From 7bb96d6aa419d9b28051c16c6898acdbaf6af2e4 Mon Sep 17 00:00:00 2001
From: Dorchies David <david.dorchies@irstea.fr>
Date: Mon, 13 Feb 2023 10:08:35 +0100
Subject: [PATCH] feat: automatic configuration of endpoints

Refs #14
---
 R/sysdata.rda            | Bin 2540 -> 2226 bytes
 data-raw/config.yml      | 546 +--------------------------------------
 data-raw/configuration.R |  40 +++
 3 files changed, 41 insertions(+), 545 deletions(-)

diff --git a/R/sysdata.rda b/R/sysdata.rda
index 1fb8e30616c480c1aa9993cccd27152f59274bb4..5f313cebee3f00565629ed3cd480261cff048405 100644
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diff --git a/data-raw/config.yml b/data-raw/config.yml
index 8c339be..dbef1e3 100644
--- a/data-raw/config.yml
+++ b/data-raw/config.yml
@@ -1,565 +1,21 @@
 default:
   api_url: https://hubeau.eaufrance.fr/api
+  api_docs: api-docs
   user_agent: https://github.com/inrae/hubeau
   apis:
     prelevements:
       path: v1/prelevements
-      endpoints:
-        points_prelevement:
-          path: referentiel/points_prelevement
-          fields:
-           - code_bdlisa
-           - code_bss_point_eau
-           - code_commune_insee
-           - code_departement
-           - code_entite_hydro_cours_eau
-           - code_entite_hydro_plan_eau
-           - code_mer_ocean
-           - code_nature
-           - code_ouvrage
-           - code_point_prelevement
-           - code_type_milieu
-           - code_zone_hydro
-           - date_exploitation
-           - fields
-           - libelle_departement
-           - nappe_accompagnement
-           - nom_commune
-           - nom_point_prelevement
-        chroniques:
-          path: chroniques
-          fields:
-            - annee
-            - bbox
-            - code_commune_insee
-            - code_departement
-            - code_mode_obtention_volume
-            - code_ouvrage
-            - code_qualification_volume
-            - code_statut_instruction
-            - code_statut_volume
-            - code_usage
-            - distance
-            - fields
-            - latitude
-            - libelle_departement
-            - longitude
-            - nom_commune
-            - prelevement_ecrasant
-            - producteur_donnee
-            - volume_max
-            - volume_min
-        ouvrages:
-          path: referentiel/ouvrages
-          fields:
-            - bbox
-            - code_bdlisa
-            - code_commune_insee
-            - code_departement
-            - code_entite_hydro_cours_eau
-            - code_entite_hydro_plan_eau
-            - code_mer_ocean
-            - code_ouvrage
-            - code_type_milieu
-            - codes_points_prelevements
-            - date_exploitation
-            - distance
-            - fields
-            - latitude
-            - libelle_departement
-            - longitude
-            - nom_commune
-            - nom_ouvrage
     indicateurs_services:
       path: v0/indicateurs_services
-      endpoints:
-        communes:
-          path: communes
-          fields:
-            - annee
-            - code_commune
-            - code_departement
-            - detail_service
-            - fields
-            - type_service
-        indicateurs:
-          path: indicateurs
-          fields:
-            - annee
-            - code_indicateur
-            - fields
-        services:
-          path: services
-          fields:
-            - annee
-            - code_commune
-            - code_departement
-            - fields
-            - type_service
     hydrometrie:
       path: v1/hydrometrie
-      endpoints:
-        stations:
-          path: referentiel/stations
-          fields:
-            - bbox
-            - code_commune_station
-            - code_cours_eau
-            - code_departement
-            - code_region
-            - code_sandre_reseau_station
-            - code_site
-            - code_station
-            - date_fermeture_station
-            - date_ouverture_station
-            - distance
-            - en_service
-            - fields
-            - latitude
-            - libelle_cours_eau
-            - libelle_site
-            - libelle_station
-            - longitude
-        sites:
-          path: referentiel/sites
-          fields:
-            - bbox
-            - code_commune_site
-            - code_cours_eau
-            - code_departement
-            - code_region
-            - code_site
-            - code_troncon_hydro_site
-            - code_zone_hydro_site
-            - distance
-            - fields
-            - latitude
-            - libelle_cours_eau
-            - libelle_site
-            - longitude
-        observations_tr:
-          path: observations_tr
-          fields:
-            - bbox
-            - code_entite
-            - cursor
-            - date_debut_obs
-            - date_fin_obs
-            - distance
-            - fields
-            - grandeur_hydro
-            - latitude
-            - longitude
-            - timestep
-        obs_elab:
-          path: obs_elab
-          fields:
-            - bbox
-            - code_entite
-            - cursor
-            - date_debut_obs_elab
-            - date_fin_obs_elab
-            - distance
-            - fields
-            - grandeur_hydro_elab
-            - latitude
-            - longitude
-            - resultat_max
-            - resultat_min
     niveaux_nappes:
       path: v1/niveaux_nappes
-      endpoints:
-        chroniques:
-          path: chroniques
-          fields:
-            - code_bss
-            - date_debut_mesure
-            - date_fin_mesure
-            - fields
-        chroniques_tr:
-          path: chroniques_tr
-          fields:
-            - bbox
-            - bss_id
-            - code_bss
-            - date_debut_mesure
-            - date_fin_mesure
-            - fields
-            - niveau_ngf_max
-            - niveau_ngf_min
-            - profondeur_max
-            - profondeur_min
-        stations:
-          path: stations
-          fields:
-            - bbox
-            - bss_id
-            - code_bdlisa
-            - code_bss
-            - code_commune
-            - code_departement
-            - codes_masse_eau_edl
-            - date_recherche
-            - fields
-            - srid
     poisson:
       path: v1/etat_piscicole
-      endpoints:
-        observations:
-          path: observations
-          fields:
-            - code_operation
-            - date_operation
-            - etat_avancement_operation
-            - code_qualification_operation
-            - libelle_qualification_operation
-            - code_station
-            - libelle_station
-            - uri_station
-            - coordonnee_x_station
-            - coordonnee_y_station
-            - code_epsg_projection_station
-            - code_projection_station
-            - libelle_projection_station
-            - code_point_prelevement
-            - code_point_prelevement_aspe
-            - libelle_point_prelevement_aspe
-            - coordonnee_x_point_prelevement
-            - coordonnee_y_point_prelevement
-            - code_epsg_projection_point_prelevement
-            - code_projection_point_prelevement
-            - libelle_projection_point_prelevement
-            - lieu_dit_point_prelevement
-            - localisation_precise_point_prelevement
-            - longitude
-            - code_entite_hydro
-            - latitude
-            - libelle_entite_hydro
-            - uri_entite_hydro
-            - code_commune
-            - libelle_commune
-            - code_departement
-            - libelle_departement
-            - code_region
-            - libelle_region
-            - code_bassin
-            - libelle_bassin
-            - codes_dispositifs_collecte
-            - libelles_dispositifs_collecte
-            - uris_dispositifs_collecte
-            - protocole_peche
-            - objectifs_operation
-            - code_prelevement_elementaire
-            - type_prelevement_elementaire
-            - duree_prelevement_elementaire
-            - numero_passage
-            - type_points
-            - nombre_points
-            - nombre_points_sans_poisson
-            - nombre_points_facies_courant
-            - nombre_points_facies_plat
-            - nombre_points_facies_profond
-            - nombre_points_annexes
-            - nombre_points_berge
-            - nombre_points_chenal
-            - nom_ambiance
-            - longueur_ambiance
-            - largeur_ambiance
-            - profondeur_ambiance
-            - code_facies_ambiance
-            - libelle_facies_ambiance
-            - situation_ambiance
-            - localisation_ambiance
-            - classe_vitesse_courant_ambiance
-            - code_ombrage_ambiance
-            - libelle_ombrage_ambiance
-            - code_granulo_ambiance_dominant
-            - libelle_granulo_ambiance_dominant
-            - code_granulo_ambiance_accessoire
-            - libelle_granulo_ambiance_accessoire
-            - vegetation_ambiance
-            - abondance_cache_vegetation_aquatique_ambiance
-            - abondance_cache_embacles_ambiance
-            - abondance_cache_vegetation_bordure_ambiance
-            - abondance_cache_sous_berge_ambiance
-            - abondance_cache_granulo_ambiance
-            - observation_ambiance
-            - code_lot
-            - code_type_lot
-            - libelle_type_lot
-            - effectif_lot
-            - code_taxon
-            - code_alternatif_taxon
-            - nom_commun_taxon
-            - nom_latin_taxon
-            - uri_taxon
-            - taille_min_lot
-            - taille_max_lot
-            - type_longueur_lot
-            - poids_lot_mesure
-            - poids_lot_estime
-            - methode_estimation_poids_lot
-            - code_individu
-            - taille_individu
-            - type_longueur_individu
-            - mesure_individu_reelle
-            - poids_individu_mesure
-            - poids_individu_estime
-            - methode_estimation_poids_individu
-            - sexe_individu
-            - age_individu
-            - codes_pathologies_lot
-            - libelles_pathologies_lot
-            - codes_fractions_pathologies_lot
-            - libelles_fractions_pathologies_lot
-            - uris_fractions_pathologies_lot
-            - importances_pathologies_lot
-            - codes_pathologies_individu
-            - libelles_pathologies_individu
-            - codes_fractions_pathologies_individu
-            - libelles_fractions_pathologies_individu
-            - uris_fractions_pathologies_individu
-            - importances_pathologies_individu
-            - fields
     ecoulement:
       path: vbeta/ecoulement
-      endpoints:
-        stations:
-          path: stations
-          fields:
-            - code_station
-            - libelle_station
-            - uri_station
-            - code_departement
-            - libelle_departement
-            - code_commune
-            - libelle_commune
-            - code_region
-            - libelle_region
-            - code_bassin
-            - libelle_bassin
-            - coordonnee_x_station
-            - coordonnee_y_station
-            - code_projection_station
-            - libelle_projection_station
-            - code_epsg_station
-            - code_cours_eau
-            - libelle_cours_eau
-            - uri_cours_eau
-            - etat_station
-            - date_maj_station
-            - latitude
-            - longitude
-            - distance
-            - bbox
-            - fields
-        observations:
-          path: observations
-          fields:
-            - format
-            - code_station
-            - libelle_station
-            - code_departement
-            - libelle_departement
-            - code_commune
-            - libelle_commune
-            - code_region
-            - libelle_region
-            - code_bassin
-            - libelle_bassin
-            - code_cours_eau
-            - libelle_cours_eau
-            - code_campagne
-            - code_reseau
-            - libelle_reseau
-            - date_observation_min
-            - date_observation_max
-            - code_ecoulement
-            - libelle_ecoulement
-            - longitude
-            - latitude
-            - distance
-            - bbox
-            - page
-            - size
-            - fields
-            - accept
-        campagnes:
-          path: campagnes
-          fields:
-            - code_campagne
-            - date_campagne_min
-            - date_campagne_max
-            - code_type_campagne
-            - libelle_type_campagne
-            - code_reseau
-            - libelle_reseau
-            - code_departement
-            - libelle_departement
-            - page
-            - size
-            - fields
-            - accept
     hydrobio:
       path: v1/hydrobio
-      endpoints:
-        stations:
-          path: stations_hydrobio
-          fields:
-            - bbox
-            - code_bassin
-            - code_commune
-            - code_cours_eau
-            - code_departement
-            - code_masse_eau
-            - code_region
-            - code_sous_bassin
-            - code_station_hydrobio
-            - codes_appel_taxons
-            - codes_indices
-            - codes_reseaux
-            - codes_supports
-            - date_service
-            - distance
-            - fields
-            - format
-            - latitude
-            - libelle_station_hydrobio
-            - longitude
-            - page
-            - size
-        indices:
-          path: indices
-          fields:
-            - bbox
-            - code_banque_reference
-            - code_bassin
-            - code_commune
-            - code_cours_eau
-            - code_departement
-            - code_indice
-            - code_masse_eau
-            - code_prelevement
-            - code_qualification
-            - code_region
-            - code_sous_bassin
-            - code_station_hydrobio
-            - code_support
-            - date_debut_prelevement
-            - date_fin_prelevement
-            - distance
-            - fields
-            - format
-            - latitude
-            - libelle_indice
-            - longitude
-            - page
-            - resultat_indice_max
-            - resultat_indice_min
-            - size
-        taxons:
-          path: taxons
-          fields:
-            - bbox
-            - code_appel_taxon
-            - code_banque_reference
-            - code_bassin
-            - code_commune
-            - code_cours_eau
-            - code_departement
-            - code_indice
-            - code_masse_eau
-            - code_prelevement
-            - code_qualification
-            - code_region
-            - code_sous_bassin
-            - code_station_hydrobio
-            - code_support
-            - code_type_resultat
-            - codes_indices_operation
-            - date_debut_prelevement
-            - date_fin_prelevement
-            - distance
-            - fields
-            - format
-            - latitude
-            - longitude
-            - page
-            - size
     temperature:
       path: v1/temperature
-      endpoints:
-        station:
-          path: station
-          fields:
-            - bbox
-            - code_banque_reference
-            - code_bassin
-            - code_commune
-            - code_cours_eau
-            - code_departement
-            - code_eu_masse_eau
-            - code_masse_eau
-            - code_region
-            - code_sous_bassin
-            - code_station
-            - code_troncon_hydro
-            - date_debut_maj
-            - date_debut_mesure
-            - date_fin_maj
-            - date_fin_mesure
-            - distance
-            - exact_count
-            - fields
-            - latitude
-            - libelle_bassin
-            - libelle_commune
-            - libelle_cours_eau
-            - libelle_departement
-            - libelle_masse_eau
-            - libelle_region
-            - libelle_sous_bassin
-            - libelle_station
-            - longitude
-            - size
-            - type_entite_hydro
-        chronique:
-          path: chronique
-          fields:
-            - bbox
-            - code_banque_reference
-            - code_bassin
-            - code_commune
-            - code_cours_eau
-            - code_departement
-            - code_eu_masse_eau
-            - code_masse_eau
-            - code_qualification
-            - code_region
-            - code_sous_bassin
-            - code_station
-            - code_statut
-            - code_troncon_hydro
-            - date_debut_maj
-            - date_debut_mesure
-            - date_fin_maj
-            - date_fin_mesure
-            - distance
-            - fields
-            - format
-            - latitude
-            - libelle_bassin
-            - libelle_commune
-            - libelle_cours_eau
-            - libelle_departement
-            - libelle_masse_eau
-            - libelle_qualification
-            - libelle_region
-            - libelle_sous_bassin
-            - libelle_station
-            - libelle_statut
-            - longitude
-            - resultat_max
-            - resultat_min
-            - size
-            - type_entite_hydro
diff --git a/data-raw/configuration.R b/data-raw/configuration.R
index d6e873f..422887a 100644
--- a/data-raw/configuration.R
+++ b/data-raw/configuration.R
@@ -1,6 +1,46 @@
 ## code to prepare `.cfg` dataset
 
 update.packages("config")
+library(httr)
+
 .cfg <- config::get(file = "data-raw/config.yml")
 
+defineApis <- function(api, cfg) {
+  message("Processing API: ", api$path)
+  query <- file.path(cfg$api_url, api$path, cfg$api_docs)
+  d <- content(GET(query), as = "parsed")
+  sapply(c("swagger", "openapi"), function(fmt) {
+    if (!is.null(d[[fmt]])) {
+      message(fmt, " ", d[[fmt]])
+    }
+  })
+  path_endpoints <- names(d$paths)
+  path_endpoints <- path_endpoints[!grepl(".csv", path_endpoints, fixed = TRUE)]
+  endpoints <- basename(path_endpoints)
+  fields <- lapply(path_endpoints, function(ep) {
+    if(!is.null(d$paths[[ep]]$get$parameters)) {
+      sapply(d$paths[[ep]]$get$parameters, "[[", "name")
+    }
+  })
+  l <- lapply(seq_along(endpoints), function(i) {
+    path <- gsub(api$path, "", path_endpoints[i])
+    path <- gsub("^/+", "", path)
+    list(path = path,
+         fields = fields[[i]])
+  })
+  names(l) <- endpoints
+  return(list(path = api$path, endpoints = l))
+}
+
+.cfg$apis <- lapply(.cfg$apis, defineApis, cfg = .cfg)
+
+# Fix issue https://github.com/BRGM/hubeau/issues/127
+ecoulement_ep <- names(.cfg$apis$ecoulement$endpoints)
+for (ep in ecoulement_ep) {
+  which_fields <- which(grepl("fields", .cfg$apis$ecoulement$endpoints[[ep]]$fields))
+  .cfg$apis$ecoulement$endpoints[[ep]]$fields[which_fields] <- "fields"
+}
+
+
+
 usethis::use_data(.cfg, overwrite = TRUE, internal = TRUE)