ! X${config_UserChoices_ARCHIVE} = X ]; then |
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[1057] | 169 | #==================================================== |
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| 170 | #- ARCHIVE (dedicated to large files) |
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[1063] | 171 | ARCHIVE=${config_UserChoices_ARCHIVE} |
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[1057] | 172 | else |
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| 173 | #==================================================== |
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| 174 | #- ARCHIVE (dedicated to large files) |
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[1063] | 175 | ARCHIVE=$( echo ${HOME} | sed -e "s/gpfs1/gpfs3/" ) |
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[1057] | 176 | fi |
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| 177 | |
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[1060] | 178 | if [ ! X${config_UserChoices_STORAGE} = X ]; then |
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[1057] | 179 | #==================================================== |
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| 180 | #- STORAGE (dedicated to small/medium files) |
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[1063] | 181 | STORAGE=${config_UserChoices_STORAGE} |
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[1057] | 182 | else |
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| 183 | #==================================================== |
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| 184 | #- STORAGE (dedicated to small/medium files) |
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[1063] | 185 | STORAGE=${ARCHIVE} |
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[1057] | 186 | fi |
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| 187 | |
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| 188 | # ON OBELIX NO SPECIAL CASE WHEN X${config_UserChoices_SpaceName} = XTEST |
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| 189 | |
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| 190 | #==================================================== |
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| 191 | #- R_OUT |
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[1063] | 192 | R_OUT=${ARCHIVE}/IGCM_OUT |
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[1057] | 193 | |
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| 194 | #==================================================== |
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| 195 | #- R_FIG (hosting figures : monitoring and atlas, and/or small files) |
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[1063] | 196 | R_FIG=${WORKDIR}/IGCM_OUT |
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[1057] | 197 | |
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| 198 | #==================================================== |
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[1431] | 199 | #- CMIP6 (hosting CMIP6 files produced by XIOS2 and configured by dr2xml) |
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| 200 | CMIP6_BUF=${STORAGE}/IGCM_OUT |
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| 201 | |
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| 202 | #==================================================== |
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[1057] | 203 | #- R_BUF (ONLY FOR double copy an scratch) |
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[1063] | 204 | R_BUF=${WORKDIR}/IGCM_OUT |
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[1057] | 205 | |
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| 206 | IGCM_debug_Print 1 "R_OUT has been defined = ${R_OUT}" |
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| 207 | IGCM_debug_Print 1 "R_BUF has been defined = ${R_BUF}" |
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| 208 | IGCM_debug_Print 1 "R_FIG has been defined = ${R_FIG}" |
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| 209 | |
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| 210 | IGCM_debug_PopStack "IGCM_sys_defineArchives" |
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[725] | 211 | } |
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| 212 | |
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| 213 | #D-#================================================== |
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[428] | 214 | #D-function IGCM_sys_RshArchive |
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| 215 | #D-* Purpose: Archive rsh command |
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| 216 | #D-* Examples: |
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| 217 | #D- |
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| 218 | function IGCM_sys_RshArchive { |
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[810] | 219 | IGCM_debug_PushStack "IGCM_sys_RshArchive" $@ |
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[811] | 220 | /bin/ksh <<-EOF |
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[428] | 221 | ${@} |
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| 222 | EOF |
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[811] | 223 | status=$? |
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[810] | 224 | if [ ${status} -gt 0 ] ; then |
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| 225 | IGCM_debug_Print 2 "IGCM_sys_RshArchive : command failed error code ${status}" |
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| 226 | IGCM_debug_Exit "IGCM_sys_RshArchive" |
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| 227 | fi |
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| 228 | IGCM_debug_PopStack "IGCM_sys_RshArchive" |
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[428] | 229 | } |
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| 230 | |
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| 231 | #D-#================================================== |
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[1180] | 232 | #D-function IGCM_sys_RshArchive_NoError |
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| 233 | #D-* Purpose: Archive rsh command, without error |
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| 234 | #D-* used only in monitoring.job |
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| 235 | #D-* Examples: |
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| 236 | #D- |
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| 237 | function IGCM_sys_RshArchive_NoError { |
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| 238 | IGCM_debug_PushStack "IGCM_sys_RshArchive_NoError" $@ |
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| 239 | /bin/ksh <<-EOF |
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| 240 | ${@} 2> /dev/null |
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| 241 | EOF |
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| 242 | IGCM_debug_PopStack "IGCM_sys_RshArchive_NoError" |
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| 243 | } |
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| 244 | |
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| 245 | #D-#================================================== |
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[428] | 246 | #D-function IGCM_sys_MkdirArchive |
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| 247 | #D-* Purpose: Mkdir on Archive |
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| 248 | #D-* Examples: |
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| 249 | #D- |
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| 250 | function IGCM_sys_MkdirArchive { |
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[810] | 251 | IGCM_debug_PushStack "IGCM_sys_MkdirArchive" $@ |
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| 252 | if ( $DEBUG_sys ) ; then |
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| 253 | echo "IGCM_sys_MkdirArchive :" $@ |
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| 254 | fi |
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| 255 | #- creation de repertoire sur le serveur fichier |
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[1180] | 256 | if [ ! -d ${1} ]; then |
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| 257 | \mkdir -p $1 |
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| 258 | status=$? |
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[428] | 259 | |
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[1180] | 260 | if [ ${status} -gt 0 ] ; then |
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| 261 | IGCM_debug_Print 2 "IGCM_sys_MkdirArchive : mkdir failed error code ${status}" |
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| 262 | IGCM_debug_Exit "IGCM_sys_MkdirArchive" |
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| 263 | fi |
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[810] | 264 | fi |
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| 265 | IGCM_debug_PopStack "IGCM_sys_MkdirArchive" |
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[428] | 266 | } |
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| 267 | |
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| 268 | #D-#================================================== |
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| 269 | #D-function IGCM_sys_TestDirArchive |
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| 270 | #D-* Purpose: Test Directory that must exists on Archive |
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| 271 | #D-* Examples: |
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| 272 | #D- |
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| 273 | function IGCM_sys_TestDirArchive { |
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[810] | 274 | IGCM_debug_PushStack "IGCM_sys_TestDirArchive" $@ |
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| 275 | if ( $DEBUG_sys ) ; then |
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| 276 | echo "IGCM_sys_TestDirArchive :" $@ |
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| 277 | fi |
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| 278 | typeset ExistFlag |
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| 279 | ExistFlag=$( IGCM_sys_RshArchive "[ -d $1 ] && echo 0 || echo 1" ) |
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| 280 | IGCM_debug_PopStack "IGCM_sys_TestDirArchive" |
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| 281 | return ${ExistFlag} |
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| 282 | } |
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[428] | 283 | |
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[810] | 284 | #D-#================================================== |
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| 285 | #D-function IGCM_sys_IsFileArchived |
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[1180] | 286 | #D-* Purpose: Test file that must NOT EXISTS on Archive based on filename only |
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[810] | 287 | #D-* Examples: |
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| 288 | #D- |
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| 289 | function IGCM_sys_IsFileArchived { |
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| 290 | IGCM_debug_PushStack "IGCM_sys_IsFileArchived" $@ |
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| 291 | if ( $DEBUG_sys ) ; then |
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| 292 | echo "IGCM_sys_IsFileArchived :" $@ |
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| 293 | fi |
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| 294 | typeset IsArchivedFlag |
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[818] | 295 | IsArchivedFlag=$( [ "X$( echo $@ | grep \/gpfs3 )" != "X" ] && echo 0 || echo 1 ) |
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[810] | 296 | IGCM_debug_PopStack "IGCM_sys_IsFileArchived" |
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| 297 | |
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| 298 | return ${IsArchivedFlag} |
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[428] | 299 | } |
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| 300 | |
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| 301 | #D-#================================================== |
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| 302 | #D-function IGCM_sys_TestFileArchive |
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| 303 | #D-* Purpose: Test file that must NOT EXISTS on Archive |
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| 304 | #D-* Examples: |
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| 305 | #D- |
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| 306 | function IGCM_sys_TestFileArchive { |
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[810] | 307 | IGCM_debug_PushStack "IGCM_sys_TestFileArchive" $@ |
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| 308 | typeset ExistFlag |
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| 309 | ExistFlag=$( IGCM_sys_RshArchive "[ -f $1 ] && echo 0 || echo 1" ) |
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| 310 | IGCM_debug_PopStack "IGCM_sys_TestFileArchive" |
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[428] | 311 | |
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[810] | 312 | return ${ExistFlag} |
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[428] | 313 | } |
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| 314 | |
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| 315 | #D-#================================================== |
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| 316 | #D-function IGCM_sys_CountFileArchive |
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| 317 | #D-* Purpose: Count files on Archive filesystem |
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| 318 | #D-* Examples: |
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| 319 | #D- |
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| 320 | function IGCM_sys_CountFileArchive { |
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[810] | 321 | IGCM_debug_PushStack "IGCM_sys_CountFileArchive" $@ |
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| 322 | #Command depends on targeted file system |
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| 323 | DEBUG_sys=false IGCM_sys_IsFileArchived $1 |
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| 324 | if [ $? = 0 ] ; then |
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[428] | 325 | IGCM_sys_RshArchive "ls ${@} 2>/dev/null | wc -l" |
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[810] | 326 | status=$? |
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| 327 | else |
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| 328 | ls ${@} 2>/dev/null | wc -l |
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| 329 | status=$? |
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| 330 | fi |
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| 331 | if [ ${status} -gt 0 ] ; then |
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| 332 | echo "IGCM_sys_CountFileArchive : erreur." |
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| 333 | fi |
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| 334 | IGCM_debug_PopStack "IGCM_sys_CountFileArchive" |
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[428] | 335 | } |
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| 336 | |
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| 337 | #D-#================================================== |
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| 338 | #D-function IGCM_sys_Qsub |
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| 339 | #D-* Purpose: Qsub new job |
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| 340 | #D-* Examples: |
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| 341 | #D- |
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| 342 | function IGCM_sys_Qsub { |
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[810] | 343 | IGCM_debug_PushStack "IGCM_sys_Qsub" $@ |
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| 344 | |
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[811] | 345 | typeset status |
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[810] | 346 | |
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| 347 | if ( $DEBUG_sys ) ; then |
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| 348 | echo "IGCM_sys_Qsub :" $@ |
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| 349 | fi |
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| 350 | # We have to change output/error file |
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| 351 | [ ${#@} = 1 ] && REP_FOR_JOB=${SUBMIT_DIR} |
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| 352 | [ ${#@} = 2 ] && REP_FOR_JOB=${2} |
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| 353 | sed -e "s:\# \@ output *= .*:\# \@ output = ${Script_Output}:" \ |
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[811] | 354 | -e "s:\# \@ error *= .*:\# \@ error = ${Script_Output}:" \ |
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| 355 | $1 > ${REP_FOR_JOB}/JOB_FOR_IGCM |
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[1179] | 356 | cd $REP_FOR_JOB ; /usr/lpp/LoadL/full/bin/llsubmit JOB_FOR_IGCM > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 ; status=$? ; cd - ; |
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[810] | 357 | |
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[1179] | 358 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
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[811] | 359 | if [ ${status} -gt 0 ] ; then |
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| 360 | IGCM_debug_Print 2 "IGCM_sys_Qsub $1 : error code ${status}" |
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[810] | 361 | IGCM_debug_Exit "IGCM_sys_Qsub" |
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| 362 | else |
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[1179] | 363 | JobID=$( gawk {'print $4'} ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ | tail -1 | sed -e s/\"//g ) |
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[810] | 364 | IGCM_sys_Rm ${REP_FOR_JOB}/JOB_FOR_IGCM |
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| 365 | fi |
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| 366 | IGCM_debug_PopStack "IGCM_sys_Qsub" |
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[428] | 367 | } |
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| 368 | |
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| 369 | #D-#================================================== |
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| 370 | #D-function IGCM_sys_QsubPost |
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| 371 | #D-* Purpose: Qsub new job on scalaire |
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| 372 | #D-* Examples: |
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| 373 | #D- |
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| 374 | function IGCM_sys_QsubPost { |
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[810] | 375 | IGCM_debug_PushStack "IGCM_sys_QsubPost" $@ |
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| 376 | |
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[811] | 377 | typeset status |
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[810] | 378 | |
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| 379 | if ( $DEBUG_sys ) ; then |
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| 380 | echo "IGCM_sys_QsubPost :" $@ |
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| 381 | fi |
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| 382 | # We have to change output/error file |
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| 383 | [ ${#@} = 1 ] && REP_FOR_JOB=${POST_DIR} |
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| 384 | [ ${#@} = 2 ] && REP_FOR_JOB=${2} |
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| 385 | |
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| 386 | sed -e "s:\# \@ output *= .*:\# \@ output = ${Script_Post_Output}.out:" \ |
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[811] | 387 | -e "s:\# \@ error *= .*:\# \@ error = ${Script_Post_Output}.out:" \ |
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| 388 | ${libIGCM_POST}/$1.job > ${REP_FOR_JOB}/JOB_FOR_IGCM |
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[810] | 389 | |
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[1179] | 390 | cd $REP_FOR_JOB ; /usr/lpp/LoadL/full/bin/llsubmit JOB_FOR_IGCM > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 ; status=$? ; cd - ; |
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[948] | 391 | |
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[1179] | 392 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
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[811] | 393 | if [ ${status} -gt 0 ] ; then |
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| 394 | IGCM_debug_Print 2 "IGCM_sys_QsubPost $1 : error code ${status}" |
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[810] | 395 | IGCM_debug_Exit "IGCM_sys_QsubPost" |
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| 396 | else |
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[1179] | 397 | JobID=$( gawk {'print $4'} ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ | tail -1 | sed -e s/\"//g ) |
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[810] | 398 | IGCM_sys_Rm ${REP_FOR_JOB}/JOB_FOR_IGCM |
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| 399 | fi |
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| 400 | IGCM_debug_PopStack "IGCM_sys_QsubPost" |
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[428] | 401 | } |
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| 402 | |
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| 403 | #D-************************* |
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[809] | 404 | #D- File transfer functions |
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[428] | 405 | #D-************************* |
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| 406 | #D- |
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| 407 | |
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| 408 | #D-#================================================== |
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| 409 | #D-function IGCM_sys_RmRunDir |
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| 410 | #D-* Purpose: rm tmpdir (dummy function most of the time batch |
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| 411 | #D- scheduler will do the job) |
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| 412 | #D-* Examples: |
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| 413 | #D- |
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| 414 | function IGCM_sys_RmRunDir { |
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[1057] | 415 | IGCM_debug_PushStack "IGCM_sys_RmRunDir" $@ |
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[810] | 416 | if ( $DEBUG_sys ) ; then |
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| 417 | echo "IGCM_sys_RmRunDir :" $@ |
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| 418 | fi |
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[428] | 419 | |
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[810] | 420 | typeset status |
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[428] | 421 | |
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[1179] | 422 | echo rm $@ > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
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| 423 | \rm $@ >> ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[810] | 424 | status=$? |
---|
[428] | 425 | |
---|
[810] | 426 | if [ ${status} -gt 0 ] ; then |
---|
[1183] | 427 | IGCM_debug_Print 1 "IGCM_sys_RmRunDir : rm error code is ${status}." |
---|
[1179] | 428 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 429 | IGCM_debug_Exit "IGCM_sys_RmRunDir" |
---|
| 430 | else |
---|
[1179] | 431 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 432 | fi |
---|
| 433 | IGCM_debug_PopStack "IGCM_sys_RmRunDir" |
---|
[428] | 434 | } |
---|
| 435 | |
---|
| 436 | #D-#================================================== |
---|
| 437 | #D-function IGCM_sys_Put_Dir |
---|
| 438 | #D-* Purpose: Copy a complete directory on $(ARCHIVE) |
---|
| 439 | #D-* Examples: |
---|
| 440 | #D- |
---|
| 441 | function IGCM_sys_Put_Dir { |
---|
[810] | 442 | IGCM_debug_PushStack "IGCM_sys_Put_Dir" $@ |
---|
| 443 | if ( $DEBUG_sys ) ; then |
---|
| 444 | echo "IGCM_sys_Put_Dir :" $@ |
---|
| 445 | fi |
---|
| 446 | if [ $DRYRUN = 0 ]; then |
---|
| 447 | if [ ! -d ${1} ] ; then |
---|
| 448 | echo "WARNING : IGCM_sys_Put_Dir ${1} DOES NOT EXIST ." |
---|
| 449 | IGCM_debug_PopStack "IGCM_sys_Put_Dir" |
---|
| 450 | return |
---|
[428] | 451 | fi |
---|
| 452 | |
---|
[810] | 453 | typeset status |
---|
[428] | 454 | |
---|
[810] | 455 | # Only if we use rsync |
---|
| 456 | #IGCM_sys_TestDirArchive $( dirname $2 ) |
---|
| 457 | # |
---|
| 458 | #USUAL WAY |
---|
[1179] | 459 | \cp -r $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[810] | 460 | status=$? |
---|
[428] | 461 | |
---|
[810] | 462 | if [ ${status} -gt 0 ] ; then |
---|
| 463 | IGCM_debug_Print 2 "IGCM_sys_Put_Dir : cp failed error code ${status}" |
---|
[1179] | 464 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 465 | IGCM_debug_Exit "IGCM_sys_Put_Dir" |
---|
[428] | 466 | else |
---|
[1179] | 467 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[428] | 468 | fi |
---|
[810] | 469 | fi |
---|
| 470 | IGCM_debug_PopStack "IGCM_sys_Put_Dir" |
---|
[428] | 471 | } |
---|
| 472 | |
---|
| 473 | #D-#================================================== |
---|
| 474 | #D-function IGCM_sys_Get_Dir |
---|
[810] | 475 | #D-* Purpose: Copy a complete directory from ${ARCHIVE} |
---|
[428] | 476 | #D-* Examples: |
---|
| 477 | #D- |
---|
| 478 | function IGCM_sys_Get_Dir { |
---|
[810] | 479 | IGCM_debug_PushStack "IGCM_sys_Get_Dir" $@ |
---|
| 480 | if ( $DEBUG_sys ) ; then |
---|
| 481 | echo "IGCM_sys_Get_Dir :" $@ |
---|
| 482 | fi |
---|
| 483 | if [ $DRYRUN = 0 ]; then |
---|
| 484 | if [ ! -d ${1} ] ; then |
---|
| 485 | echo "WARNING : IGCM_sys_Get_Dir ${1} DOES NOT EXIST ." |
---|
| 486 | IGCM_debug_PopStack "IGCM_sys_Get_Dir" |
---|
| 487 | return |
---|
[428] | 488 | fi |
---|
| 489 | |
---|
[810] | 490 | typeset status |
---|
[428] | 491 | |
---|
[811] | 492 | #USUAL WAY |
---|
[1179] | 493 | \cp -ur $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[810] | 494 | status=$? |
---|
[428] | 495 | |
---|
[810] | 496 | if [ ${status} -gt 0 ] ; then |
---|
| 497 | IGCM_debug_Print 2 "IGCM_sys_Get_Dir : cp failed error code ${status}" |
---|
[1179] | 498 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 499 | IGCM_debug_Exit "IGCM_sys_Get_Dir" |
---|
[428] | 500 | else |
---|
[1179] | 501 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[428] | 502 | fi |
---|
[810] | 503 | fi |
---|
| 504 | IGCM_debug_PopStack "IGCM_sys_Get_Dir" |
---|
[428] | 505 | } |
---|
| 506 | |
---|
| 507 | #D-#================================================== |
---|
| 508 | #D-function IGCM_sys_Put_Rest |
---|
[810] | 509 | #D-* Purpose: Put computied restarts on ${ARCHIVE}. |
---|
[428] | 510 | #D- File and target directory must exist. |
---|
| 511 | #D-* Examples: |
---|
| 512 | #D- |
---|
| 513 | function IGCM_sys_Put_Rest { |
---|
[810] | 514 | IGCM_debug_PushStack "IGCM_sys_Put_Rest" $@ |
---|
| 515 | if ( $DEBUG_sys ) ; then |
---|
| 516 | echo "IGCM_sys_Put_Rest :" $@ |
---|
| 517 | fi |
---|
| 518 | if [ $DRYRUN = 0 ]; then |
---|
| 519 | if [ ! -f ${1} ] ; then |
---|
| 520 | echo "ERROR : IGCM_sys_Put_Rest ${1} DOES NOT EXIST ." |
---|
| 521 | IGCM_debug_Exit "IGCM_sys_Put_Rest" |
---|
[428] | 522 | fi |
---|
| 523 | |
---|
[810] | 524 | typeset status |
---|
| 525 | # |
---|
| 526 | if [ X${JobType} = XRUN ] ; then |
---|
| 527 | IGCM_sys_Chmod 444 ${1} |
---|
| 528 | fi |
---|
| 529 | # |
---|
| 530 | # Only if we use rsync |
---|
| 531 | #IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
| 532 | # |
---|
| 533 | #USUAL WAY |
---|
[1179] | 534 | \cp $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[810] | 535 | status=$? |
---|
[428] | 536 | |
---|
[810] | 537 | if [ ${status} -gt 0 ] ; then |
---|
[1180] | 538 | IGCM_debug_Print 2 "IGCM_sys_Put_Rest : cp failed error code ${status}" |
---|
[1179] | 539 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 540 | IGCM_debug_Exit "IGCM_sys_Put_Rest" |
---|
[428] | 541 | else |
---|
[1179] | 542 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[428] | 543 | fi |
---|
[810] | 544 | fi |
---|
| 545 | IGCM_debug_PopStack "IGCM_sys_Put_Rest" |
---|
[428] | 546 | } |
---|
| 547 | |
---|
| 548 | #D-#================================================== |
---|
| 549 | #D-function IGCM_sys_Put_Out |
---|
[810] | 550 | #D-* Purpose: Copy a file on ${ARCHIVE} after having chmod it in readonly |
---|
[428] | 551 | #D-* Examples: |
---|
| 552 | #D- |
---|
| 553 | function IGCM_sys_Put_Out { |
---|
[810] | 554 | IGCM_debug_PushStack "IGCM_sys_Put_Out" $@ |
---|
| 555 | if ( $DEBUG_sys ) ; then |
---|
| 556 | echo "IGCM_sys_Put_Out :" $@ |
---|
| 557 | fi |
---|
| 558 | |
---|
| 559 | typeset status |
---|
| 560 | |
---|
| 561 | if [ $DRYRUN = 0 ]; then |
---|
| 562 | if [ ! -f ${1} ] ; then |
---|
| 563 | echo "WARNING : IGCM_sys_Put_Out ${1} DOES NOT EXIST ." |
---|
| 564 | IGCM_debug_PopStack "IGCM_sys_Put_Out" |
---|
| 565 | return 1 |
---|
[428] | 566 | fi |
---|
[810] | 567 | # |
---|
| 568 | IGCM_sys_MkdirArchive $( dirname $2 ) |
---|
| 569 | # |
---|
| 570 | if [ X${JobType} = XRUN ] ; then |
---|
| 571 | if [ X${3} = X ] ; then |
---|
| 572 | IGCM_sys_Chmod 444 ${1} |
---|
[786] | 573 | fi |
---|
[810] | 574 | fi |
---|
| 575 | # |
---|
| 576 | #USUAL WAY |
---|
[1179] | 577 | \cp $1 $2 > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[810] | 578 | status=$? |
---|
| 579 | |
---|
| 580 | if [ ${status} -gt 0 ] ; then |
---|
| 581 | IGCM_debug_Print 2 "IGCM_sys_Put_Out : cp failed error code ${status}" |
---|
[1179] | 582 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 583 | IGCM_debug_Exit "IGCM_sys_Put_Out" |
---|
| 584 | else |
---|
[1179] | 585 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 586 | fi |
---|
| 587 | fi |
---|
| 588 | IGCM_debug_PopStack "IGCM_sys_Put_Out" |
---|
| 589 | return 0 |
---|
| 590 | } |
---|
| 591 | |
---|
| 592 | #D-#================================================== |
---|
[428] | 593 | #D-function IGCM_sys_Get |
---|
| 594 | #D-* Purpose: Get a file from ${ARCHIVE} |
---|
| 595 | #D-* Examples: IGCM_sys_Get myfile /destpath/myfile_with_PREFIX |
---|
| 596 | #D- IGCM_sys_Get /l Array_contain_myfiles /destpath/ |
---|
| 597 | function IGCM_sys_Get { |
---|
[810] | 598 | IGCM_debug_PushStack "IGCM_sys_Get" $@ |
---|
[428] | 599 | |
---|
[810] | 600 | typeset DEST status dm_liste |
---|
[428] | 601 | |
---|
[810] | 602 | if ( $DEBUG_sys ) ; then |
---|
| 603 | echo "IGCM_sys_Get :" $@ |
---|
| 604 | fi |
---|
| 605 | if [ $DRYRUN -le 2 ]; then |
---|
| 606 | if [ X${1} = X'/l' ] ; then |
---|
| 607 | eval set +A dm_liste \${${2}} |
---|
| 608 | else |
---|
| 609 | dm_liste=${1} |
---|
[428] | 610 | fi |
---|
[810] | 611 | eval DEST=\${${#}} |
---|
[428] | 612 | |
---|
[810] | 613 | # test if the (first) file is present in the old computation : |
---|
| 614 | DEBUG_sys=false IGCM_sys_IsFileArchived ${dm_liste[0]} |
---|
| 615 | if [ $? = 0 ] ; then |
---|
[786] | 616 | IGCM_sys_TestFileArchive ${dm_liste[0]} |
---|
[810] | 617 | status=$? |
---|
| 618 | else |
---|
| 619 | IGCM_sys_TestFileBuffer ${dm_liste[0]} |
---|
| 620 | status=$? |
---|
| 621 | fi |
---|
[428] | 622 | |
---|
[810] | 623 | if [ ${status} -gt 0 ] ; then |
---|
| 624 | echo "IGCM_sys_Get, ERROR : regular file ${dm_liste[0]} DOES NOT EXIST ." |
---|
| 625 | IGCM_debug_Exit "IGCM_sys_Get" |
---|
| 626 | return |
---|
| 627 | fi |
---|
[428] | 628 | |
---|
[810] | 629 | #USUAL WAY |
---|
[1179] | 630 | \cp ${dm_liste[*]} ${DEST} > ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ 2>&1 |
---|
[810] | 631 | status=$? |
---|
| 632 | |
---|
| 633 | if [ ${status} -gt 0 ] ; then |
---|
| 634 | IGCM_debug_Print 2 "IGCM_sys_Get : cp failed error code ${status}" |
---|
[1179] | 635 | cat ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 636 | IGCM_debug_Exit "IGCM_sys_Get" |
---|
| 637 | else |
---|
[1179] | 638 | \rm ${OUTCOMMAND_PATH}/out_command_${LOGIN}.$$ |
---|
[810] | 639 | fi |
---|
| 640 | fi |
---|
| 641 | IGCM_debug_PopStack "IGCM_sys_Get" |
---|
| 642 | } |
---|
| 643 | |
---|
| 644 | #D-#================================================== |
---|
[811] | 645 | #D-function IGCM_sys_Dods_Rm |
---|
| 646 | #D-* Purpose: DO NOTHING ! Put ${ARCHIVE} files on DODS internet protocole. |
---|
| 647 | #D-* Examples: |
---|
| 648 | #D- |
---|
| 649 | function IGCM_sys_Dods_Rm { |
---|
| 650 | if ( $DEBUG_sys ) ; then |
---|
| 651 | echo "IGCM_sys_Dods_Rm :" $@ |
---|
| 652 | fi |
---|
| 653 | return 0 |
---|
| 654 | } |
---|
| 655 | |
---|
| 656 | #D-#================================================== |
---|
| 657 | #D-function IGCM_sys_Dods_Cp |
---|
| 658 | #D-* Purpose: Copy $(ARCHIVE) files on DODS internet protocole. |
---|
| 659 | #D-* Examples: |
---|
| 660 | #D- |
---|
| 661 | function IGCM_sys_Dods_Cp { |
---|
| 662 | if ( $DEBUG_sys ) ; then |
---|
| 663 | echo "IGCM_sys_Dods_Cp :" $@ |
---|
| 664 | fi |
---|
| 665 | return 0 |
---|
| 666 | } |
---|
| 667 | |
---|
| 668 | #D-#================================================== |
---|
[810] | 669 | #D-function IGCM_sys_Put_Dods |
---|
| 670 | #D-* Purpose: Put ${ARCHIVE} files on DODS internet protocole. Dummy function here |
---|
| 671 | #D-* Examples: |
---|
| 672 | #D- |
---|
| 673 | function IGCM_sys_Put_Dods { |
---|
| 674 | IGCM_debug_PushStack "IGCM_sys_Put_Dods" $@ |
---|
| 675 | if ( $DEBUG_sys ) ; then |
---|
| 676 | echo "IGCM_sys_Put_Dods :" $@ |
---|
| 677 | fi |
---|
| 678 | IGCM_debug_PopStack "IGCM_sys_Put_Dods" |
---|
| 679 | } |
---|
| 680 | |
---|
[428] | 681 | ############################################################## |
---|
| 682 | # REBUILD OPERATOR |
---|
| 683 | |
---|
[810] | 684 | #D-#================================================== |
---|
[1163] | 685 | #D-function IGCM_sys_sync |
---|
| 686 | #D-* Purpose: flush buffer on disk (dummy function on Ada) |
---|
| 687 | #D-* Examples: |
---|
| 688 | #D- |
---|
| 689 | function IGCM_sys_sync { |
---|
| 690 | IGCM_debug_PushStack "IGCM_sys_sync" $@ |
---|
| 691 | if ( $DEBUG_sys ) ; then |
---|
| 692 | echo "IGCM_sys_sync :" $@ |
---|
| 693 | echo "Dummy call, let the system do that." |
---|
| 694 | fi |
---|
| 695 | IGCM_debug_PopStack "IGCM_sys_sync" |
---|
| 696 | } |
---|
| 697 | |
---|
[428] | 698 | ############################################################ |
---|
| 699 | # Activate Running Environnment Variables |
---|
| 700 | |
---|
[810] | 701 | #D-#================================================== |
---|
[1239] | 702 | #D-function IGCM_sys_activ_variables |
---|
[810] | 703 | #D-* Purpose: set environement variables prior to execution |
---|
| 704 | #D-* Examples: |
---|
| 705 | #D- |
---|
[428] | 706 | function IGCM_sys_activ_variables { |
---|
[810] | 707 | IGCM_debug_PushStack "IGCM_sys_activ_variables" |
---|
| 708 | if ( $DEBUG_sys ) ; then |
---|
[811] | 709 | echo "IGCM_sys_activ_variables" |
---|
[810] | 710 | fi |
---|
[428] | 711 | |
---|
| 712 | # -------------------------------------------------------------------- |
---|
| 713 | #D- MPI specifications |
---|
| 714 | # -------------------------------------------------------------------- |
---|
| 715 | |
---|
| 716 | # -------------------------------------------------------------------- |
---|
| 717 | #D- Other specifications |
---|
| 718 | # -------------------------------------------------------------------- |
---|
| 719 | |
---|
[810] | 720 | IGCM_debug_PopStack "IGCM_sys_activ_variables" |
---|
[428] | 721 | } |
---|
| 722 | |
---|
| 723 | ############################################################ |
---|
| 724 | # Desactivate Running Environnment Variables |
---|
| 725 | |
---|
[810] | 726 | #D-#================================================== |
---|
| 727 | #D-function IGCM_sys_desactiv_variables |
---|
| 728 | #D-* Purpose: unset environement variables after execution |
---|
| 729 | #D-* Examples: |
---|
| 730 | #D- |
---|
[428] | 731 | function IGCM_sys_desactiv_variables { |
---|
[810] | 732 | IGCM_debug_PushStack "IGCM_sys_desactiv_variables" |
---|
| 733 | if ( $DEBUG_sys ) ; then |
---|
[811] | 734 | echo "IGCM_sys_desactiv_variables" |
---|
[810] | 735 | fi |
---|
[428] | 736 | # -------------------------------------------------------------------- |
---|
| 737 | #D- MPI specifications |
---|
| 738 | # -------------------------------------------------------------------- |
---|
| 739 | |
---|
| 740 | # -------------------------------------------------------------------- |
---|
| 741 | #D- Other specifications |
---|
| 742 | # -------------------------------------------------------------------- |
---|
| 743 | |
---|
[810] | 744 | IGCM_debug_PopStack "IGCM_sys_desactiv_variables" |
---|
| 745 | } |
---|
[809] | 746 | |
---|
[810] | 747 | ############################################################ |
---|
[1239] | 748 | # Update job headers to be used by the scheduler |
---|
| 749 | |
---|
| 750 | #D-#================================================== |
---|
| 751 | #D-function IGCM_sys_updateHeaders |
---|
| 752 | #D-* Purpose: Update job headers to be used by the scheduler |
---|
| 753 | #D-* Examples: IGCM_sys_updateHeaders /path/to/Job_MYEXP |
---|
| 754 | #D- |
---|
| 755 | function IGCM_sys_updateHeaders { |
---|
| 756 | IGCM_debug_PushStack "IGCM_sys_updateHeaders" |
---|
| 757 | if ( $DEBUG_sys ) ; then |
---|
| 758 | echo "IGCM_sys_updateHeaders" |
---|
| 759 | fi |
---|
| 760 | typeset file |
---|
| 761 | file=$1 |
---|
| 762 | |
---|
| 763 | if [ ${executionType} -eq 1 ] ; then |
---|
| 764 | # MPMD + MPI |
---|
| 765 | sed -e "/::openMPthreads::/d" \ |
---|
| 766 | -e "s/::JobNumProcTot::/${coreNumber}/" \ |
---|
| 767 | ${file} > ${file}.tmp |
---|
| 768 | |
---|
| 769 | elif [ ${executionType} -eq 2 ] ; then |
---|
| 770 | # MPMD + MPI + OMP |
---|
| 771 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
| 772 | -e "s/::JobNumProcTot::/${coreNumber}/" \ |
---|
| 773 | ${file} > ${file}.tmp |
---|
| 774 | |
---|
| 775 | elif [ ${executionType} -eq 3 ] ; then |
---|
| 776 | # SPMD + MPI/OMP |
---|
| 777 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
| 778 | -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 779 | ${file} > ${file}.tmp |
---|
| 780 | |
---|
| 781 | elif [ ${executionType} -eq 4 ] ; then |
---|
| 782 | # SPMD + MPI only |
---|
| 783 | sed -e "s/::JobNumProcTot::/${mpiTasks}/" \ |
---|
| 784 | -e "/::openMPthreads::/d" \ |
---|
| 785 | ${file} > ${file}.tmp |
---|
| 786 | |
---|
| 787 | elif [ ${executionType} -eq 5 ] ; then |
---|
| 788 | # SPMD + OMP only |
---|
| 789 | sed -e "s/::openMPthreads::/${openMPthreads}/" \ |
---|
| 790 | -e "/::JobNumProcTot::/d" \ |
---|
| 791 | ${file} > ${file}.tmp |
---|
| 792 | |
---|
| 793 | elif [ ${executionType} -eq 6 ] ; then |
---|
| 794 | # SEQUENTIAL THEN |
---|
| 795 | sed -e "s/::JobNumProcTot::/1/" \ |
---|
| 796 | -e "/::openMPthreads::/d" \ |
---|
| 797 | ${file} > ${file}.tmp |
---|
| 798 | |
---|
| 799 | fi |
---|
| 800 | |
---|
| 801 | IGCM_sys_Mv ${file}.tmp ${file} |
---|
| 802 | |
---|
| 803 | IGCM_debug_PopStack "IGCM_sys_updateHeaders" |
---|
| 804 | } |
---|
| 805 | |
---|
| 806 | ############################################################ |
---|
[810] | 807 | # Build MPI/OMP scripts run file (dummy function) |
---|
| 808 | |
---|
| 809 | #D-#================================================== |
---|
| 810 | #D-function IGCM_sys_build_run_file |
---|
| 811 | #D-* Purpose: build run file (deprecated) |
---|
| 812 | #D-* Examples: |
---|
| 813 | #D- |
---|
| 814 | function IGCM_sys_build_run_file { |
---|
| 815 | |
---|
[811] | 816 | IGCM_debug_Print 3 " dummy function : IGCM_sys_build_run_file " |
---|
[810] | 817 | |
---|
[428] | 818 | } |
---|
| 819 | |
---|
| 820 | ############################################################ |
---|
[810] | 821 | # Build MPI/OMP scripts |
---|
[428] | 822 | |
---|
[810] | 823 | #D-#================================================== |
---|
| 824 | #D-function IGCM_sys_build_execution_scripts |
---|
| 825 | #D-* Purpose: build execution scripts to be launch by ${HOST_MPIRUN_COMMAND} |
---|
| 826 | #D-* Examples: |
---|
| 827 | #D- |
---|
| 828 | function IGCM_sys_build_execution_scripts |
---|
| 829 | { |
---|
| 830 | IGCM_debug_PushStack "IGCM_sys_build_execution_scripts" $@ |
---|
| 831 | if ( $DEBUG_sys ) ; then |
---|
| 832 | echo "IGCM_sys_build_execution_scripts " $@ |
---|
| 833 | fi |
---|
| 834 | |
---|
| 835 | typeset NbNodes_Job NbProc_Job comp_proc_mpi_loc comp_proc_omp_loc mpi_count |
---|
| 836 | |
---|
| 837 | if [ ! -f ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} ] ; then |
---|
| 838 | IGCM_debug_Exit "IGCM_sys_iitm build_execution_scripts : Job_${config_UserChoices_JobName} don't exist in SUBMIT_DIR : ${SUBMIT_DIR} " |
---|
| 839 | fi |
---|
| 840 | |
---|
| 841 | if ( ${OK_PARA_MPMD} ) ; then |
---|
| 842 | |
---|
| 843 | if [ -f run_file ] ; then |
---|
| 844 | IGCM_sys_Rm -f run_file |
---|
| 845 | fi |
---|
| 846 | touch run_file |
---|
| 847 | |
---|
| 848 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 849 | # NEW : 2 Noeuds |
---|
| 850 | # @ task_geometry={(0)(1,2,3)} |
---|
| 851 | # Nombre de processus demandes |
---|
| 852 | echo "Job_${config_UserChoices_JobName} includes task_geometry = \c" |
---|
| 853 | cat ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} | grep "task_geometry" | sed -e "s/[^(]*([^(]*/(/g" |
---|
| 854 | echo "Job_${config_UserChoices_JobName} includes task_geometry with NbNodes = \c" |
---|
| 855 | cat ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} | grep "task_geometry" | sed -e "s/[^(]*([^(]*/(/g" | wc -c |
---|
| 856 | NbNodes_Job=$(( $( cat ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} | grep "task_geometry" | sed -e "s/[^(]*([^(]*/(/g" | wc -c ) - 1 )) |
---|
| 857 | |
---|
| 858 | if [ ${NbNodes_Job} -eq 0 ] ; then |
---|
| 859 | IGCM_debug_Print 2 "Error in Job_${config_UserChoices_JobName} ressources : no task_geometry defined with OpenMP run." |
---|
| 860 | exit 1 |
---|
| 861 | fi |
---|
| 862 | else |
---|
| 863 | |
---|
| 864 | # OLD : |
---|
| 865 | # @ total_tasks = 3 |
---|
| 866 | # @ environment = "BATCH_NUM_PROC_TOT=3" |
---|
| 867 | # Pas d OpenMP |
---|
| 868 | # @ resources = ConsumableCpus(1) |
---|
| 869 | |
---|
| 870 | echo "Job_${config_UserChoices_JobName} includes total_tasks = \c" |
---|
| 871 | cat ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} | grep "total_tasks" | sed -e "s/.*total_tasks = //" |
---|
| 872 | NbProc_Job=$( cat ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} | grep "total_tasks" | sed -e "s/.*total_tasks = //" ) |
---|
| 873 | NbProc_Job=${NbProc_Job:=0} |
---|
| 874 | if [ ${NbProc_Job} -eq 0 ] ; then |
---|
| 875 | IGCM_debug_Print 2 "Error in Job_${config_UserChoices_JobName} ressources : no total_tasks defined with MPI only run." |
---|
| 876 | exit 1 |
---|
| 877 | fi |
---|
| 878 | if ( $( egrep '^# *@ *resources *= *ConsumableCpus\(1\)' ${SUBMIT_DIR}/Job_${config_UserChoices_JobName} >/dev/null 2>&1 ) ) ; then |
---|
| 879 | IGCM_debug_Print 2 "ressources = ConsumableCpus(1) line found into Job_${config_UserChoices_JobName}" |
---|
| 880 | else |
---|
| 881 | IGCM_debug_Print 2 "Error in Job_${config_UserChoices_JobName} ressources = line not found. Job should include resources = ConsumableCpus(1) " |
---|
| 882 | exit 1 |
---|
| 883 | fi |
---|
| 884 | fi |
---|
| 885 | |
---|
| 886 | # run_file construction |
---|
| 887 | |
---|
| 888 | # Then first loop on the components for the coupler ie oasis |
---|
| 889 | |
---|
| 890 | ### the coupler ie oasis must be the first one |
---|
| 891 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 892 | |
---|
| 893 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 894 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 895 | |
---|
| 896 | # for CPL component only |
---|
| 897 | if [ "X${comp}" = "XCPL" ] ; then |
---|
| 898 | |
---|
| 899 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 900 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 901 | |
---|
| 902 | if ( ${OK_PARA_MPI} ) ; then |
---|
| 903 | (( mpi_count = 1 )) |
---|
| 904 | until [ ${mpi_count} -gt ${comp_proc_mpi_loc} ] ; do |
---|
| 905 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 906 | echo "env OMP_NUM_THREADS=${comp_proc_omp_loc} ./${ExeNameOut} " >> run_file |
---|
| 907 | else |
---|
| 908 | echo "./${ExeNameOut}" >> run_file |
---|
| 909 | fi |
---|
| 910 | (( mpi_count = mpi_count + 1 )) |
---|
| 911 | done |
---|
| 912 | else |
---|
| 913 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 914 | echo "env OMP_NUM_THREADS=${comp_proc_omp_loc} ./${ExeNameOut} " >> run_file |
---|
| 915 | else |
---|
| 916 | echo "./${ExeNameOut} " >> run_file |
---|
| 917 | fi |
---|
| 918 | fi |
---|
| 919 | fi |
---|
| 920 | done |
---|
| 921 | |
---|
| 922 | # Then second loop on the components |
---|
| 923 | |
---|
| 924 | for comp in ${config_ListOfComponents[*]} ; do |
---|
| 925 | |
---|
| 926 | eval ExeNameIn=\${config_Executable_${comp}[0]} |
---|
| 927 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 928 | |
---|
| 929 | # Only if we really have an executable for the component and not the coupler ie oasis: |
---|
| 930 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${comp}" != "XCPL" ] ) ; then |
---|
| 931 | |
---|
| 932 | eval comp_proc_mpi_loc=\${${comp}_PROC_MPI} |
---|
| 933 | eval comp_proc_omp_loc=\${${comp}_PROC_OMP} |
---|
| 934 | |
---|
| 935 | if ( ${OK_PARA_MPI} ) ; then |
---|
| 936 | (( mpi_count = 1 )) |
---|
| 937 | until [ ${mpi_count} -gt ${comp_proc_mpi_loc} ] ; do |
---|
| 938 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 939 | echo "env OMP_NUM_THREADS=${comp_proc_omp_loc} ./${ExeNameOut} " >> run_file |
---|
| 940 | else |
---|
| 941 | echo "./${ExeNameOut}" >> run_file |
---|
| 942 | fi |
---|
| 943 | (( mpi_count = mpi_count + 1 )) |
---|
| 944 | done |
---|
| 945 | else |
---|
| 946 | if ( ${OK_PARA_OMP} ) ; then |
---|
| 947 | echo "env OMP_NUM_THREADS=${comp_proc_omp_loc} ./${ExeNameOut} " >> run_file |
---|
| 948 | else |
---|
| 949 | # to be tested : no MPI only OpenMP into MPMD mode |
---|
| 950 | echo "./${ExeNameOut} " >> run_file |
---|
| 951 | fi |
---|
| 952 | fi |
---|
| 953 | fi |
---|
| 954 | done |
---|
| 955 | |
---|
| 956 | EXECUTION="${HOST_MPIRUN_COMMAND} -pgmmodel mpmd -cmdfile ./run_file" |
---|
| 957 | |
---|
| 958 | IGCM_sys_Chmod u+x run_file |
---|
[428] | 959 | if ( $DEBUG_sys ) ; then |
---|
[810] | 960 | echo "run_file contains : " |
---|
| 961 | cat run_file |
---|
[428] | 962 | fi |
---|
| 963 | |
---|
[1180] | 964 | # Only one executable (SPMD mode). |
---|
| 965 | else |
---|
[428] | 966 | |
---|
[810] | 967 | for comp in ${config_ListOfComponents[*]} ; do |
---|
[428] | 968 | |
---|
[810] | 969 | # Only if we really have an executable for the component : |
---|
| 970 | eval ExeNameOut=\${config_Executable_${comp}[1]} |
---|
| 971 | if ( [ "X${ExeNameOut}" != X\"\" ] && [ "X${ExeNameOut}" != "Xinca.dat" ] ) ; then |
---|
| 972 | EXECUTION="${HOST_MPIRUN_COMMAND} ./${ExeNameOut}" |
---|
| 973 | fi |
---|
[786] | 974 | |
---|
[810] | 975 | done |
---|
[428] | 976 | |
---|
[810] | 977 | fi |
---|
[428] | 978 | |
---|
[811] | 979 | IGCM_debug_Print 1 "sys iitm : execution command is" |
---|
[810] | 980 | IGCM_debug_Print 1 "$EXECUTION" |
---|
[428] | 981 | |
---|
[810] | 982 | IGCM_debug_PopStack "IGCM_sys_build_execution_scripts" |
---|
[428] | 983 | } |
---|
[651] | 984 | |
---|
[933] | 985 | #D-#================================================== |
---|
| 986 | #D-function IGCM_sys_check_path |
---|
| 987 | #D-* Purpose: check that RUN_DIR_PATH that will be removed on some machine |
---|
| 988 | #D-* do not point to an important use directory. Stop immediately in that case. |
---|
| 989 | #D-* Examples: |
---|
| 990 | #D- |
---|
| 991 | function IGCM_sys_check_path { |
---|
| 992 | IGCM_debug_PushStack "IGCM_sys_check_path" |
---|
| 993 | if ( $DEBUG_sys ) ; then |
---|
| 994 | echo "IGCM_sys_check_path" |
---|
| 995 | fi |
---|
[810] | 996 | |
---|
[933] | 997 | if ( [ X${RUN_DIR_PATH} = X${HOME} ] || [ X${RUN_DIR_PATH} = X${WORKDIR} ] || [ X${RUN_DIR_PATH} = X${ARCHIVE} ] ) ; then |
---|
| 998 | IGCM_debug_Print 1 "Variable RUN_DIR_PATH is pointing to an important directory : ${RUN_DIR_PATH}" |
---|
| 999 | IGCM_debug_Print 1 "Please check the RUN_DIR_PATH definition in your Job : Job_${config_UserChoices_JobName}" |
---|
[936] | 1000 | IGCM_debug_Exit "This will stop the job" |
---|
[933] | 1001 | fi |
---|
| 1002 | IGCM_debug_PopStack "IGCM_sys_check_path" |
---|
| 1003 | } |
---|
| 1004 | |
---|
[810] | 1005 | #D-#================================================== |
---|
| 1006 | #D-function IGCM_sys_check_quota. Dummy call here |
---|
| 1007 | #D-* Purpose: check user quota. Stop the simulation if quota above 90% |
---|
| 1008 | #D-* Examples: |
---|
| 1009 | #D- |
---|
[651] | 1010 | function IGCM_sys_check_quota { |
---|
[810] | 1011 | IGCM_debug_PushStack "IGCM_sys_check_quota" |
---|
| 1012 | if ( $DEBUG_sys ) ; then |
---|
| 1013 | echo "IGCM_sys_check_quota" |
---|
| 1014 | fi |
---|
| 1015 | IGCM_debug_PopStack "IGCM_sys_check_quota" |
---|
| 1016 | } |
---|
| 1017 | |
---|
| 1018 | #D-#================================================== |
---|
| 1019 | #D-function IGCM_sys_CountJobInQueue |
---|
[1244] | 1020 | #D-* Purpose: Count number of users job |
---|
[810] | 1021 | #D-* Examples: IGCM_sys_CountJobInQueue ${JobName} NbRun |
---|
| 1022 | #D- |
---|
| 1023 | function IGCM_sys_CountJobInQueue { |
---|
| 1024 | IGCM_debug_PushStack "IGCM_sys_CountJobInQueue" |
---|
| 1025 | if ( $DEBUG_sys ) ; then |
---|
| 1026 | echo "IGCM_sys_CountJobInQueue" |
---|
| 1027 | fi |
---|
| 1028 | |
---|
| 1029 | # Print only the full (-W) JobName (%jn) |
---|
| 1030 | NbRun=$( llq -W -f %jn | grep -c "$1" ) |
---|
| 1031 | |
---|
| 1032 | eval ${2}=${NbRun} |
---|
| 1033 | |
---|
| 1034 | IGCM_debug_PopStack "IGCM_sys_CountJobInQueue" |
---|
| 1035 | } |
---|
[1380] | 1036 | |
---|
| 1037 | #D-#================================================== |
---|
| 1038 | #D-function IGCM_sys_rebuild_nemo |
---|
| 1039 | #D-* Purpose: rebuild nemo parallel files with general rebuild |
---|
| 1040 | #D-* Examples: |
---|
| 1041 | #D- |
---|
| 1042 | |
---|
| 1043 | function IGCM_sys_rebuild_nemo { |
---|
| 1044 | IGCM_debug_PushStack "IGCM_sys_rebuild_nemo" $@ |
---|
| 1045 | if ( $DEBUG_sys ) ; then |
---|
| 1046 | echo "IGCM_sys_rebuild_nemo :" $@ |
---|
| 1047 | fi |
---|
| 1048 | |
---|
| 1049 | nemo_generic_restart_file_name_out=${1} |
---|
| 1050 | nemo_extension_out=${3} |
---|
| 1051 | shift ; shift ; shift |
---|
| 1052 | |
---|
| 1053 | IGCM_sys_rebuild -o ${nemo_generic_restart_file_name_out}.${nemo_extension_out} $@ |
---|
| 1054 | |
---|
| 1055 | IGCM_debug_PopStack "IGCM_sys_rebuild_nemo" |
---|
| 1056 | } |
---|
| 1057 | |
---|
| 1058 | |
---|