forked from NOAA-GSL/global-workflow
-
Notifications
You must be signed in to change notification settings - Fork 0
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Merge pull request NOAA-GSL#37 from jderrico-noaa/gsl_ufs_dev
Add GSL archive script and correct typos/fixed paths
- Loading branch information
Showing
15 changed files
with
2,071 additions
and
426 deletions.
There are no files selected for viewing
Large diffs are not rendered by default.
Oops, something went wrong.
Large diffs are not rendered by default.
Oops, something went wrong.
Large diffs are not rendered by default.
Oops, something went wrong.
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.
Learn more about bidirectional Unicode characters
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.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,241 @@ | ||
| #! /usr/bin/env bash | ||
|
|
||
| source "${HOMEgfs}/ush/preamble.sh" | ||
|
|
||
| ############################################## | ||
| # Begin JOB SPECIFIC work | ||
| ############################################## | ||
|
|
||
| # ICS are restarts and always lag INC by $assim_freq hours | ||
| ARCHINC_CYC=${ARCH_CYC} | ||
| ARCHICS_CYC=$((ARCH_CYC-assim_freq)) | ||
| if [[ "${ARCHICS_CYC}" -lt 0 ]]; then | ||
| ARCHICS_CYC=$((ARCHICS_CYC+24)) | ||
| fi | ||
|
|
||
| # CURRENT CYCLE | ||
| APREFIX="${RUN}.t${cyc}z." | ||
|
|
||
| # Realtime parallels run GFS MOS on 1 day delay | ||
| # If realtime parallel, back up CDATE_MOS one day | ||
| # Ignore possible spelling error (nothing is misspelled) | ||
| # shellcheck disable=SC2153 | ||
| CDATE_MOS=${PDY}${cyc} | ||
| if [[ "${REALTIME}" = "YES" ]]; then | ||
| CDATE_MOS=$(${NDATE} -24 "${PDY}${cyc}") | ||
| fi | ||
| PDY_MOS="${CDATE_MOS:0:8}" | ||
|
|
||
| ############################################################### | ||
| # Archive online for verification and diagnostics | ||
| ############################################################### | ||
| #JKHsource "${HOMEgfs}/ush/file_utils.sh" | ||
| #JKH | ||
| #JKH[[ ! -d ${ARCDIR} ]] && mkdir -p "${ARCDIR}" | ||
| #JKHnb_copy "${COM_ATMOS_ANALYSIS}/${APREFIX}gsistat" "${ARCDIR}/gsistat.${RUN}.${PDY}${cyc}" | ||
| #JKHnb_copy "${COM_CHEM_ANALYSIS}/${APREFIX}aerostat" "${ARCDIR}/aerostat.${RUN}.${PDY}${cyc}" | ||
| #JKHnb_copy "${COM_ATMOS_GRIB_1p00}/${APREFIX}pgrb2.1p00.anl" "${ARCDIR}/pgbanl.${RUN}.${PDY}${cyc}.grib2" | ||
| #JKH | ||
| #JKH# Archive 1 degree forecast GRIB2 files for verification | ||
| #JKHif [[ "${RUN}" == "gfs" ]]; then | ||
| #JKH fhmax=${FHMAX_GFS} | ||
| #JKH fhr=0 | ||
| #JKH while [ "${fhr}" -le "${fhmax}" ]; do | ||
| #JKH fhr2=$(printf %02i "${fhr}") | ||
| #JKH fhr3=$(printf %03i "${fhr}") | ||
| #JKH nb_copy "${COM_ATMOS_GRIB_1p00}/${APREFIX}pgrb2.1p00.f${fhr3}" "${ARCDIR}/pgbf${fhr2}.${RUN}.${PDY}${cyc}.grib2" | ||
| #JKH fhr=$((10#${fhr} + 10#${FHOUT_GFS} )) | ||
| #JKH done | ||
| #JKHfi | ||
| #JKHif [[ "${RUN}" == "gdas" ]]; then | ||
| #JKH flist="000 003 006 009" | ||
| #JKH for fhr in ${flist}; do | ||
| #JKH fname="${COM_ATMOS_GRIB_1p00}/${APREFIX}pgrb2.1p00.f${fhr}" | ||
| #JKH # TODO Shouldn't the archived files also use three-digit tags? | ||
| #JKH fhr2=$(printf %02i $((10#${fhr}))) | ||
| #JKH nb_copy "${fname}" "${ARCDIR}/pgbf${fhr2}.${RUN}.${PDY}${cyc}.grib2" | ||
| #JKH done | ||
| #JKHfi | ||
| #JKH | ||
| #JKHif [[ -s "${COM_ATMOS_TRACK}/avno.t${cyc}z.cyclone.trackatcfunix" ]]; then | ||
| #JKH # shellcheck disable=2153 | ||
| #JKH PSLOT4=${PSLOT:0:4} | ||
| #JKH # shellcheck disable= | ||
| #JKH PSLOT4=${PSLOT4^^} | ||
| #JKH sed "s:AVNO:${PSLOT4}:g" < "${COM_ATMOS_TRACK}/avno.t${cyc}z.cyclone.trackatcfunix" \ | ||
| #JKH > "${ARCDIR}/atcfunix.${RUN}.${PDY}${cyc}" | ||
| #JKH sed "s:AVNO:${PSLOT4}:g" < "${COM_ATMOS_TRACK}/avnop.t${cyc}z.cyclone.trackatcfunix" \ | ||
| #JKH > "${ARCDIR}/atcfunixp.${RUN}.${PDY}${cyc}" | ||
| #JKHfi | ||
| #JKH | ||
| #JKHif [[ "${RUN}" == "gdas" ]] && [[ -s "${COM_ATMOS_TRACK}/gdas.t${cyc}z.cyclone.trackatcfunix" ]]; then | ||
| #JKH # shellcheck disable=2153 | ||
| #JKH PSLOT4=${PSLOT:0:4} | ||
| #JKH # shellcheck disable= | ||
| #JKH PSLOT4=${PSLOT4^^} | ||
| #JKH sed "s:AVNO:${PSLOT4}:g" < "${COM_ATMOS_TRACK}/gdas.t${cyc}z.cyclone.trackatcfunix" \ | ||
| #JKH > "${ARCDIR}/atcfunix.${RUN}.${PDY}${cyc}" | ||
| #JKH sed "s:AVNO:${PSLOT4}:g" < "${COM_ATMOS_TRACK}/gdasp.t${cyc}z.cyclone.trackatcfunix" \ | ||
| #JKH > "${ARCDIR}/atcfunixp.${RUN}.${PDY}${cyc}" | ||
| #JKHfi | ||
| #JKH | ||
| #JKHif [ "${RUN}" = "gfs" ]; then | ||
| #JKH nb_copy "${COM_ATMOS_GENESIS}/storms.gfso.atcf_gen.${PDY}${cyc}" "${ARCDIR}/." | ||
| #JKH nb_copy "${COM_ATMOS_GENESIS}/storms.gfso.atcf_gen.altg.${PDY}${cyc}" "${ARCDIR}/." | ||
| #JKH nb_copy "${COM_ATMOS_TRACK}/trak.gfso.atcfunix.${PDY}${cyc}" "${ARCDIR}/." | ||
| #JKH nb_copy "${COM_ATMOS_TRACK}/trak.gfso.atcfunix.altg.${PDY}${cyc}" "${ARCDIR}/." | ||
| #JKH | ||
| #JKH mkdir -p "${ARCDIR}/tracker.${PDY}${cyc}/${RUN}" | ||
| #JKH blist="epac natl" | ||
| #JKH for basin in ${blist}; do | ||
| #JKH if [[ -f ${basin} ]]; then | ||
| #JKH cp -rp "${COM_ATMOS_TRACK}/${basin}" "${ARCDIR}/tracker.${PDY}${cyc}/${RUN}" | ||
| #JKH fi | ||
| #JKH done | ||
| #JKHfi | ||
| #JKH | ||
| #JKH# Archive required gaussian gfs forecast files for Fit2Obs | ||
| #JKHif [[ "${RUN}" == "gfs" ]] && [[ "${FITSARC}" = "YES" ]]; then | ||
| #JKH VFYARC=${VFYARC:-${ROTDIR}/vrfyarch} | ||
| #JKH [[ ! -d ${VFYARC} ]] && mkdir -p "${VFYARC}" | ||
| #JKH mkdir -p "${VFYARC}/${RUN}.${PDY}/${cyc}" | ||
| #JKH prefix="${RUN}.t${cyc}z" | ||
| #JKH fhmax=${FHMAX_FITS:-${FHMAX_GFS}} | ||
| #JKH fhr=0 | ||
| #JKH while [[ ${fhr} -le ${fhmax} ]]; do | ||
| #JKH fhr3=$(printf %03i "${fhr}") | ||
| #JKH sfcfile="${COM_ATMOS_HISTORY}/${prefix}.sfcf${fhr3}.nc" | ||
| #JKH sigfile="${COM_ATMOS_HISTORY}/${prefix}.atmf${fhr3}.nc" | ||
| #JKH nb_copy "${sfcfile}" "${VFYARC}/${RUN}.${PDY}/${cyc}/" | ||
| #JKH nb_copy "${sigfile}" "${VFYARC}/${RUN}.${PDY}/${cyc}/" | ||
| #JKH (( fhr = 10#${fhr} + 6 )) | ||
| #JKH done | ||
| #JKHfi | ||
|
|
||
|
|
||
| ############################################################### | ||
| # Archive data either to HPSS or locally | ||
| if [[ ${HPSSARCH} = "YES" || ${LOCALARCH} = "YES" ]]; then | ||
| ############################################################### | ||
|
|
||
| # --set the archiving command and create local directories, if necessary | ||
| TARCMD="htar" | ||
| HSICMD="hsi" | ||
| if [[ ${LOCALARCH} = "YES" ]]; then | ||
| TARCMD="tar" | ||
| HSICMD='' | ||
| [[ ! -d "${ATARDIR}/${PDY}${cyc}" ]] && mkdir -p "${ATARDIR}/${PDY}${cyc}" | ||
| [[ ! -d "${ATARDIR}/${CDATE_MOS}" ]] && [[ -d "${ROTDIR}/gfsmos.${PDY_MOS}" ]] && [[ "${cyc}" -eq 18 ]] && mkdir -p "${ATARDIR}/${CDATE_MOS}" | ||
| fi | ||
|
|
||
| #--determine when to save ICs for warm start and forecast-only runs | ||
| SAVEWARMICA="NO" | ||
| SAVEWARMICB="NO" | ||
| SAVEFCSTIC="NO" | ||
| firstday=$(${NDATE} +24 "${SDATE}") | ||
| mm="${PDY:2:2}" | ||
| dd="${PDY:4:2}" | ||
| # TODO: This math yields multiple dates sharing the same nday | ||
| nday=$(( (10#${mm}-1)*30+10#${dd} )) | ||
| mod=$((nday % ARCH_WARMICFREQ)) | ||
| if [[ "${PDY}${cyc}" -eq "${firstday}" ]] && [[ "${cyc}" -eq "${ARCHINC_CYC}" ]]; then SAVEWARMICA="YES" ; fi | ||
| if [[ "${PDY}${cyc}" -eq "${firstday}" ]] && [[ "${cyc}" -eq "${ARCHICS_CYC}" ]]; then SAVEWARMICB="YES" ; fi | ||
| if [[ "${mod}" -eq 0 ]] && [[ "${cyc}" -eq "${ARCHINC_CYC}" ]]; then SAVEWARMICA="YES" ; fi | ||
| if [[ "${mod}" -eq 0 ]] && [[ "${cyc}" -eq "${ARCHICS_CYC}" ]]; then SAVEWARMICB="YES" ; fi | ||
|
|
||
| if [[ "${ARCHICS_CYC}" -eq 18 ]]; then | ||
| nday1=$((nday+1)) | ||
| mod1=$((nday1 % ARCH_WARMICFREQ)) | ||
| if [[ "${mod1}" -eq 0 ]] && [[ "${cyc}" -eq "${ARCHICS_CYC}" ]] ; then SAVEWARMICB="YES" ; fi | ||
| if [[ "${mod1}" -ne 0 ]] && [[ "${cyc}" -eq "${ARCHICS_CYC}" ]] ; then SAVEWARMICB="NO" ; fi | ||
| if [[ "${PDY}${cyc}" -eq "${SDATE}" ]] && [[ "${cyc}" -eq "${ARCHICS_CYC}" ]] ; then SAVEWARMICB="YES" ; fi | ||
| fi | ||
|
|
||
| mod=$((nday % ARCH_FCSTICFREQ)) | ||
| if [[ "${mod}" -eq 0 ]] || [[ "${PDY}${cyc}" -eq "${firstday}" ]]; then SAVEFCSTIC="YES" ; fi | ||
|
|
||
| cd "${DATA}" || exit 2 | ||
|
|
||
| "${HOMEgfs}/ush/hpssarch_gen.sh" "${RUN}" | ||
| status=$? | ||
| if [[ "${status}" -ne 0 ]]; then | ||
| echo "${HOMEgfs}/ush/hpssarch_gen.sh ${RUN} failed, ABORT!" | ||
| exit "${status}" | ||
| fi | ||
|
|
||
| cd "${ROTDIR}" || exit 2 | ||
|
|
||
| if [[ "${RUN}" = "gfs" ]]; then | ||
|
|
||
| targrp_list="gfs_pgrb2" | ||
|
|
||
| #JKH if [ "${ARCH_GAUSSIAN:-"NO"}" = "YES" ]; then | ||
| #JKH targrp_list="${targrp_list} gfs_nc" | ||
| #JKH fi | ||
|
|
||
| #for initial conditions | ||
| if [[ "${SAVEFCSTIC}" = "YES" ]]; then | ||
| targrp_list="${targrp_list} gfs_ics" | ||
| fi | ||
|
|
||
| fi | ||
|
|
||
| # Turn on extended globbing options | ||
| yyyy="${PDY:0:4}" | ||
| shopt -s extglob | ||
| for targrp in ${targrp_list}; do | ||
| set +e | ||
|
|
||
| # Test whether gdas.tar or gdas_restarta.tar will have rstprod data | ||
| has_rstprod="NO" | ||
| case ${targrp} in | ||
| 'gdas'|'gdas_restarta') | ||
| # Test for rstprod in each archived file | ||
| while IFS= read -r file; do | ||
| if [[ -f ${file} ]]; then | ||
| group=$( stat -c "%G" "${file}" ) | ||
| if [[ "${group}" == "rstprod" ]]; then | ||
| has_rstprod="YES" | ||
| break | ||
| fi | ||
| fi | ||
| done < "${DATA}/${targrp}.txt" | ||
|
|
||
| ;; | ||
| *) ;; | ||
| esac | ||
|
|
||
| # Create the tarball | ||
| tar_fl="${ATARDIR}/${yyyy}/${PDY}${cyc}/${targrp}.tar" | ||
| ${TARCMD} -P -cvf "${tar_fl}" $(cat "${DATA}/${targrp}.txt") | ||
| status=$? | ||
|
|
||
| # Change group to rstprod if it was found even if htar/tar failed in case of partial creation | ||
| if [[ "${has_rstprod}" == "YES" ]]; then | ||
| ${HSICMD} chgrp rstprod "${tar_fl}" | ||
| stat_chgrp=$? | ||
| ${HSICMD} chmod 640 "${tar_fl}" | ||
| stat_chgrp=$((stat_chgrp+$?)) | ||
| if [[ "${stat_chgrp}" -gt 0 ]]; then | ||
| echo "FATAL ERROR: Unable to properly restrict ${tar_fl}!" | ||
| echo "Attempting to delete ${tar_fl}" | ||
| ${HSICMD} rm "${tar_fl}" | ||
| echo "Please verify that ${tar_fl} was deleted!" | ||
| exit "${stat_chgrp}" | ||
| fi | ||
| fi | ||
|
|
||
| # For safety, test if the htar/tar command failed after changing groups | ||
| if [[ "${status}" -ne 0 ]] && [[ "${PDY}${cyc}" -ge "${firstday}" ]]; then | ||
| echo "FATAL ERROR: ${TARCMD} ${tar_fl} failed" | ||
| exit "${status}" | ||
| fi | ||
| set_strict | ||
| done | ||
| # Turn extended globbing back off | ||
| shopt -u extglob | ||
|
|
||
| ############################################################### | ||
| fi ##end of HPSS archive | ||
| ############################################################### | ||
|
|
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.
Learn more about bidirectional Unicode characters
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.
Learn more about bidirectional Unicode characters
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.
Learn more about bidirectional Unicode characters
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.
Learn more about bidirectional Unicode characters
Oops, something went wrong.