blah.sql

BEGIN TRANSACTION;
CREATE TABLE `Users` (
        `id` INTEGER,
        `name` TEXT
       );
INSERT INTO `Users` VALUES (1,'foo');
INSERT INTO `Users` VALUES (2,'bar');
COMMIT;

runme.php

<?php
    $config = new \Doctrine\DBAL\Configuration();
    $connectionParams = array(
      'url' => 'sqlite:///:memory:',
    );

    $this->conn = \Doctrine\DBAL\DriverManager::getConnection($connectionParams, $config);

    $sql = file_get_contents('blah.sql');

    $this->conn->exec($sql);