#!/usr/bin/env bash

# ncremap, the NCO regridder and grid-file, map-file, and weight-generator

# Purpose: Generate weights (i.e., map-files) for and regrid (subsets of) netCDF files between different Swath, Curvilinear, Rectangular, and Unstructured data (SCRUD) horizontal grids, generate any required/requested global or regional rectangular grid, output SCRIP, UGRID, and/or skeleton data formats, and interpolate between any specified pure pressure or hybrid sigma/pressure grids

# Copyright (C) 2015--present Charlie Zender
# This file is part of NCO, the netCDF Operators. NCO is free software.
# You may redistribute and/or modify NCO under the terms of the 
# 3-Clause BSD License.

# You are permitted to link NCO with the HDF, netCDF, OPeNDAP, and UDUnits
# libraries and to distribute the resulting executables under the terms
# of the BSD, but in addition obeying the extra stipulations of the 
# HDF, netCDF, OPeNDAP, and UDUnits licenses.

# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  
# See the 3-Clause BSD License for more details.

# The original author of this software, Charlie Zender, seeks to improve
# it with your suggestions, contributions, bug-reports, and patches.
# Please contact the NCO project at http://nco.sf.net or write to
# Charlie Zender
# Department of Earth System Science
# University of California, Irvine
# Irvine, CA 92697-3100

# Prerequisites: Bash, NCO (also ESMF_RegridWeightGen and/or TempestRemap for full functionality)
# Script could use other shells, e.g., dash (Debian default) after rewriting function definitions and loops
# Debug with 'bash -x ncremap --dbg=dbg_lvl' where 0 <= dbg_lvl <= 5

# Source: https://github.com/nco/nco/tree/master/data/ncremap
# Documentation: http://nco.sf.net/nco.html#ncremap
# Additional Documentation:
# ncremap HowTo: https://e3sm.atlassian.net/wiki/spaces/DOC/pages/754286611/Regridding+E3SM+Data+with+ncremap
# ncclimo HowTo: https://e3sm.atlassian.net/wiki/spaces/DOC/pages/31129737/Generate+Regrid+and+Split+Climatologies+climo+files+with+ncclimo
# E3SM Climatology Requirements: https://acme-climate.atlassian.net/wiki/display/ATM/Climo+Files+-+v0.3+AMIP+runs (includes useful discussion of normalization in comments section)
# Benchmarks: https://acme-climate.atlassian.net/wiki/spaces/ATM/pages/25231711/Validation+and+Benchmarking+of+Regridders

# Regridder works in one of four modes:
# 1. Free-will: Infer source and destination grids to generate map-file, then regrid
# 2. Old Grid: Use known-good destination grid to generate map-file then regrid
# 3. New Grid: Generate source-grid from ncks parameter string
# 4. Pre-Destination: Apply supplied map-file to all input files
# By default, ncremap deletes any intermediate grids and map-file that it generates
# Use Free-Will, Old-Grid, or New-Grid mode to process Swath-Like-Data (SLD) where each input may be a granule on a new grid, yet all inputs are to be regridded to the same output grid
# Use Pre-Destination mode to post-process models or analyses where all files are converted from the same source grid to the same destination grid so the map-file can be pre-generated and never change

# Insta-install:
# scp ~/nco/data/ncremap andes.olcf.ornl.gov:bin_andes
# scp ~/nco/data/ncremap ac.zender@bebop.lcrc.anl.gov:bin
# scp ~/nco/data/ncremap ac.zender@chrysalis.lcrc.anl.gov:bin_chrysalis
# scp ~/nco/data/ncremap compy.pnl.gov:bin
# scp ~/nco/data/ncremap derecho.hpc.ucar.edu:bin
# scp ~/nco/data/ncremap dust.ess.uci.edu:bin
# scp ~/nco/data/ncremap e3sm.ess.uci.edu:bin
# scp ~/nco/data/ncremap frontier.olcf.ornl.gov:bin_frontier
# scp ~/nco/data/ncclimo imua.ess.uci.edu:bin
# scp ~/nco/data/ncclimo perlmutter-p1.nersc.gov:bin_perlmutter
# scp ~/nco/data/ncremap spectral.ess.uci.edu:bin
# scp dust.ess.uci.edu:bin/ncremap ~/bin
# scp dust.ess.uci.edu:bin/ncremap ${MY_BIN_DIR}
# scp zender@dust.ess.uci.edu:bin/ncremap ${MY_BIN_DIR}

# Set script name, directory, PID, run directory
drc_pwd=${PWD}
# Security: Explicitly unset IFS before wordsplitting, so Bash uses default IFS=<space><tab><newline>
unset IFS
# Set these before 'module' command which can overwrite ${BASH_SOURCE[0]}
# NB: dash supports $0 syntax, not ${BASH_SOURCE[0]} syntax
# http://stackoverflow.com/questions/59895/can-a-bash-script-tell-what-directory-its-stored-in
spt_src="${BASH_SOURCE[0]}"
[[ -z "${spt_src}" ]] && spt_src="${0}" # Use ${0} when BASH_SOURCE is unavailable (e.g., dash)
while [ -h "${spt_src}" ]; do # Recursively resolve ${spt_src} until file is no longer a symlink
  drc_spt="$( cd -P "$( dirname "${spt_src}" )" && pwd )"
  spt_src="$(readlink "${spt_src}")"
  [[ ${spt_src} != /* ]] && spt_src="${drc_spt}/${spt_src}" # If ${spt_src} was relative symlink, resolve it relative to path where symlink file was located
done
cmd_ln="${spt_src} ${@}"
drc_spt="$( cd -P "$( dirname "${spt_src}" )" && pwd )"
spt_nm=$(basename ${spt_src}) # [sng] Script name (unlike $0, ${BASH_SOURCE[0]} works well with 'source <script>')
spt_pid=$$ # [nbr] Script PID (process ID)

# https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.1/src/hdf5-1.10.1-RELEASE.txt
# "The file locking calls used in HDF5 1.10.0 (including patch1) will fail when the underlying file system does not support file locking or where locks have been disabled. To disable all file locking operations, an environment variable named HDF5_USE_FILE_LOCKING can be set to the five-character string 'FALSE'."
# 20200110 Qi Tang reports Cori batch scripts to generate map-files fail unless he sets this
# 20200131 Necessary whenever using OpenMP and netCDF4-linked library on any non-locking filesystem?
if [ -z "${HDF5_USE_FILE_LOCKING}" ]; then
    export HDF5_USE_FILE_LOCKING='FALSE'
fi # HDF5_USE_FILE_LOCKING

# 20221108: Passing environment variable NCO_PATH_OVERRIDE (NPO) to ncremap in batch queues fails on Cori
# Approaches that fail include: 1. export NPO='Yes';ncremap ... 2. export NPO='Yes' ncremap ...
# Direct approach that works is to pass NPO flag to ncremap via command-line switch
# Require that path-override switch to be first command-line option (i.e., $1) found with shell syntax
# ncremap/ncclimo implement NPO (though not getopt) logic prior to invoking NCO
# This switch is a no-op in main getopt() block below (since it has already been parsed here)
hrd_pth='No' # [sng] Hard-code machine-dependent paths/modules if HOSTNAME in database
if [ -n "${1}" ]; then
    if [ "${1}" = '--hrd_pth' ] || [ "${1}" = '--npo' ] || [ "${1}" = '--nco_path_override' ] || [ "${1}" = '--NCO_PATH_OVERRIDE' ]; then
	hrd_pth='Yes'
	NCO_PATH_OVERRIDE='Yes'
    fi # !hrd_pth
fi # !$1

# Configure paths at High-Performance Computer Centers (HPCCs) based on ${HOSTNAME}
if [ -z "${HOSTNAME}" ]; then
    if [ -f /bin/hostname ] && [ -x /bin/hostname ]; then
	export HOSTNAME=`/bin/hostname`
    elif [ -f /usr/bin/hostname ] && [ -x /usr/bin/hostname ]; then
	export HOSTNAME=`/usr/bin/hostname`
    fi # !hostname
fi # HOSTNAME
# Default input and output directory is ${DATA}
if [ -z "${DATA}" ]; then
    case "${HOSTNAME}" in 
	andes* ) DATA="/gpfs/alpine/world-shared/cli115/${USER}" ; ;; # OLCF andes compute nodes named andesNNN, 256 GB/node
	bebop* | blogin* | b[0123456789][0123456789][0123456789] ) DATA="/lcrc/group/e3sm/${USER}" ; ;; # ANL/LCRC bebop compute nodes named bNNN, 36|64 cores|GB/node 
	chrysalis* | chrlogin* | chr-[0123456789][0123456789][0123456789][0123456789] ) DATA="/lcrc/group/e3sm/${USER}" ; ;; # ANL/LCRC chrysalis compute nodes named chr-NNNN, 64|256 cores|GB/node 
	*cheyenne* ) DATA="/glade/p/work/${USER}" ; ;; # NCAR cheyenne compute nodes named, e.g., r8i0n8, r5i3n16, r12i5n29 ... 18|(64/128) cores|GB/node (cheyenne login nodes 256 GB)
	compy* | n[0123456789][0123456789][0123456789][0123456789] ) DATA="/qfs/people/${USER}/data" ; ;; # PNNL compy compute nodes all named nNNNN, 40|192 cores|GB/node (compy login nodes also 192 GB)
	constance* | node* ) DATA='/scratch' ; ;; # PNNL
	derecho* ) DATA="/glade/p/work/${USER}" ; ;; # NCAR derecho compute nodes named, e.g., r8i0n8, r5i3n16, r12i5n29 ... 18|(64/256) cores|GB/node (derecho login nodes 512 GB)
	frontier* ) DATA="/lustre/orion/cli115/world-shared/${USER}" ; ;; # OLCF frontier compute nodes named frontier01276 64|512 cores|GB/node
	ilogin* | i[0123456789][0123456789][0123456789] ) DATA="/lcrc/group/e3sm/${USER}" ; ;; # ANL/LCRC improv compute nodes named iNNN, 128|256 cores|GB/node 
	login[0123456789][0123456789] ) # 20230831 Frontier and Perlmutter login nodes share this name :(
	    if [ "${LMOD_SYSTEM_NAME}" = 'frontier' ]; then
		DATA="/lustre/orion/cli115/world-shared/${USER}"
	    elif [ "${LMOD_SYSTEM_NAME}" = 'perlmutter' ]; then
		DATA="${SCRATCH}"
	    fi # !LMOD_SYSTEM_NAME
	    ;; # !login	
	perlmutter* | nid[0123456789][0123456789][0123456789][0123456789][0123456789][0123456789] ) DATA="${SCRATCH}" ; ;; # NERSC perlmutter compute nodes named nidNNNNNN (CPU) with (64)|(512) cores|GB/node (cpu) (login nodes 512 GB)
	* ) DATA='/tmp' ; ;; # Other
    esac # !HOSTNAME
fi # DATA

# 20190423 Speed-up OpenMP processes on Cori KNL Intel builds (and possibly others)
# Environmental settings (e.g., OMP_PROC_BIND=spread or KMP_PROC_BIND=intel) may place all threads on same hardware core
# Problem only known to manifest when multiple instances of NCO are spawned on single node
OMP_PROC_BIND=false

# Ensure batch jobs access correct 'mpirun' (or, with SLURM, 'srun') command, netCDF library, and NCO executables and library
# 20170914 Entire block is identical between ncclimo and ncremap---keep it that way!
# 20190421 Change override default from opt-out to opt-in
# 20221108 Implement hrd_pth in block above prior to getopt()
# 20250903 Simplify code: Always define then re-use E3SMU_ROOT, then add E3SMU_ROOT/bin to path only for ncremap
# 20260416 Andes does not include personal Anaconda because I never installed one there
# Leave NCO_PATH_OVERRIDE unset or set to 'No' to prevent NCO from executing next block that overrides PATH
# Set NCO_PATH_OVERRIDE to 'Yes' in environment to cause NCO to execute next block and to override PATH:
# export NCO_PATH_OVERRIDE='Yes'
if [ "${hrd_pth}" = 'Yes' ] && [ "${NCO_PATH_OVERRIDE}" = 'Yes' ]; then
    # If HOSTNAME is not in database, change hrd_pth_fnd to 'No' in case-statement default fall-through
    hrd_pth_fnd='Yes' # [sng] Machine-dependent paths/modules for HOSTNAME found in database
    case "${HOSTNAME}" in 
	andes* )
	    # 20190827: Must guarantee finding mpirun
	    source ${MODULESHOME}/init/sh # 20150607: PMC Ensures find module commands will be found
            if [ -d '/ccs/proj/cli115/software/e3sm-unified/e3smu_latest_for_nco' ]; then
		E3SMU_ROOT='/ccs/proj/cli115/software/e3sm-unified/e3smu_latest_for_nco/andes'
            else
		E3SMU_ROOT='/ccs/proj/cli115/software/e3sm-unified/base/envs/e3sm_unified_latest'
            fi
            export PATH='/ccs/home/zender/bin_andes'\:${PATH}
	    export LD_LIBRARY_PATH='/ccs/home/zender/lib_andes'\:${E3SMU_ROOT}/lib\:${LD_LIBRARY_PATH} ; ;;
	bebop* | blogin* | b[0123456789][0123456789][0123456789] )
            if [ -d '/lcrc/soft/climate/e3sm-unified/e3smu_latest_for_nco' ]; then
		E3SMU_ROOT='/lcrc/soft/climate/e3sm-unified/e3smu_latest_for_nco/anvil'
            else
		E3SMU_ROOT='/lcrc/soft/climate/e3sm-unified/base/envs/e3sm_unified_latest'
            fi
	    export PATH='/home/zender/bin'\:${PATH}
	    export LD_LIBRARY_PATH='/home/zender/lib'\:${E3SMU_ROOT}/lib\:${LD_LIBRARY_PATH} ; ;;
	chrysalis* | chrlogin* | chr-[0123456789][0123456789][0123456789][0123456789] | ilogin* | i[0123456789][0123456789][0123456789] )
            if [ -d '/lcrc/soft/climate/e3sm-unified/e3smu_latest_for_nco' ]; then
		E3SMU_ROOT='/lcrc/soft/climate/e3sm-unified/e3smu_latest_for_nco/chrysalis'
            else
		E3SMU_ROOT='/lcrc/soft/climate/e3sm-unified/base/envs/e3sm_unified_latest'
            fi
	    export PATH='/home/ac.zender/bin_chrysalis'\:${PATH}
	    export LD_LIBRARY_PATH='/home/ac.zender/lib_chrysalis:/home/ac.zender/anaconda/lib'\:${E3SMU_ROOT}/lib\:${LD_LIBRARY_PATH} ; ;;
	compy* | n[0123456789][0123456789][0123456789][0123456789] )
	    module purge
	    module load gcc/10.2.0
	    # 20210519: This script takes significant time (5-10 seconds) to load
	    # 20230914: Deprecate special MOAB paths, rely on E3SMU
	    # source /compyfs/software/mbtempest.envs.sh
            if [ -d '/share/apps/E3SM/conda_envs/e3smu_latest_for_nco' ]; then
		E3SMU_ROOT='/share/apps/E3SM/conda_envs/e3smu_latest_for_nco/compy'
            else
		E3SMU_ROOT='/share/apps/E3SM/conda_envs/base/envs/e3sm_unified_latest'
            fi
	    export PATH='/qfs/people/zender/bin:/qfs/people/zender/anaconda/bin'\:${PATH}
	    export LD_LIBRARY_PATH='/qfs/people/zender/lib:/qfs/people/zender/anaconda/lib'\:${LD_LIBRARY_PATH} ; ;;
	derecho* )
	    # 20240107: Derecho support not yet tested in batch mode
	    if [ ${spt_nm} = 'ncremap' ]; then
		# On cheyenne, module load ncl installs ERWG in /glade/u/apps/ch/opt/ncl/6.4.0/intel/17.0.1/bin (i.e., ${NCARG_ROOT}/bin)
		module load ncl
	    fi # !ncremap
	    if [ -n "${NCARG_ROOT}" ]; then
		export PATH="${PATH}:/gl                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       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