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$DELETE = "3";
$data = file("file.csv");
$out = array();

foreach($data as $line) {
     if(trim($line) != $DELETE) {
         $out[] = $line;
     }
 }

 $fp = fopen("file.csv", "w+");
 flock($fp, LOCK_EX);
 foreach($out as $line) {
     fwrite($fp, $line);
 }
 flock($fp, LOCK_UN);
 fclose($fp);  

$delete = '3';
$file = fopen('file.csv', 'r');
while (($line = fgetcsv($file)) !== FALSE) {
	$line = implode(',',$line);
	if (strpos($line, $delete) === false) {
		echo $line,'<br />';
	}
}
fclose($file);

$delete = '3';
$data = array();
$file = fopen('file.csv', 'r');
while (($line = fgetcsv($file)) !== FALSE) {
	$line = implode(',',$line);
	if (strpos($line, $delete) === false) {
		echo $line,'<br />';
		$data[] = $line;
	}
}
fclose($file);

$file_create = fopen("new_file.csv","w");
foreach ($data as $n) {
  fputcsv($file_create, explode(',',$n));
}
fclose($file_create);

<?php
$delete='3';
$name='file.csv';
$file=file($name);
$objFopen=fopen($name,'w');
for($i=0;$i<count($file);$i++){
  if(!strstr(trim($file[$i]),$delete)){
    $strText=trim($file[$i])."\r\n";
    fwrite($objFopen,$strText);
  }
}
fclose($objFopen);
?>