As you can read in the documentation for fgetcsv()
:
A blank line in a CSV file will be returned as an array comprising a single null field, and will not be treated as an error.
Checking for that before adding it to your data array should be sufficient:
while (($result = fgetcsv($in)) !== false) {
if (array(null) !== $result) { // ignore blank lines
$csv[] = $result;
}
}