another reason to use shell_exec instead of system is when the result is multiple lines such as grep or ls 
<?php
// this correctly sets answer string to all lines found
//$answer = shell_exec ("grep 'set of color names' *.php ");
//echo "answer = $answer";
// this passes all lines to output (they show on page)
// and sets answer string to the final line
 $sys = system ("grep 'set of color names' *.php ");
 echo "sys =(($sys))";
?>

here is view/source resulting from system call
setprefs.php:// The standard set of color names is:
setprefs.php:// Most browsers accept a wider set of color names
silly.php: //$answer = shell_exec ("grep 'set of color names' *.php ");
silly.php: $sys = system ("grep 'set of color names' *.php ");
sys =((silly.php: $sys = system ("grep 'set of color names' *.php ");))
and here is view source from using shell_exec instead
answer = setprefs.php:// The standard set of color names is:
setprefs.php:// Most browsers accept a wider set of color names
silly.php: $answer = shell_exec ("grep 'set of color names' *.php ");
silly.php:// $sys = system ("grep 'set of color names' *.php ");