inventarioSustancias/public_html/scripts/extract.php

<?php
/*  Authors         :   Carlos C. Corrada-Bravo
                        David J. Ortiz-Rivera

    Organization    :   Centro de Desarrollo y Consultoria Computacional
    Project         :   OPASO Material Registry   
    File            :   extract.php
    Description     :   Extract and insert data from tsv. */

	/* Import database connection & display errors */
	include_once "config.php";
	error_reporting(E_ALL);
	ini_set("display_errors",1);
	/* For each file: open and explode each row by tabs */
	foreach (glob("../ndata/*.txt") as $file){
		/* Initiate laboratory/personnel/register dictionaries. */ 
		$laboratory = array();
		$pi = array();
		$cho = array();
		$register = array();
		/* Initiate some values. */ 
		$success = 0;
		$null = "n/a";
		$row = 1;	/* Start at row 1. */	
		/* Parse tsv file */
		if(($fhandle = fopen($file,"r")) !== FALSE){
	  		while(($data = fgetcsv($fhandle,1000,"\t")) !== FALSE){
				/* Extract department and personnel in columns B(1) and I(8) */ 
				if($row > 6 and $row < 12){
					/* Avoid null keys. */
					if($data[0]){
						$laboratory[$data[0]] = $data[1];
					}
					if($row < 10){
						$pi[$data[7]] = $data[8];
					}
					else{
						$cho[$data[7]] = $data[8];
					}
				}
				/* Extract cho phone. */ 
				elseif($row == 12){
					$cho[$data[7]] = $data[8];
				}
				/* Insert laboratory/personnel info and generate register keys. */ 
				elseif($row == 14){
					for($index=0; $index < count($data); $index++){
						/* Initiate keys with null values. */
						if($data[$index]){
							$register[$data[$index]] = "";
						}
					}
					foreach($pi as $key=>&$value){
						if(!$value){
							$value = $null;
						}
					}
					foreach($cho as $key=>&$value){
						if(!$value){
							$value = $null;
						}
					}
					/* person entries. 
					   Bind and insert pi data. */
					$person = $db->stmt_init();
					if($person = $db->prepare("INSERT INTO Person(pname,email,password,phone,privileges) VALUES (?,?,?,?,?)")){
						$person->bind_param("sssss",$pi['pi'],$pi['piemail'],$null,$pi['piphone'],$null);
						if($person->execute()){
							$pi = $db->insert_id;	/* Extract generated pid. */
						}
						/* In case of duplicate entry. */ 
						else{
							$email = $pi['piemail'];
							/* Extract id by email. */
							if ($person = $db->prepare("SELECT pid FROM Person WHERE email=?")){
							    /* Bind selector and execute. */
							    $person->bind_param("s",$email);
							    if($person->execute()){
				    				/* Bind result variables and fetch. */
								    $person->bind_result($pi);
								    $person->fetch();
							    }
							}
						}
					}
					/* Bind and insert cho data. */
					$person = $db->stmt_init();
					if($person = $db->prepare("INSERT INTO Person(pname,email,password,phone,privileges) VALUES (?,?,?,?,?)")){
						$person->bind_param("sssss",$cho['cho'],$cho['choemail'],$null,$cho['chophone'],$null);
						if($person->execute()){
							$cho = $db->insert_id;	/* Extract generated pid. */
						}
						/* In case of duplicate entry. */ 
						else{
							$email = $cho['choemail'];
							/* Extract id by email. */
							if ($person = $db->prepare("SELECT pid FROM Person WHERE email=?")){
							    /* Bind selector and execute. */
							    $person->bind_param("s",$email);
							    if($person->execute()){
				    				/* Bind result variables and fetch. */
								    $person->bind_result($cho);
								    $person->fetch();
							    }
							}
						}
					}
					$person->close();
					/* lab entry
					   Bind and insert lab data. */ 
					$lab = $db->stmt_init();
					if($lab = $db->prepare("INSERT INTO Laboratory(lname,lab,department,building,extension,pi,cho) VALUES (?,?,?,?,?,?,?)")){
						$lab->bind_param("sssssii",$laboratory['lname'],$laboratory['lab'],$laboratory['department'],$laboratory['building'],$laboratory['extension'],$pi,$cho);
						$lab->execute();
						$lab->close();
						$lab = $db->insert_id;	/* Extract generated lid. */
					}
				}
				/* Extract register data by row. */ 
				elseif($row > 15){
					$d = 0;	/* Reset index. */
					foreach($register as $key=>&$value){
						/* Replace null entries with identifiable string. */ 
						if($data[$d]){
							$value = $data[$d];
						}
						else{
							$value = $null;
						}
						$d++;
						/* Avoid segmentation fault. */ 
						if($d >= count($register)){
							break;	
						}
					}
					/* inventory entries
					   Bind and insert inventory data. */ 
					$inventory = $db->stmt_init();
					if($register['chemical'] != "null entry"){
						if($inventory = $db->prepare("INSERT INTO Inventory(chemical,manufacturer,sds,cas,state,hazard,type,amount,quantity,total,location,ghs,lid) VALUES (?,?,?,?,?,?,?,?,?,?,?,?,?)")){
					 		$inventory->bind_param("ssssssssssssi",$register['chemical'],$register['manufacturer'],$register['sds'],$register['cas'],$register['state'],$register['hazard'],$register['type'],$register['amount'],$register['quantity'],$register['total'],$register['location'],$register['ghs'],$lab);
							/* Query failed, display error. */ 
							if(!($inventory->execute())){
								echo "Entry error:";
								echo "<br>";
					 			print_r($inventory);
					 			echo "<br>";
					 			print_r($register);
					 			echo "<br>";
								echo "PI id: " . $pi . "<br>";
								echo "CHO id: " . $cho . "<br>";
								echo "LAB id: " . $lab . "<br>";
							}
							/* Track number of successful entries. */ 
							else{
								$success++;
								$inventory->close();
							}
						}
					}
				}
		    	$row++;		/* Update row. */ 
		  	}
		  	/* Close all remaining connections/streams. */ 
		  	fclose($fhandle);
			echo "<br>FILE: " . $file . "<br>";
			echo "PI id: " . $pi . "<br>";
			echo "CHO id: " . $cho . "<br>";
			echo "LAB id: " . $lab . "<br>";
			echo $success . " successful entries." . "<br><br>";
		}
	}
	/* Close db connection. */ 
	$db->close();
?>