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<?php
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// declare(encoding='UTF-8');// ou ISO-8859-15
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/**
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* Description :
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* Classe Taxons.php permettant de fournir des informations sur les noms scientifiques retenu.
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* Si l'url finit par /taxons on retourne une liste de noms latin et leurs identifiants (seulement les 100 premeiers noms par défaut).
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* L'url peut contenir des paramètres optionnels passés après le ? : /taxons?param1=val1¶m2=val2&...
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*
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* Les paramètres de requête disponibles sont : masque, recherche, rang, distinct, retour.format, nl.format,
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* nl.structure, navigation.depart et navigation.limite.
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*
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* Encodage en entrée : utf8
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* Encodage en sortie : utf8
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* @package framework-v3
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* @author Jennifer Dhé <jennifer.dhe@tela-botanica.org>
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* @license GPL v3 <http://www.gnu.org/licenses/gpl.txt>
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* @license CECILL v2 <http://www.cecill.info/licences/Licence_CeCILL_V2-en.txt>
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* @version 1.0
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* @copyright 1999-${year} Tela Botanica (accueil@tela-botanica.org)
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*/
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class Taxons extends CommunNomsTaxons {
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/** Permet de stocker la requete formulée taxons | taxons/#id | taxons/#id/#champ+#champ ...*/
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protected $format_reponse = 'taxons';
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protected $service = 'taxons';
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protected $requete_champ = 'num_nom, nom_sci, num_nom_retenu, num_taxonomique ';
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protected $requete_condition = null;
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protected $requete_group_by = ' ';
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/** Permet de stocker les limite de la requete SQL (par défaut seul les 100 premiers résultats seront retournés).*/
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protected $limite_requete = array('depart' => 0, 'limite' => 100);
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protected $num_nom_taxon; //Stocke le num_nom du nom retenu du num_nom recherché
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protected $presence_num_tax = true;
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public function consulter($ressources, $parametres) {
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return parent::consulter($ressources, $parametres);
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}
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public function traiterParametresSpecifiques() {
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$this->requete_condition[] = 'num_nom = num_nom_retenu';
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foreach ($this->parametres as $param => $val) {
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switch ($param) {
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case 'masque' :
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$this->ajouterFiltreMasque('nom_sci', $val);
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break;
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case 'masque.nt' :
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$this->requete_condition[] = "num_taxonomique IN ($val)";
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$this->masque[] = "num_tax=$val";
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break;
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case 'masque.rg':
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$this->requete_condition[] = 'rang = '.$this->getBdd()->proteger($val);
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$this->masque[] = "rang=$val";
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break;
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}
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}
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}
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//------------------------------------------Fonction ressources---------------------------------------------------------------------
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public function gererNumTax() {
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if (!in_array('num_taxonomique', $this->champs_table)) {
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$this->presence_num_tax = false;
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$this->requete_champ = str_replace(', num_taxonomique ', '', $this->requete_champ);
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} else {
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$this->presence_num_tax = true;
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}
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}
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public function traiterRessourcesIdentifiant() {
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$this->format_reponse = 'taxons/id';
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$this->traiterRessourceNtId();
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$this->num_nom_taxon = $this->recupererNumNomTaxon(); //on recupere le taxon correspondant au num_nom recherché
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if ($this->entete_http == '') {
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$this->requete_condition[0] = 'num_nom = '.$this->getBdd()->proteger($this->num_nom_taxon);
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if (isset($this->ressources[1]) && !empty($this->ressources[1])) {
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//---------------- requete de type taxons/#id/#champ+#champ--------------------------------------
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if ($this->ressources[1] != 'relations') { // SELECT *, nom_sci FROM bftfx_v2_00 WHERE num_nom = X;
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$this->requete_champ = ' *, nom_sci ';
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$this->format_reponse .= '/champ';
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//---------------- requete de type taxons/#id/relations/#relation--------------------------------
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} elseif ($this->ressources[1] == 'relations') {
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$this->traiterRessourceIdRelations();
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} else {
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$e = 'Erreur dans votre requête </br> Ressources disponibles : <br/>
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<li> #id/relations </li> <li> #id/#champ+#champ </li> <li> #id/relations </li>
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<li> #id/relations/inferieurs </li> <li> #id/relations/superieurs </li>';
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$this->renvoyerErreur(RestServeur::HTTP_CODE_MAUVAISE_REQUETE, $e);
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}
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} else { //--------------- requete de type taxons/#id-----------------------------------------------------
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$this->requete_champ = ' *, nom_sci ';
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}
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}
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}
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public function traiterRessourceNtId() {
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if (strrpos($this->ressources[0], 'nt:') !== false) {
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if ($this->presence_num_tax) {
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// SELECT num_nom FROM bdtfx_v2_00 WHERE num_nom = num_nom_retenu AND num_taxonomique = X;
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$this->requete_condition[0] = 'num_nom = num_nom_retenu AND num_taxonomique = '
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.str_replace('nt:', '', $this->ressources[0]).' ';
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} else {
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$e = 'Erreur dans votre requête : </br> Le numéro taxonomique n\'existe pas dans ce projet';
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$this->renvoyerErreur(RestServeur::HTTP_CODE_MAUVAISE_REQUETE, $e);
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}
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} else {
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// SELECT num_nom FROM bdtfx_v2_00 WHERE num_nom = (SELECT num_nom_retenu FROM bdtfx_v2_00 WHERE num_nom = X);
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$this->requete_condition[0] = 'num_nom = (SELECT num_nom_retenu FROM '
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.$this->table.' WHERE num_nom = '.$this->ressources[0].')';
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}
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}
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/** Permet de récupérer le num_nom du taxon recherché. Soit le numéro taxonomique est demandé (avec nt: )
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* soit un num_nom dont on recherche le num_nom_retenu */
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public function recupererNumNomTaxon() {
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$identifiant = '';
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if ($this->entete_http == '') {
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//on récupere l'identifiant du taxon correspondant au num_nom ou num_taxonomique demandé pour pouvoir l'afficher
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$req_tax = 'SELECT num_nom FROM '.$this->table.' WHERE '.$this->requete_condition[0];
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$res_tax = $this->getBdd()->recuperer($req_tax);
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//on recherche ensuite les identifiants des taxons supérieurs ou inférieurs
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if ($res_tax && $res_tax != '') {
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$identifiant = $res_tax['num_nom'];
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} else {
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$e = 'Le numéro de taxon ou l\'identifiant de nom correspondant au num_nom '
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.$this->ressources[0].' n\'existe pas dans la base.';
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$this->renvoyerErreur(RestServeur::HTTP_CODE_RESSOURCE_INTROUVABLE, $e);
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Debug::printr($req_tax);
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}
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}
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return $identifiant;
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}
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public function traiterRessourceIdRelations() {
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//----------------- requete de type taxons/#id/relations-------------------------------------------
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// SELECT *, nom_sci FROM bftfx_v2_00 WHERE num_nom = X;
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$this->format_reponse .= '/relations';
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if (isset($this->ressources[2]) && !empty($this->ressources[2])) {
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//------------- requete de type taxons/#id/relations/#relation--------------------------------
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switch ($this->ressources[2]) {
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case 'superieurs' :
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$rel = 'recupererIdSup';
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$this->format_reponse .= '/superieurs';
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$this->traiterRessourceIdRelationInfSup($rel);
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break;
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case 'inferieurs' :
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$rel = 'recupererIdInf';
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$this->format_reponse .= '/inferieurs';
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$this->traiterRessourceIdRelationInfSup($rel);
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break;
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default :
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$e = 'Erreur dans votre requête </br> Ressources disponibles : <br/>
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<li> taxons/#id/relations </li><li> #id/relations/inferieurs </li>
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<li> #id/relations/superieurs </li>';
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$this->renvoyerErreur(RestServeur::HTTP_CODE_MAUVAISE_REQUETE, $e);
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break;
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}
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}
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}
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public function traiterRessourceIdRelationInfSup($rel) {
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//Appel de la fct récupérerIdSup ou recupererIdInf : retourne les num_nom des noms inferieurs ou superieurs
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$res_relation = $this->$rel();
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//analyse du résultat retourné par la requete de recherche des identifiants correspondant aux taxons inf|sup :
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if ($res_relation == '') { //dans le cas ou la requete comporte des erreurs
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$e = 'Fct traiterRessourceIdHomonymie : La requête forme comporte une erreur!';
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$this->renvoyerErreur(RestServeur::HTTP_CODE_RESSOURCE_INTROUVABLE, $e);
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} elseif ($res_relation) {
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//dans le cas ou une ou plusieurs relations est retournée, on récupère les identifiants ss la forme (id, id, id)
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foreach ($res_relation as $ligne) $res[] = $ligne['num_nom'];
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$res = implode(',',$res);
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$this->requete_condition[0] = "num_nom IN ($res)";
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$this->requete_champ .= ', rang, num_tax_sup ';
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} else { //dans le cas ou aucune relation n'existe
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$res = array($this->num_nom_taxon => null);
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$this->corps_http = json_encode($res);
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$this->entete_http = RestServeur::HTTP_CODE_OK;
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}
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}
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public function recupererIdInf() {
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//SELECT num_nom FROM bfdtx_v2_00 WHERE num_tax_sup = (SELECT num_nom FROM bdtfx_v2_00 WHERE num_nom = X);
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$req_relation = 'SELECT num_nom FROM '.$this->table
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.' WHERE num_tax_sup = (SELECT num_nom FROM '
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.$this->table
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.' WHERE '.implode(' AND ', $this->requete_condition).')';
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$res_relation = $this->getBdd()->recupererTous($req_relation);
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return $res_relation;
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}
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public function recupererIdSup() {
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//SELECT num_nom FROM bfdtx_v2_00 WHERE num_nom = (SELECT num_tax_sup FROM bdtfx_v2_00 WHERE num_nom = X);
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$req_relation = 'SELECT num_nom FROM '.$this->table
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.' WHERE num_nom = (SELECT num_tax_sup FROM '
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.$this->table
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.' WHERE '.implode(' AND ', $this->requete_condition).')';
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$res_relation = $this->getBdd()->recupererTous($req_relation);
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return $res_relation;
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}
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public function traiterRessourceStatsInitiales() {
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// SELECT count(nom_sci) as nb, rang, left(nom_sci, 2) as lettre FROM bdtfx_v2_00 GROUP BY rang, left(nom_sci, 2);
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$this->format_reponse = 'taxons/stats/initiales';
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$this->requete_champ = 'count(nom_sci) as nb, rang, left(nom_sci, 2) as lettre ';
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$this->requete_group_by = ' GROUP BY rang, left(nom_sci, 2) ';
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}
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public function traiterRessourceStatsRangs() {
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// SELECT count(*) as nombre, rang FROM bdtfx_v2_00 [WHERE rang = 290] GROUP BY rang ORDER BY rang;
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$this->format_reponse = 'taxons/stats/rangs';
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$this->requete_champ = 'count(*) as nombre, rang ';
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$this->requete_group_by = ' GROUP BY rang ORDER BY rang ';
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}
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public function traiterRessourceStatsAnnees() {
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// SELECT count(*) as nombre, annee FROM bdtfx_v2_00 GROUP BY annee ORDER BY annee;
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$this->format_reponse = 'taxons/stats/annees';
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$this->requete_champ = 'count(*) as nombre, annee ';
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$this->requete_group_by = ' GROUP BY annee ORDER BY annee ';
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}
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//-----------------------------FONCTIONS DASSEMBLAGE DE LA REQUETE-----------------------------------------------------
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public function assemblerLaRequete() {
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if ($this->format_reponse != 'taxons/stats/initiales') {
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$this->mettreAuFormat(); //on remplace les nom_sci par les nom_sci_html
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}
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$requete = ' SELECT '.$this->requete_champ.
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' FROM '.$this->table
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.$this->retournerRequeteCondition()
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.$this->requete_group_by
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.$this->formerRequeteLimite();
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return $requete;
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}
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public function formerRequeteLimite() {
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if ($this->format_reponse != 'taxons' && $this->format_reponse != 'taxons/id/relations/homonymie') {
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$this->requete_limite = '';
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} elseif (($depart = $this->limite_requete['depart']) > ($this->total_resultat = $this->recupererTotalResultat())) {
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$this->limite_requete['depart'] = (($this->total_resultat - $this->limite_requete['limite']) < 0) ? 0 : ($this->total_resultat - $this->limite_requete['limite']);
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$this->requete_limite = ' LIMIT '.$this->limite_requete['depart'].', '.$this->limite_requete['limite'];
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} else {
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$this->requete_limite = ' LIMIT '.$this->limite_requete['depart'].', '.$this->limite_requete['limite'];
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}
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return $this->requete_limite;
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}
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public function retournerRequeteCondition() {
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$condition = '';
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if ($this->requete_condition) {
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$condition = ' WHERE '.implode(' AND ', $this->requete_condition);
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}
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return $condition;
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}
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public function recupererTotalResultat() {
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$requete = 'SELECT count(*) as nombre FROM '.$this->table.$this->retournerRequeteCondition().$this->requete_group_by;
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$res = $this->getBdd()->recuperer($requete);
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if ($res) {
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$total = $res['nombre'];
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}
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return $total;
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}
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//-------------------------FONCTIONS DE FORMATION DU RESULTAT-----------------------------------------------------------
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/** Permet de récupérer le résultat à retourner propre à chaque requete et de l'encoder en json*/
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public function retournerResultatFormate($resultat, $version) {
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switch ($this->format_reponse) {
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case 'taxons/id' ://ds CommunNomsTaxons
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$reponse = $this->formaterId($resultat[0]);
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break;
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case 'taxons/id/champ' ://ds CommunNomsTaxons
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$reponse = $this->formaterIdChamp($resultat[0]);
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break;
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case 'taxons/id/relations' :
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$reponse = $this->formaterIdRelations($resultat[0],$version);
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break;
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case 'taxons/id/relations/superieurs' :
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$reponse = $this->formaterIdSuperieur($resultat, $version);
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break;
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case 'taxons/id/relations/inferieurs' :
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$reponse = $this->formaterIdInferieur($resultat);
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break;
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292 |
case 'taxons/stats/annees' : //ds CommunNomsTaxons
|
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|
293 |
$reponse = $this->formaterStatsAnnee($resultat);
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|
|
294 |
break;
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|
295 |
case 'taxons/stats/rangs' ://ds CommunNomsTaxons
|
|
|
296 |
$reponse = $this->formaterStatsRang($resultat);
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|
|
297 |
break;
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|
298 |
case 'taxons/stats/initiales' ://ds CommunNomsTaxons
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|
|
299 |
$reponse = $this->formaterStatsInitiales($resultat);
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|
300 |
break;
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|
301 |
case 'taxons' :
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|
302 |
$reponse = $this->formatertaxons($resultat);
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|
303 |
break;
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|
304 |
}
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|
305 |
return $reponse;
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306 |
}
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307 |
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308 |
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309 |
//----------------------concerne les resultats pour des requetes de type /noms avec ou sans paramètres--------------
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|
310 |
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|
311 |
public function formaterTaxons($resultat) {
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|
312 |
if ($this->parametres['retour.format'] == 'oss') {
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|
313 |
$reponse = $this->formaterEnOss($resultat);
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|
314 |
} else {
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|
315 |
$reponse = $this->formaterEnJsonMax($resultat);
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|
316 |
}
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|
317 |
return $reponse;
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|
318 |
}
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|
319 |
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|
320 |
public function formaterEnJsonMax($resultat) {
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|
321 |
//print_r($resultat);
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322 |
$this->recupererTableSignification('correspondance_champs,champs_api,champs_comp');
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323 |
$masque = $this->recupererMasquePrincipal();
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|
324 |
if (isset($masque)) $resultat = $this->trierRechercheFloue($this->parametres[$masque[0]], $resultat, $masque[1]);
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|
325 |
if (isset($this->masque)) $this->table_retour['masque'] = implode('&', $this->masque);
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326 |
$this->afficherEnteteResultat('/'.$this->service);
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327 |
$table_retour_json['entete'] = $this->table_retour;
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|
328 |
$this->table_retour = array();
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|
329 |
//on remplit la table $table_retour_json['resultat']
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|
330 |
$tab_tax_inf = $this->recupererListeTaxonInf($resultat);
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|
331 |
foreach ($resultat as $tab) {
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|
332 |
$num = $tab['num_nom'];
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333 |
if (isset($this->parametres['masque_nt'])) $this->afficherDonnees('num_taxonomique', $tab['num_taxonomique']);
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|
334 |
$this->afficherNomHrefRetenu($tab, $num);
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|
335 |
$this->afficherTaxonInfNb($num, $tab_tax_inf);
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|
|
336 |
$resultat_json[$num] = $this->table_retour;
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|
|
337 |
$this->table_retour = array(); //on vide le tableau table_retour
|
|
|
338 |
}
|
|
|
339 |
$table_retour_json['resultat'] = $resultat_json;
|
|
|
340 |
return $table_retour_json;
|
|
|
341 |
}
|
|
|
342 |
|
|
|
343 |
|
|
|
344 |
//--------------------concerne les resultats pour des requetes de type noms/id----------------------------------------
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|
|
345 |
|
|
|
346 |
public function formaterIdRelations($resultat, $version) {
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|
347 |
$this->recupererTableSignification('correspondance_champs,champs_api,champs_comp');
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|
348 |
$this->resultat_req = $resultat;
|
|
|
349 |
$retour_id_rel = array ('entete' => array()); //on initialise pr que l'entete apparaisse en premier
|
|
|
350 |
|
|
|
351 |
$superieurs = $this->ajouterRelations('superieurs'); //, $version);
|
|
|
352 |
if (isset($superieurs)) $retour_id_rel['resultat']['superieurs'] = $superieurs;
|
|
|
353 |
$inferieurs = $this->ajouterRelations('inferieurs', $version);
|
|
|
354 |
if (isset($inferieurs)) $retour_id_rel['resultat']['inferieurs'] = $inferieurs;
|
|
|
355 |
|
|
|
356 |
if (!isset($retour_id_rel['resultat'])) { //on renvoit un tableau null si il n'existe aucune relations
|
|
|
357 |
$retour_id_rel = 'null';
|
|
|
358 |
} else { //on rajoute l'entete si des relations existent
|
|
|
359 |
$this->afficherDonnees('num_nom', $this->num_nom_taxon); //$this->afficherEnteteResultat($resultat, '/'.$this->service.'/'.$this->ressources[0].'/relations/synonymie');
|
|
|
360 |
$retour_id_rel['entete'] = $this->table_retour;
|
|
|
361 |
$this->table_retour = array();
|
|
|
362 |
}
|
|
|
363 |
return $retour_id_rel;
|
|
|
364 |
}
|
|
|
365 |
|
|
|
366 |
public function ajouterRelations($relation, $version) {
|
|
|
367 |
$version = str_replace(Config::get('bdd_table').'_', '', $version);
|
|
|
368 |
$res = null;
|
|
|
369 |
$taxon = $this->num_nom_taxon;
|
|
|
370 |
$parametres_url = '';
|
|
|
371 |
if ($this->parametres != array()) $parametres_url = '?'.http_build_query($this->parametres, '', '&');
|
|
|
372 |
$url = Config::get('url_service').'/'
|
|
|
373 |
.$this->service.'/'.$version.'/'
|
|
|
374 |
.$this->ressources[0].'/relations/'
|
|
|
375 |
.$relation.$parametres_url;
|
|
|
376 |
$relation = $this->consulterHref($url);
|
|
|
377 |
if (isset($relation->resultat)) {
|
|
|
378 |
$res = $relation->resultat;
|
|
|
379 |
} elseif (isset($relation->$taxon)) { //pour les relations inf et sup
|
|
|
380 |
$res = $relation->$taxon;
|
|
|
381 |
}
|
|
|
382 |
return $res;
|
|
|
383 |
}
|
|
|
384 |
|
|
|
385 |
public function formaterIdSuperieur($resultat, $version) {
|
|
|
386 |
$this->recupererTableSignification('correspondance_champs,champs_api,champs_comp');
|
|
|
387 |
$tab_relation = null; //si il n'existe aucune relation
|
|
|
388 |
if (($resultat) != '' ) {
|
|
|
389 |
//on recupere d'abord les rangs supérieurs
|
|
|
390 |
$sup = $resultat[0];
|
|
|
391 |
do {
|
|
|
392 |
$sup = $this->recupererIdSuperieur($sup['num_tax_sup'], $version);
|
|
|
393 |
if ($sup['rang'] == '0') $sup['rang'] = '10'; //erreur dans la base
|
|
|
394 |
if (isset($sup)) $resultat[] = $sup;
|
|
|
395 |
} while ($sup != null);
|
|
|
396 |
krsort($resultat);
|
|
|
397 |
//on les affiche ensuite
|
|
|
398 |
foreach ($resultat as $tab) {
|
|
|
399 |
$this->resultat_req = $tab;
|
|
|
400 |
$num = $tab['num_nom'];
|
|
|
401 |
$this->afficherNomHrefRetenu($tab, $num);
|
|
|
402 |
$this->afficherDonnees('rang', $tab['rang']);
|
|
|
403 |
$tab_inf[$num] = $this->table_retour;
|
|
|
404 |
$this->table_retour = array();
|
|
|
405 |
}
|
|
|
406 |
$tab_relation[$this->num_nom_taxon] = $tab_inf;
|
|
|
407 |
}
|
|
|
408 |
return $tab_relation;
|
|
|
409 |
}
|
|
|
410 |
|
|
|
411 |
|
|
|
412 |
public function recupererIdSuperieur($id, $version) {
|
|
|
413 |
$req = 'SELECT num_nom, num_nom_retenu, num_tax_sup, rang FROM '
|
|
|
414 |
.$version.' WHERE num_nom = '.$this->getBdd()->proteger($id);
|
|
|
415 |
$res = $this->getBdd()->recupererTous($req);
|
|
|
416 |
if ($res) {
|
|
|
417 |
$resultat = $res[0];
|
|
|
418 |
} else {
|
|
|
419 |
$resultat = 'null'; //on return null si il n'y a pas de taxon superieur
|
|
|
420 |
}
|
|
|
421 |
return $resultat;
|
|
|
422 |
}
|
|
|
423 |
|
|
|
424 |
public function formaterIdInferieur($resultat) {
|
|
|
425 |
$this->recupererTableSignification('champs_api,champs_comp,correspondance_champs');
|
|
|
426 |
$tab_tax_inf = $this->recupererListeTaxonInf($resultat);
|
|
|
427 |
$tab_relation = null;
|
|
|
428 |
//on commence le formatage
|
|
|
429 |
if (($resultat) != '' ) {
|
|
|
430 |
foreach ($resultat as $tab) {
|
|
|
431 |
$this->resultat_req = $tab;
|
|
|
432 |
$this->afficherNomHrefRetenu($tab, $num_nom);
|
|
|
433 |
$tab_inf[$num] = $this->table_retour;
|
|
|
434 |
$this->table_retour = array(); //on vide le tableau table_retour
|
|
|
435 |
}
|
|
|
436 |
$tab_relation[$this->num_nom_taxon] = $tab_inf;
|
|
|
437 |
}
|
|
|
438 |
return $tab_relation;
|
|
|
439 |
}
|
|
|
440 |
|
|
|
441 |
public function afficherTaxonInfNb($num, $tab_tax_inf) {
|
|
|
442 |
foreach ($tab_tax_inf as $taxNb) {
|
|
|
443 |
if ($taxNb['num_tax_sup'] == $num) {
|
|
|
444 |
$this->table_retour['taxon_inferieur_nbre'] = $taxNb['nb'];
|
|
|
445 |
}
|
|
|
446 |
}
|
|
|
447 |
if (!isset($this->table_retour['taxon_inferieur_nbre'])) {
|
|
|
448 |
$this->table_retour['taxon_inferieur_nbre'] = '0';
|
|
|
449 |
}
|
|
|
450 |
}
|
|
|
451 |
|
|
|
452 |
public function recupererListeTaxonInf($resultat) {
|
|
|
453 |
// SELECT num_tax_sup, count(*) as nb FROM bdtfx_v2_00 WHERE num_tax_sup IN (id, id, id) AND num_nom = num_nom_retenu GROUP BY num_tax_sup';
|
|
|
454 |
foreach ($resultat as $tab) {
|
|
|
455 |
$tab_num[] = $tab['num_nom']; //on regroupe ici les id des taxons dont on cherche le nb de taxon inf
|
|
|
456 |
}
|
|
|
457 |
$req = 'SELECT num_tax_sup, count(*) as nb FROM '.$this->table
|
|
|
458 |
.' WHERE num_tax_sup IN ('.implode(',',$tab_num)
|
|
|
459 |
.') AND num_nom = num_nom_retenu GROUP BY num_tax_sup';
|
|
|
460 |
$res = $this->getBdd()->recupererTous($req);
|
|
|
461 |
if ($res) {
|
|
|
462 |
$resultat = $res;
|
|
|
463 |
} else {
|
|
|
464 |
$resultat = array(); //on return un tableau vide s'il n'y a pas de taxon inférieurs
|
|
|
465 |
}
|
|
|
466 |
return $resultat;
|
|
|
467 |
}
|
|
|
468 |
}
|
|
|
469 |
|
|
|
470 |
?>
|