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Increase flexibility for multi-model ensembles, add REFS config file #38

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b4b2764
Convert remaining bash ex-scripts to Python
mkavulich Jun 25, 2026
9e84507
Suppress broken pipe error from conda env list in setup_conda.sh
mkavulich Jul 2, 2026
b9a1112
- Update CHECK_POST_OUTPUT.sh to call new python script. For now thi…
mkavulich Jul 6, 2026
110875c
Converting jobs/GENENSPROD_OR_ENSEMBLESTAT.sh to use new python scrip…
mkavulich Jul 6, 2026
0d1082d
Found error: set_vx_params.py was not consistent with set_vx_params.s…
mkavulich Jul 6, 2026
363e15f
Update PCPCOMBINE.sh to use pcpcombine.py. Some PCP combine tasks hav…
mkavulich Jul 6, 2026
75d66cc
All run scripts pythonized!
mkavulich Jul 7, 2026
1067176
Update new genensprod_or_ensemblestat.py for parallel task submission
mkavulich Jul 7, 2026
57283a6
Add gridstat: and pointstat: config sections, give them each an execu…
mkavulich Jul 7, 2026
18aa8d9
For tools that use a staging directory, need a different one for each…
mkavulich Jul 8, 2026
b7477d0
Add genensprod: and ensemblestat: config sections, give them each an …
mkavulich Jul 8, 2026
2d74ee9
Only check for obs_dir for ensemblestat
mkavulich Jul 8, 2026
ddf8f8b
Ensure that numprocs is always an integer
mkavulich Jul 8, 2026
6314e52
Remove unused/deprecated shell scripts
mkavulich Jul 10, 2026
7746d97
Deprecate and remove "echo_lowercase" and "echo_uppercase" bash funct…
mkavulich Jul 10, 2026
562d342
Deprecate and remove print_info_msg() bash function per Issue #15, re…
mkavulich Jul 10, 2026
cf20e25
Deprecate and remove more unneeded bash functions: check_for_preexist…
mkavulich Jul 10, 2026
0654972
Remove the remaining unused bash functions: is_array() and create_sym…
mkavulich Jul 10, 2026
84e9e20
Add explicit !int tags for all TASKS: entry in config_defaults.yaml
mkavulich Jul 10, 2026
8be5b48
Make sure one more TASKS entry is an int
mkavulich Jul 13, 2026
99175bc
More processors!
mkavulich Jul 13, 2026
87613b5
Add checks for renamed/moved config sections in setup.py
mkavulich Jul 17, 2026
f5cffd2
Missed moving gridstat/pointstat settings to new section for MODE_AOD…
mkavulich Jul 17, 2026
6ef4227
Fix linting issues with ush/setup.py
mkavulich Jul 17, 2026
2b426c9
Fix rest of the linting
mkavulich Jul 17, 2026
f095319
First set of changes towards making an array of filenames for an ense…
mkavulich Jul 13, 2026
25a319e
Make default delay 1 second for WE2E tests, set default value as para…
mkavulich Jul 13, 2026
2701ff5
Update config_defaults.yaml for new list-based naming, and to remove …
mkavulich Jul 13, 2026
2eb43dd
Re-configuring all ensemble member names to be zero-indexed. This wil…
mkavulich Jul 13, 2026
f7d70b6
Make things easier and dont allow NUM_ENS_MEMBERS < 1
mkavulich Jul 14, 2026
5bb7aaf
Deprecate FCST_SUBDIR_TEMPLATE, simplifying logic in run scripts
mkavulich Jul 15, 2026
e91fe76
New major capability: a "conf:" subsection for tasks that allows user…
mkavulich Jul 15, 2026
068fb1d
Add "maxtries" configurability
mkavulich Jul 16, 2026
a70437b
Fix staging directory task number appending
mkavulich Jul 16, 2026
8471a56
Committing config file for first attempts
mkavulich Jul 16, 2026
46e9acc
Fix logging call for single task jobs
mkavulich Jul 17, 2026
57a02dd
A few more improvements from SFE experiments
mkavulich Jul 18, 2026
bbd4d94
Do not fail in select_validtime_obs.py if obs not found; that skips t…
mkavulich Jul 18, 2026
0f77e73
Clean up some old unused variables
mkavulich Jul 19, 2026
945db69
Remove deprecated python functions uppercase() and lowercase()
mkavulich Jul 19, 2026
2ffee40
Remove trailing spaces from config files
mkavulich Jul 20, 2026
bfdc27d
Update setup.py to check for all recently deprecated config settings
mkavulich Jul 20, 2026
8273a63
Make pylint happy
mkavulich Jul 20, 2026
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4 changes: 2 additions & 2 deletions jobs/ASCII2NC_OBS.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -51,7 +51,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand All @@ -64,5 +64,5 @@ python $SCRIPTSdir/ascii2nc_obs.py ${VERBOSE_FLAG} \
--cycle_date="${YYMMDD}${HH}" \
--obtype="${OBTYPE}" || \
print_err_msg_exit "\
Call to \"ascii2nc_obs.sh\" from \"${scrfunc_fn}\" failed."
Call to \"ascii2nc_obs.py\" from \"${scrfunc_fn}\" failed."

12 changes: 9 additions & 3 deletions jobs/CHECK_POST_OUTPUT.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -39,6 +39,8 @@ sections=(
for sect in ${sections[*]} ; do
source_yaml ${GLOBAL_VAR_DEFNS_FP} ${sect}
done
# Sets up PYTHONPATH and VERBOSE environment variables
. $USHdir/set_job_env.sh
#
#-----------------------------------------------------------------------
#
Expand All @@ -52,17 +54,21 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
========================================================================"
#
# Call the run script
#
$SCRIPTSdir/check_post_output.sh || \
python $SCRIPTSdir/check_post_output.py ${VERBOSE_FLAG} \
--config="${GLOBAL_VAR_DEFNS_FP}" \
--cycle_date="${YYMMDD}${HH}" \
${ENSMEM_ARG} || \
print_err_msg_exit "\
Call to script \"check_post_output.sh\" from \"${scrfunc_fn}\" failed."
Call to \"check_post_output.py\" from \"${scrfunc_fn}\" failed."

#
#-----------------------------------------------------------------------
#
Expand Down
17 changes: 14 additions & 3 deletions jobs/GENENSPROD_OR_ENSEMBLESTAT.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -35,6 +35,8 @@ sections=(
for sect in ${sections[*]} ; do
source_yaml ${GLOBAL_VAR_DEFNS_FP} ${sect}
done
# Sets up PYTHONPATH, ACCUM_ARG, and VERBOSE environment variables
. $USHdir/set_job_env.sh
#
#-----------------------------------------------------------------------
#
Expand All @@ -48,15 +50,24 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
========================================================================"
#
# Call the run script
#
$SCRIPTSdir/genensprod_or_ensemblestat.sh || \
python $SCRIPTSdir/genensprod_or_ensemblestat.py ${VERBOSE_FLAG} \
--config="${GLOBAL_VAR_DEFNS_FP}" \
--cycle_date="${YYMMDD}${HH}" \
--field_group="${FIELD_GROUP}" \
--obs_dir="${OBS_DIR}" \
--obtype="${OBTYPE}" \
--fcst_level="${FCST_LEVEL}" \
--fcst_thresh="${FCST_THRESH}" \
--metplus_tool="${METPLUSTOOLNAME}" \
${ACCUM_ARG} || \
print_err_msg_exit "\
Call to \"genensprod_or_ensemblestat.sh\" from \"${scrfunc_fn}\" failed."
Call to \"genensprod_or_ensemblestat.py\" from \"${scrfunc_fn}\" failed."

7 changes: 4 additions & 3 deletions jobs/GET_VERIF_OBS.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -50,7 +50,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand All @@ -66,7 +66,7 @@ cmd=(
--obtype "${OBTYPE}"
--obs_day "${YYMMDD}"
)
echo "CALLING: ${cmd[*]}"
printf "CALLING: ${cmd[*]}"
"${cmd[@]}" || print_err_msg_exit "Error calling get_obs.py"
#
#-----------------------------------------------------------------------
Expand All @@ -77,6 +77,7 @@ echo "CALLING: ${cmd[*]}"
#-----------------------------------------------------------------------
#
mkdir -p ${WFLOW_FLAG_FILES_DIR}
file_bn="get_obs_$(echo_lowercase ${OBTYPE})"
# ${VARNAME,,} converts contents of VARNAME to lowercase
file_bn="get_obs_${OBTYPE,,}"
touch "${WFLOW_FLAG_FILES_DIR}/${file_bn}_${YYMMDD}_complete.txt"

10 changes: 5 additions & 5 deletions jobs/GRIDSTAT_OR_POINTSTAT.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -35,7 +35,7 @@ sections=(
for sect in ${sections[*]} ; do
source_yaml ${GLOBAL_VAR_DEFNS_FP} ${sect}
done
# Sets up PYTHONPATH, VERBOSE and ACCUM_ARG environment variables
# Sets up PYTHONPATH, ACCUM_ARG, ENSMEM_ARG and VERBOSE environment variables
. $USHdir/set_job_env.sh
#
#-----------------------------------------------------------------------
Expand All @@ -50,23 +50,23 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
========================================================================"
#
# Call the run script
#
python $SCRIPTSdir/gridstat_or_pointstat.py ${VERBOSE_FLAG} ${ACCUM_ARG} \
python $SCRIPTSdir/gridstat_or_pointstat.py ${VERBOSE_FLAG} \
--config="${GLOBAL_VAR_DEFNS_FP}" \
--cycle_date="${YYMMDD}${HH}" \
--ensmem_index="${ENSMEM_INDX}" \
--field_group="${FIELD_GROUP}" \
--fcst_level="${FCST_LEVEL}" \
--fcst_thresh="${FCST_THRESH}" \
--obtype="${OBTYPE}" \
--obs_dir="${OBS_DIR}" || \
--obs_dir="${OBS_DIR}" \
${ACCUM_ARG} ${ENSMEM_ARG} || \
print_err_msg_exit "\
Call to \"gridstat_or_pointstat.py\" from \"${scrfunc_fn}\" failed."

17 changes: 14 additions & 3 deletions jobs/GRIDSTAT_OR_POINTSTAT_ENSMEAN.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -36,6 +36,8 @@ sections=(
for sect in ${sections[*]} ; do
source_yaml ${GLOBAL_VAR_DEFNS_FP} ${sect}
done
# Sets up PYTHONPATH and VERBOSE environment variables
. $USHdir/set_job_env.sh
#
#-----------------------------------------------------------------------
#
Expand All @@ -49,14 +51,23 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
========================================================================"
#
# Call the run script
#
$SCRIPTSdir/gridstat_or_pointstat_ensmean.sh || \
python $SCRIPTSdir/gridstat_or_pointstat_ensmean.py ${VERBOSE_FLAG} \
--config="${GLOBAL_VAR_DEFNS_FP}" \
--cycle_date="${YYMMDD}${HH}" \
--field_group="${FIELD_GROUP}" \
--obs_dir="${OBS_DIR}" \
--obtype="${OBTYPE}" \
--fcst_level="${FCST_LEVEL}" \
--fcst_thresh="${FCST_THRESH}" \
${ACCUM_ARG} || \
print_err_msg_exit "\
Call to \"gridstat_or_pointstat_ensmean.sh\" from \"${scrfunc_fn}\" failed."
Call to \"gridstat_or_pointstat_ensmean.py\" from \"${scrfunc_fn}\" failed."

17 changes: 13 additions & 4 deletions jobs/GRIDSTAT_OR_POINTSTAT_ENSPROB.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -36,6 +36,8 @@ sections=(
for sect in ${sections[*]} ; do
source_yaml ${GLOBAL_VAR_DEFNS_FP} ${sect}
done
# Sets up PYTHONPATH and VERBOSE environment variables
. $USHdir/set_job_env.sh
#
#-----------------------------------------------------------------------
#
Expand All @@ -49,15 +51,22 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
========================================================================"
#
# Call the run script
#
$SCRIPTSdir/gridstat_or_pointstat_ensprob.sh || \
python $SCRIPTSdir/gridstat_or_pointstat_ensprob.py ${VERBOSE_FLAG} \
--config="${GLOBAL_VAR_DEFNS_FP}" \
--cycle_date="${YYMMDD}${HH}" \
--field_group="${FIELD_GROUP}" \
--obs_dir="${OBS_DIR}" \
--obtype="${OBTYPE}" \
--fcst_level="${FCST_LEVEL}" \
--fcst_thresh="${FCST_THRESH}" \
${ACCUM_ARG} || \
print_err_msg_exit "\
Call to \"gridstat_or_pointstat_ensprob.sh\" from \"${scrfunc_fn}\" failed."

Call to \"gridstat_or_pointstat_ensprob.py\" from \"${scrfunc_fn}\" failed."
2 changes: 1 addition & 1 deletion jobs/MODE.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -54,7 +54,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand Down
4 changes: 2 additions & 2 deletions jobs/PB2NC_OBS.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -51,7 +51,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand All @@ -64,5 +64,5 @@ python $SCRIPTSdir/pb2nc_obs.py ${VERBOSE_FLAG} \
--cycle_date="${YYMMDD}${HH}" \
--obtype="${OBTYPE}" || \
print_err_msg_exit "\
Call to \"pb2nc_obs.sh\" from \"${scrfunc_fn}\" failed."
Call to \"pb2nc_obs.py\" from \"${scrfunc_fn}\" failed."

17 changes: 14 additions & 3 deletions jobs/PCPCOMBINE.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -37,6 +37,8 @@ sections=(
for sect in ${sections[*]} ; do
source_yaml ${GLOBAL_VAR_DEFNS_FP} ${sect}
done
# Sets up PYTHONPATH, ACCUM_ARG, ENSMEM_ARG, and VERBOSE environment variables
. $USHdir/set_job_env.sh
#
#-----------------------------------------------------------------------
#
Expand All @@ -50,15 +52,24 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
========================================================================"
#
# Call the run script
#
$SCRIPTSdir/pcpcombine.sh || \
python $SCRIPTSdir/pcpcombine.py ${VERBOSE_FLAG} \
--config="${GLOBAL_VAR_DEFNS_FP}" \
--cycle_date="${YYMMDD}${HH}" \
--field_group="${FIELD_GROUP}" \
--fcst_or_obs="${FCST_OR_OBS}" \
--obs_dir="${OBS_DIR}" \
--obtype="${OBTYPE}" \
--fcst_level="${FCST_LEVEL}" \
--fcst_thresh="${FCST_THRESH}" \
${ACCUM_ARG} ${ENSMEM_ARG} || \
print_err_msg_exit "\
Call to \"pcpcombine.sh\" from \"${scrfunc_fn}\" failed."
Call to \"pcpcombine.py\" from \"${scrfunc_fn}\" failed."

2 changes: 1 addition & 1 deletion jobs/POINT2GRID.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -49,7 +49,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand Down
2 changes: 1 addition & 1 deletion jobs/REGRIDDATAPLANE.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -54,7 +54,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand Down
2 changes: 1 addition & 1 deletion jobs/TCPAIRS.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -50,7 +50,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand Down
2 changes: 1 addition & 1 deletion jobs/TCRMW.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -50,7 +50,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand Down
2 changes: 1 addition & 1 deletion jobs/TCSTAT.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -50,7 +50,7 @@ scrfunc_fp=$( $READLINK -f "${BASH_SOURCE[0]}" )
scrfunc_fn=$( basename "${scrfunc_fp}" )
scrfunc_dir=$( dirname "${scrfunc_fp}" )

print_info_msg "
printf "
========================================================================
Entering script: \"${scrfunc_fn}\"
In directory: \"${scrfunc_dir}\"
Expand Down
2 changes: 1 addition & 1 deletion parm/metplus/EnsembleStat.conf
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Expand Up @@ -221,7 +221,7 @@ OBS_{{METPLUS_TOOL_NAME}}_WINDOW_END = {OBS_WINDOW_END}
{#-
Import the file containing jinja macros.
#}
{%- import metplus_templates_dir ~ '/metplus_macros.jinja' as metplus_macros %}
{%- import 'metplus_macros.jinja' as metplus_macros %}

{#-
Jinja requires certain variables to be defined globally within the template
Expand Down
2 changes: 1 addition & 1 deletion parm/metplus/GenEnsProd.conf
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Expand Up @@ -109,7 +109,7 @@ STAGING_DIR = {{staging_dir}}
{#-
Import the file containing jinja macros.
#}
{%- import metplus_templates_dir ~ '/metplus_macros.jinja' as metplus_macros %}
{%- import 'metplus_macros.jinja' as metplus_macros %}

{#-
Jinja requires certain variables to be defined globally within the template
Expand Down
2 changes: 1 addition & 1 deletion parm/metplus/GridStat_ensmean.conf
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Expand Up @@ -97,7 +97,7 @@ OBTYPE = {{obtype}}
{#-
Import the file containing jinja macros.
#}
{%- import metplus_templates_dir ~ '/metplus_macros.jinja' as metplus_macros %}
{%- import 'metplus_macros.jinja' as metplus_macros %}

{#-
Set the probabilistic threshold to be used for the forecast field. If
Expand Down
2 changes: 1 addition & 1 deletion parm/metplus/GridStat_ensprob.conf
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Original file line number Diff line number Diff line change
Expand Up @@ -108,7 +108,7 @@ OBTYPE = {{obtype}}
{#-
Import the file containing jinja macros.
#}
{%- import metplus_templates_dir ~ '/metplus_macros.jinja' as metplus_macros %}
{%- import 'metplus_macros.jinja' as metplus_macros %}

{#-
Set the probabilistic threshold to be used for the forecast field. If
Expand Down
2 changes: 1 addition & 1 deletion parm/metplus/PointStat_ensmean.conf
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Original file line number Diff line number Diff line change
Expand Up @@ -161,7 +161,7 @@ OBTYPE = {{obtype}}
{#-
Import the file containing jinja macros.
#}
{%- import metplus_templates_dir ~ '/metplus_macros.jinja' as metplus_macros %}
{%- import 'metplus_macros.jinja' as metplus_macros %}

{#-
Set the probabilistic threshold to be used for the forecast field. If
Expand Down
2 changes: 1 addition & 1 deletion parm/metplus/PointStat_ensprob.conf
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Original file line number Diff line number Diff line change
Expand Up @@ -163,7 +163,7 @@ OBTYPE = {{obtype}}
{#-
Import the file containing jinja macros.
#}
{%- import metplus_templates_dir ~ '/metplus_macros.jinja' as metplus_macros %}
{%- import 'metplus_macros.jinja' as metplus_macros %}

{#-
Set the probabilistic threshold to be used for the forecast field. If
Expand Down
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