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script_create.R
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# Copyright 2021-2023 Louis Héraut (louis.heraut@inrae.fr)*1,
# Éric Sauquet (eric.sauquet@inrae.fr)*1
#
# *1 INRAE, France
#
# This file is part of Explore2 R toolbox.
#
# Explore2 R toolbox is free software: you can redistribute it and/or
# modify it under the terms of the GNU General Public License as
# published by the Free Software Foundation, either version 3 of the
# License, or (at your option) any later version.
#
# Explore2 R toolbox 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 GNU
# General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with Explore2 R toolbox.
# If not, see <https://www.gnu.org/licenses/>.
# create_data_sim = function (p, chain) {
# if (grepl(".*[.]nc", p)) {
# data_sim = NetCDF_to_tibble(p,
# chain=chain,
# mode=mode)
# }
# if (is.null(data_sim)) {
# data_sim = dplyr::tibble()
# } else {
# data_sim$code = convert_codeNtoM(data_sim$code)
# data_sim = data_sim[data_sim$code %in% codeSUB10,]
# data_sim = data_sim[order(data_sim$Code),]
# }
# return (data_sim)
# }
create_data = function () {
data = dplyr::tibble()
if (isSim) {
ASHE::post("### Simulated data")
Chain = c()
data_sim = tibble()
for (i in 1:length(files)) {
file = files[[i]]
chain = files_name[[i]][1]
path = file
for (p in path) {
if (file.exists(p)) {
Chain = c(Chain, chain)
ASHE::post(paste0("Get simulated data from ", chain,
" in ", p))
if (grepl(".*[.]nc", p)) {
data_sim_tmp = NetCDF_to_tibble(p,
chain=chain,
type=type,
mode=mode)
}
if (is.null(data_sim_tmp)) {
data_sim_tmp = dplyr::tibble()
} else {
if (type == "hydrologie") {
data_sim_tmp$code =
convert_codeNtoM(data_sim_tmp$code)
data_sim_tmp = data_sim_tmp[data_sim_tmp$code %in%
CodeSUB10,]
data_sim_tmp =
data_sim_tmp[order(data_sim_tmp$code),]
}
}
data_sim = dplyr::bind_rows(data_sim, data_sim_tmp)
rm ("data_sim_tmp")
gc()
}
}
}
if (nrow(data_sim) == 0) {
isSim = FALSE
} else {
id = match(CodeSUB10, CodeALL10)
# meta_sim =
# dplyr::tibble(
# code=CodeSUB10,
# name=codes_selection_data$SuggestionNOM[id],
# hydrological_region=
# iRegHydro()[substr(CodeSUB10, 1, 1)],
# source=codes_selection_data$SOURCE[id],
# reference=
# codes_selection_data$Référence[id],
# XL93_m=
# as.numeric(codes_selection_data$XL93[id]),
# YL93_m=
# as.numeric(codes_selection_data$YL93[id]),
# surface_km2=
# as.numeric(codes_selection_data$S_HYDRO[id]))
meta_sim = codes_selection_data[id,]
meta_sim_tmp = dplyr::summarise(dplyr::group_by(data_sim,
HM,
code),
S=S[1])
meta_sim_tmp = tidyr::pivot_wider(
meta_sim_tmp,
names_from=HM,
values_from=S,
names_glue="surface_{HM}_km2")
meta_sim = dplyr::left_join(meta_sim, meta_sim_tmp,
by="code")
rm ("meta_sim_tmp"); gc()
cols = names(meta_sim)[grepl("surface", names(meta_sim))]
cols = cols[cols != "surface_km2"]
meta_sim =
dplyr::filter(meta_sim,
!if_all(.cols=all_of(cols),
.fns=is.na))
data_sim = dplyr::select(data_sim, -"S")
if (grepl("diagnostic", mode)) {
val2check = names(data_sim)[!(names(data_sim) %in%
c("HM", "code",
"date", "Q_sim"))]
HM = Chain
nHM = length(HM)
if (!is.null(complete_by)) {
HM4complete = complete_by[complete_by %in% HM]
nVal2check = length(val2check)
if (!all(is.na(HM4complete))) {
for (hm4complete in HM4complete) {
data_hm4complete =
data_sim[data_sim$HM == hm4complete,]
data_hm4complete =
dplyr::select(data_hm4complete,
-HM)
for (hm in HM) {
data_hm = data_sim[data_sim$HM == hm,]
data_hm = dplyr::select(data_hm,
-HM)
for (i in 1:nVal2check) {
col = val2check[i]
if (all(is.na(data_hm[[col]]))) {
data_hm =
dplyr::left_join(
dplyr::select(data_hm, -col),
dplyr::select(data_hm4complete,
c("date",
"code",
col)),
by=c("code", "date"))
}
}
data_hm = dplyr::bind_cols(HM=hm,
data_hm)
data_hm = data_hm[names(data_sim)]
data_sim[data_sim$HM == hm,] = data_hm
rm ("data_hm")
gc()
}
}
}
}
data_sim = dplyr::relocate(data_sim, "T",
.before=ET0)
if ("Rl" %in% names(data_sim)) {
data_sim$Rl[!is.finite(data_sim$Rl)] = NA
}
if ("Rs" %in% names(data_sim)) {
data_sim$Rs[!is.finite(data_sim$Rs)] = NA
}
if ("R" %in% names(data_sim)) {
data_sim$R[!is.finite(data_sim$R)] = NA
data_sim = dplyr::filter(dplyr::group_by(data_sim, code),
rep(!all(is.na(R)), length(R)))
}
for (i in 1:length(diag_station_to_remove)) {
data_sim = dplyr::filter(
data_sim,
!(HM ==
names(diag_station_to_remove)[i] &
grepl(diag_station_to_remove[i],
code)))
meta_sim[[paste0("surface_",
names(diag_station_to_remove)[i],
"_km2")]][
grepl(diag_station_to_remove[i], meta_sim$code)
] = NA
}
}
}
}
# if (nrow(data_sim) > 0 | isObs & !isSim) {
if (isObs) {
ASHE::post("### Observation data")
if (isSim) {
Code10_available = levels(factor(data_sim$code))
} else {
Code10_available = CodeSUB10
}
Code10 = Code10_available[Code10_available %in% CodeSUB10]
Code8 = CodeALL8[match(Code10, CodeALL10)]
Code8_filename = paste0(Code8, obs_hydro_format)
nCode = length(Code10)
if (length(Code8) > 0) {
meta_obs = create_meta_HYDRO(computer_data_path,
file.path(type,
obs_hydro_dir),
Code8_filename,
verbose=subverbose)
meta_obs$code = convert_codeNtoM(meta_obs$code)
} else {
meta_obs = dplyr::tibble()
}
data_obs = create_data_HYDRO(computer_data_path,
file.path(type,
obs_hydro_dir),
Code8_filename,
variable_to_load="Qm3s",
val_to_keep=c(val_E2=0),
verbose=subverbose)
data_obs =
dplyr::filter(
data_obs,
dplyr::between(
date,
as.Date(period_extract[1]),
as.Date(period_extract[2])))
data_obs$code = convert_codeNtoM(data_obs$code)
data_obs = dplyr::arrange(data_obs, code)
names(data_obs)[names(data_obs) == "Q"] = "Q_obs"
meta_obs = get_lacune(dplyr::rename(data_obs, Q=Q_obs),
meta_obs)
}
if (isSim & isObs) {
meta = dplyr::left_join(meta_sim,
dplyr::select(meta_obs,
code,
Gestionnaire,
Altitude_m,
tLac_pct,
meanLac),
by="code")
data = dplyr::inner_join(data_sim,
data_obs,
by=c("code", "date"))
rm ("data_sim"); gc()
rm ("data_obs"); gc()
rm ("meta_obs"); gc()
rm ("meta_sim"); gc()
if (propagate_NA) {
NA_propagation = function (X, Ref) {
X[is.na(Ref)] = NA
return (X)
}
data =
dplyr::mutate(
data,
dplyr::across(
where(is.numeric),
~NA_propagation(.x,
Ref=Q_obs)))
}
data = dplyr::relocate(data, Q_obs, .before=Q_sim)
for (i in 1:nVal2check) {
data =
dplyr::mutate(data,
!!paste0(val2check[i],
"_sim"):=get(val2check[i]))
data = dplyr::select(data, -val2check[i])
}
} else if (isSim & !isObs) {
meta = meta_sim
data = data_sim
rm ("data_sim"); gc()
rm ("meta_sim"); gc()
if (grepl("diagnostic", mode)) {
for (i in 1:nVal2check) {
data =
dplyr::mutate(data,
!!paste0(val2check[i],
"_sim"):=get(val2check[i]))
data = dplyr::select(data, -val2check[i])
}
}
} else if (!isSim & isObs) {
meta = meta_obs
data = data_obs
rm ("data_obs"); gc()
rm ("meta_obs"); gc()
}
if (isSim & !is.null(complete_by) & grepl("diagnostic", mode)) {
HM4complete = complete_by[complete_by %in% HM]
if (!all(is.na(HM4complete))) {
for (hm4complete in HM4complete) {
if (!exists("data_val_obs")) {
data_val_obs = dplyr::filter(data,
HM ==
hm4complete)
} else {
data_val_obs =
dplyr::bind_rows(
data_val_obs,
dplyr::filter(data,
HM ==
hm4complete &
!(code %in%
data_val_obs$code)))
}
}
data_val_obs = dplyr::select(data_val_obs,
all_of(c("code", "date",
paste0(val2check, "_sim"))))
names(data_val_obs) = gsub("[_]sim", "_obs", names(data_val_obs))
data = dplyr::left_join(data, data_val_obs, by=c("code",
"date"))
}
}
if (nrow(data) > 0) {
if (isSim & !isObs) {
names(data) = gsub("[_]sim", "", names(data))
}
ASHE::write_tibble(data,
filedir=tmppath,
filename=paste0("data_",
files_name_opt.,
subset_name, ".fst"))
rm ("data"); gc()
meta = dplyr::arrange(meta, code)
ASHE::write_tibble(meta,
filedir=tmppath,
filename=paste0("meta_",
files_name_opt.,
subset_name, ".fst"))
rm ("meta"); gc()
res = TRUE
} else {
data = NULL
res = FALSE
}
return (res)
}
## 1. CREATION OF DATA 4 DIAG ________________________________________
if ('create_data' %in% to_do) {
create_ok = create_data()
}