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Add ex-scripts and com-type nco environment (ufs-community#77)
* add exscript * remove unnecessary files * add prod-util * add task module files * fix module issues * update scripts * update config yaml files * update document * fix without-rocoto scritp * update doc * fix doc * update doc
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,103 @@ | ||
| #!/bin/bash | ||
|
|
||
| date | ||
| export PS4='+ $SECONDS + ' | ||
| set -xue | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Set the NCO standard environment variables (Table 1, pp.4) | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export USHlandda="${HOMElandda}/ush" | ||
| export EXEClandda="${HOMElandda}/exec" | ||
| export PARMlandda="${HOMElandda}/parm" | ||
| export SCRIPTSlandda="${HOMElandda}/scripts" | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Define job and jobid by default for rocoto | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| WORKFLOW_MANAGER="${WORKFLOW_MANAGER:-rocoto}" | ||
| if [ "${WORKFLOW_MANAGER}" = "rocoto" ]; then | ||
| if [ "${SCHED}" = "slurm" ]; then | ||
| job=${SLURM_JOB_NAME} | ||
| pid=${SLURM_JOB_ID} | ||
| elif [ "${SCHED}" = "pbspro" ]; then | ||
| job=${PBS_JOBNAME} | ||
| pid=${PBS_JOBID} | ||
| else | ||
| job="task" | ||
| pid=$$ | ||
| fi | ||
| jobid="${job}.${PDY}${cyc}.${pid}" | ||
| fi | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Create a temp working directory (DATA) and cd into it. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export DATA="${DATA:-${DATAROOT}/${jobid}}" | ||
| mkdir -p $DATA | ||
| cd $DATA | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Define NCO environment variables and set COM type definitions. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export NET="${NET:-landda}" | ||
| export RUN="${RUN:-landda}" | ||
|
|
||
| [[ "$WORKFLOW_MANAGER" = "rocoto" ]] && export COMROOT=$COMROOT | ||
| if [ "${MACHINE}" = "WCOSS2" ]; then | ||
| export COMIN="${COMIN:-$(compath.py -o ${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR})}" | ||
| export COMOUT="${COMOUT:-$(compath.py -o ${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR})}" | ||
| else | ||
| export COMIN="${COMIN:-${COMROOT}/${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR}}" | ||
| export COMOUT="${COMOUT:-${COMROOT}/${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR}}" | ||
| fi | ||
|
|
||
| mkdir -p ${COMOUT} | ||
|
|
||
| # Create a teomporary share directory | ||
| export DATA_SHARE="${DATA_SHARE:-${DATAROOT}/DATA_SHARE/${PDY}${cyc}}" | ||
| mkdir -p ${DATA_SHARE} | ||
|
|
||
| # Run setpdy to initialize PDYm and PDYp variables | ||
| export cycle="${cycle:-t${cyc}z}" | ||
| setpdy.sh | ||
| . ./PDY | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Call the ex-script for this J-job. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export pgmout="${DATA}/OUTPUT.$$" | ||
| env | ||
|
|
||
| ${SCRIPTSlandda}/exlandda_analysis.sh | ||
| export err=$?; err_chk | ||
|
|
||
| if [ -e "$pgmout" ]; then | ||
| cat $pgmout | ||
| fi | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Whether or not working directory DATA should be kept. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| if [ "${KEEPDATA}" = "NO" ]; then | ||
| rm -rf ${DATA} | ||
| fi | ||
| date |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,103 @@ | ||
| #!/bin/bash | ||
|
|
||
| date | ||
| export PS4='+ $SECONDS + ' | ||
| set -xue | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Set the NCO standard environment variables (Table 1, pp.4) | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export USHlandda="${HOMElandda}/ush" | ||
| export EXEClandda="${HOMElandda}/exec" | ||
| export PARMlandda="${HOMElandda}/parm" | ||
| export SCRIPTSlandda="${HOMElandda}/scripts" | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Define job and jobid by default for rocoto | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| WORKFLOW_MANAGER="${WORKFLOW_MANAGER:-rocoto}" | ||
| if [ "${WORKFLOW_MANAGER}" = "rocoto" ]; then | ||
| if [ "${SCHED}" = "slurm" ]; then | ||
| job=${SLURM_JOB_NAME} | ||
| pid=${SLURM_JOB_ID} | ||
| elif [ "${SCHED}" = "pbspro" ]; then | ||
| job=${PBS_JOBNAME} | ||
| pid=${PBS_JOBID} | ||
| else | ||
| job="task" | ||
| pid=$$ | ||
| fi | ||
| jobid="${job}.${PDY}${cyc}.${pid}" | ||
| fi | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Create a temp working directory (DATA) and cd into it. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export DATA="${DATA:-${DATAROOT}/${jobid}}" | ||
| mkdir -p $DATA | ||
| cd $DATA | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Define NCO environment variables and set COM type definitions. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export NET="${NET:-landda}" | ||
| export RUN="${RUN:-landda}" | ||
|
|
||
| [[ "$WORKFLOW_MANAGER" = "rocoto" ]] && export COMROOT=$COMROOT | ||
| if [ "${MACHINE}" = "WCOSS2" ]; then | ||
| export COMIN="${COMIN:-$(compath.py -o ${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR})}" | ||
| export COMOUT="${COMOUT:-$(compath.py -o ${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR})}" | ||
| else | ||
| export COMIN="${COMIN:-${COMROOT}/${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR}}" | ||
| export COMOUT="${COMOUT:-${COMROOT}/${NET}/${model_ver}/${RUN}.${PDY}/${cyc}${SLASH_ENSMEM_SUBDIR}}" | ||
| fi | ||
|
|
||
| mkdir -p ${COMOUT} | ||
|
|
||
| # Create a teomporary share directory | ||
| export DATA_SHARE="${DATA_SHARE:-${DATAROOT}/DATA_SHARE/${PDY}${cyc}}" | ||
| mkdir -p ${DATA_SHARE} | ||
|
|
||
| # Run setpdy to initialize PDYm and PDYp variables | ||
| export cycle="${cycle:-t${cyc}z}" | ||
| setpdy.sh | ||
| . ./PDY | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Call the ex-script for this J-job. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| export pgmout="${DATA}/OUTPUT.$$" | ||
| env | ||
|
|
||
| ${SCRIPTSlandda}/exlandda_forecast.sh | ||
| export err=$?; err_chk | ||
|
|
||
| if [ -e "$pgmout" ]; then | ||
| cat $pgmout | ||
| fi | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| # Whether or not working directory DATA should be kept. | ||
| # | ||
| #----------------------------------------------------------------------- | ||
| # | ||
| if [ "${KEEPDATA}" = "NO" ]; then | ||
| rm -rf ${DATA} | ||
| fi | ||
| date |
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