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Refactor UFS-DA ATM var and ens components to use python g-w #1354

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Refactor UFS-DA ATM var and ens components to use python g-w #1354

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89fc73d
update UFS-DA atm var components to python g-w (#1313)
RussTreadon-NOAA Feb 25, 2023
dd40cff
fix pynorms errors (#1313)
RussTreadon-NOAA Feb 25, 2023
a48ad14
add config files for UFS-DA atm var python g-w (#1313)
RussTreadon-NOAA Feb 27, 2023
c3bb84b
Merge branch 'NOAA-EMC:develop' into feature/refactor_jediatm
RussTreadon-NOAA Feb 27, 2023
e3b71f0
update UFS-DA atm ens components to python g-w (#1313)
RussTreadon-NOAA Feb 28, 2023
88ba6d2
remove UFS-DA atm var and ens components using non-python g-w (#1313)
RussTreadon-NOAA Mar 1, 2023
ae127fe
Merge branch 'NOAA-EMC:develop' into feature/refactor_jediatm
RussTreadon-NOAA Mar 1, 2023
25f0694
address ShellCheck errors in config files (#1313)
RussTreadon-NOAA Mar 1, 2023
6ae4c3a
replace chem with atmos, CRTM_VER with crtm_VERSION, update atmanl_in…
RussTreadon-NOAA Mar 2, 2023
f2d8468
Merge branch 'NOAA-EMC:develop' into feature/refactor_jediatm
RussTreadon-NOAA Mar 2, 2023
1536262
address shellnorms error in config.atm files (#1313)
RussTreadon-NOAA Mar 2, 2023
3a3d628
simplify workflow setup for atmensanlinit (#1313)
RussTreadon-NOAA Mar 2, 2023
c207ff6
add crtm_VERSION to atmanl and atmensanl config; move common function…
RussTreadon-NOAA Mar 2, 2023
1f1e0cc
Merge branch 'NOAA-EMC:develop' into feature/refactor_jediatm
RussTreadon-NOAA Mar 2, 2023
96b89d8
incorporate reviewer suggestions, clean up UFS-DA var and ens config …
RussTreadon-NOAA Mar 3, 2023
4e9932b
Merge branch 'develop' into feature/refactor_jediatm
RussTreadon-NOAA Mar 3, 2023
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3 changes: 1 addition & 2 deletions env/CONTAINER.env
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,7 @@ if [[ $# -ne 1 ]]; then

echo "Must specify an input argument to set runtime environment variables!"
echo "argument can be any one of the following:"
echo "atmanalrun atmensanalrun"
echo "aeroanlrun"
echo "atmanlrun atmensanlrun aeroanlrun"
echo "anal sfcanl fcst post vrfy metp"
echo "eobs eupd ecen efcs epos"
echo "postsnd awips gempak"
Expand Down
27 changes: 11 additions & 16 deletions env/HERA.env
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Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,7 @@ if [[ $# -ne 1 ]]; then

echo "Must specify an input argument to set runtime environment variables!"
echo "argument can be any one of the following:"
echo "atmanalrun atmensanalrun"
echo "aeroanlrun"
echo "atmanlrun atmensanlrun aeroanlrun"
echo "anal sfcanl fcst post vrfy metp"
echo "eobs eupd ecen efcs epos"
echo "postsnd awips gempak"
Expand Down Expand Up @@ -49,29 +48,25 @@ elif [[ "${step}" = "waveinit" ]] || [[ "${step}" = "waveprep" ]] || [[ "${step}
export wavempexec=${launcher}
export wave_mpmd=${mpmd_opt}

elif [[ "${step}" = "atmanalrun" ]]; then
elif [[ "${step}" = "atmanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -n \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmanalrun))
nth_max=$((npe_node_max / npe_node_atmanlrun))

export NTHREADS_ATMANAL=${nth_atmanalrun:-${nth_max}}
[[ ${NTHREADS_ATMANAL} -gt ${nth_max} ]] && export NTHREADS_ATMANAL=${nth_max}
export APRUN_ATMANAL="${launcher} -n ${npe_atmanalrun}"
export NTHREADS_ATMANL=${nth_atmanlrun:-${nth_max}}
[[ ${NTHREADS_ATMANL} -gt ${nth_max} ]] && export NTHREADS_ATMANL=${nth_max}
export APRUN_ATMANL="${launcher} -n ${npe_atmanlrun}"

elif [[ "${step}" = "atmensanalrun" ]]; then
elif [[ "${step}" = "atmensanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -n \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmensanalrun))
nth_max=$((npe_node_max / npe_node_atmensanlrun))

export NTHREADS_ATMENSANAL=${nth_atmensanalrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANAL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANAL=${nth_max}
export APRUN_ATMENSANAL="${launcher} -n ${npe_atmensanalrun}"
export NTHREADS_ATMENSANL=${nth_atmensanlrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANL=${nth_max}
export APRUN_ATMENSANL="${launcher} -n ${npe_atmensanlrun}"

elif [[ "${step}" = "aeroanlrun" ]]; then

Expand Down
30 changes: 19 additions & 11 deletions env/JET.env
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -4,7 +4,7 @@ if [[ $# -ne 1 ]]; then

echo "Must specify an input argument to set runtime environment variables!"
echo "argument can be any one of the following:"
echo "atmanalrun atmensanalrun"
echo "atmanlrun atmensanlrun aeroanlrun"
echo "anal sfcanl fcst post vrfy metp"
echo "eobs eupd ecen efcs epos"
echo "postsnd awips gempak"
Expand Down Expand Up @@ -43,21 +43,29 @@ elif [[ "${step}" = "waveinit" ]] || [[ "${step}" = "waveprep" ]] || [[ "${step}
export wavempexec=${launcher}
export wave_mpmd=${mpmd_opt}

elif [[ "${step}" = "atmanalrun" ]]; then
elif [[ "${step}" = "atmanlrun" ]]; then

nth_max=$((npe_node_max / npe_node_atmanalrun))
nth_max=$((npe_node_max / npe_node_atmanlrun))

export NTHREADS_ATMANAL=${nth_atmanalrun:-${nth_max}}
[[ ${NTHREADS_ATMANAL} -gt ${nth_max} ]] && export NTHREADS_ATMANAL=${nth_max}
export APRUN_ATMANAL="${launcher} ${npe_atmanalrun}"
export NTHREADS_ATMANL=${nth_atmanlrun:-${nth_max}}
[[ ${NTHREADS_ATMANL} -gt ${nth_max} ]] && export NTHREADS_ATMANL=${nth_max}
export APRUN_ATMANL="${launcher} ${npe_atmanlrun}"

elif [[ "${step}" = "atmensanalrun" ]]; then
elif [[ "${step}" = "atmensanlrun" ]]; then

nth_max=$((npe_node_max / npe_node_atmensanalrun))
nth_max=$((npe_node_max / npe_node_atmensanlrun))

export NTHREADS_ATMENSANAL=${nth_atmensanalrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANAL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANAL=${nth_max}
export APRUN_ATMENSANAL="${launcher} ${npe_atmensanalrun}"
export NTHREADS_ATMENSANL=${nth_atmensanlrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANL=${nth_max}
export APRUN_ATMENSANL="${launcher} ${npe_atmensanlrun}"

elif [[ "${step}" = "aeroanlrun" ]]; then

nth_max=$((npe_node_max / npe_node_aeroanlrun))

export NTHREADS_AEROANL=${nth_aeroanlrun:-${nth_max}}
[[ ${NTHREADS_AEROANL} -gt ${nth_max} ]] && export NTHREADS_AEROANL=${nth_max}
export APRUN_AEROANL="${launcher} ${npe_aeroanlrun}"

elif [[ "${step}" = "anal" ]]; then

Expand Down
23 changes: 11 additions & 12 deletions env/ORION.env
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,7 @@ if [[ $# -ne 1 ]]; then

echo "Must specify an input argument to set runtime environment variables!"
echo "argument can be any one of the following:"
echo "atmanalrun atmensanalrun"
echo "aeroanlrun"
echo "atmanlrun atmensanlrun aeroanlrun"
echo "anal sfcanl fcst post vrfy metp"
echo "eobs eupd ecen efcs epos"
echo "postsnd awips gempak"
Expand Down Expand Up @@ -49,29 +48,29 @@ elif [[ "${step}" = "waveinit" ]] || [[ "${step}" = "waveprep" ]] || [[ "${step}
export wavempexec=${launcher}
export wave_mpmd=${mpmd_opt}

elif [[ "${step}" = "atmanalrun" ]]; then
elif [[ "${step}" = "atmanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -n \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmanalrun))
nth_max=$((npe_node_max / npe_node_atmanlrun))

export NTHREADS_ATMANAL=${nth_atmanalrun:-${nth_max}}
[[ ${NTHREADS_ATMANAL} -gt ${nth_max} ]] && export NTHREADS_ATMANAL=${nth_max}
export APRUN_ATMANAL="${launcher} -n ${npe_atmanalrun}"
export NTHREADS_ATMANL=${nth_atmanlrun:-${nth_max}}
[[ ${NTHREADS_ATMANL} -gt ${nth_max} ]] && export NTHREADS_ATMANL=${nth_max}
export APRUN_ATMANL="${launcher} -n ${npe_atmanlrun}"

elif [[ "${step}" = "atmensanalrun" ]]; then
elif [[ "${step}" = "atmensanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -n \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmensanalrun))
nth_max=$((npe_node_max / npe_node_atmensanlrun))

export NTHREADS_ATMENSANAL=${nth_atmensanalrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANAL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANAL=${nth_max}
export APRUN_ATMENSANAL="${launcher} -n ${npe_atmensanalrun}"
export NTHREADS_ATMENSANL=${nth_atmensanlrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANL=${nth_max}
export APRUN_ATMENSANL="${launcher} -n ${npe_atmensanlrun}"

elif [[ "${step}" = "aeroanlrun" ]]; then

Expand Down
23 changes: 11 additions & 12 deletions env/S4.env
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,7 @@ if [[ $# -ne 1 ]]; then

echo "Must specify an input argument to set runtime environment variables!"
echo "argument can be any one of the following:"
echo "atmanalrun atmensanalrun"
echo "aeroanlrun"
echo "atmanlrun atmensanlrun aeroanlrun"
echo "anal sfcanl fcst post vrfy metp"
echo "eobs eupd ecen efcs epos"
echo "postsnd awips gempak"
Expand Down Expand Up @@ -47,29 +46,29 @@ elif [[ "${step}" = "waveinit" ]] || [[ "${step}" = "waveprep" ]] || [[ "${step}
export wavempexec=${launcher}
export wave_mpmd=${mpmd_opt}

elif [[ "${step}" = "atmanalrun" ]]; then
elif [[ "${step}" = "atmanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -n \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmanalrun))
nth_max=$((npe_node_max / npe_node_atmanlrun))

export NTHREADS_ATMANAL=${nth_atmanalrun:-${nth_max}}
[[ ${NTHREADS_ATMANAL} -gt ${nth_max} ]] && export NTHREADS_ATMANAL=${nth_max}
export APRUN_ATMANAL="${launcher} -n ${npe_atmanalrun}"
export NTHREADS_ATMANL=${nth_atmanlrun:-${nth_max}}
[[ ${NTHREADS_ATMANL} -gt ${nth_max} ]] && export NTHREADS_ATMANL=${nth_max}
export APRUN_ATMANL="${launcher} -n ${npe_atmanlrun}"

elif [[ "${step}" = "atmensanalrun" ]]; then
elif [[ "${step}" = "atmensanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -n \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmensanalrun))
nth_max=$((npe_node_max / npe_node_atmensanlrun))

export NTHREADS_ATMENSANAL=${nth_atmensanalrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANAL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANAL=${nth_max}
export APRUN_ATMENSANAL="${launcher} -n ${npe_atmensanalrun}"
export NTHREADS_ATMENSANL=${nth_atmensanlrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANL=${nth_max}
export APRUN_ATMENSANL="${launcher} -n ${npe_atmensanlrun}"

elif [[ "${step}" = "aeroanlrun" ]]; then

Expand Down
23 changes: 11 additions & 12 deletions env/WCOSS2.env
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Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,7 @@ if [[ $# -ne 1 ]]; then

echo "Must specify an input argument to set runtime environment variables!"
echo "argument can be any one of the following:"
echo "atmanalrun atmensanalrun"
echo "aeroanlrun"
echo "atmanlrun atmensanlrun aeroanlrun"
echo "anal sfcanl fcst post vrfy metp"
echo "eobs eupd ecen esfc efcs epos"
echo "postsnd awips gempak"
Expand Down Expand Up @@ -36,29 +35,29 @@ elif [[ "${step}" = "waveinit" ]] || [[ "${step}" = "waveprep" ]] || [[ "${step}
export wavempexec="${launcher} -np"
export wave_mpmd=${mpmd_opt}

elif [[ "${step}" = "atmanalrun" ]]; then
elif [[ "${step}" = "atmanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -np \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmanalrun))
nth_max=$((npe_node_max / npe_node_atmanlrun))

export NTHREADS_ATMANAL=${nth_atmanalrun:-${nth_max}}
[[ ${NTHREADS_ATMANAL} -gt ${nth_max} ]] && export NTHREADS_ATMANAL=${nth_max}
export APRUN_ATMANAL="${launcher} -n ${npe_atmanalrun}"
export NTHREADS_ATMANL=${nth_atmanlrun:-${nth_max}}
[[ ${NTHREADS_ATMANL} -gt ${nth_max} ]] && export NTHREADS_ATMANL=${nth_max}
export APRUN_ATMANL="${launcher} -n ${npe_atmanlrun}"

elif [[ "${step}" = "atmensanalrun" ]]; then
elif [[ "${step}" = "atmensanlrun" ]]; then

export CFP_MP=${CFP_MP:-"YES"}
export USE_CFP=${USE_CFP:-"YES"}
export APRUNCFP="${launcher} -np \$ncmd ${mpmd_opt}"

nth_max=$((npe_node_max / npe_node_atmensanalrun))
nth_max=$((npe_node_max / npe_node_atmensanlrun))

export NTHREADS_ATMENSANAL=${nth_atmensanalrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANAL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANAL=${nth_max}
export APRUN_ATMENSANAL="${launcher} -n ${npe_atmensanalrun}"
export NTHREADS_ATMENSANL=${nth_atmensanlrun:-${nth_max}}
[[ ${NTHREADS_ATMENSANL} -gt ${nth_max} ]] && export NTHREADS_ATMENSANL=${nth_max}
export APRUN_ATMENSANL="${launcher} -n ${npe_atmensanlrun}"

elif [[ "${step}" = "aeroanlrun" ]]; then

Expand Down
66 changes: 0 additions & 66 deletions jobs/JGDAS_GLOBAL_ATMOS_ENSANAL_POST
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66 changes: 0 additions & 66 deletions jobs/JGDAS_GLOBAL_ATMOS_ENSANAL_PREP
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