I am writing a PHP function which store/updates large sets of data into a table and that may cause a deadlock. I tried investigating how to retry a failed transaction with Doctrine but sadly could not find any info online. I eventually wrote the following code
 $retry = 0;
 $done = false;
 while (!$done and $retry < 3) {
     try {
         $this->entityManager->flush();
         $done = true;
     } catch (\Exception $e) {
         sleep(1);
         $retry++;
     }
 }
 if ($retry == 3) {
     throw new Exception(
         "[Exception: MySQL Deadlock] Too many people accessing the server at the same time. Try again in few minutes"
     );
 }
My question: is there a chance this approach will insert duplicates in the database? if so, how can I force Doctrine to roll back the transactions?
A deadlock returns error 1213 which you should process on the client side
Note that a deadlock and lock wait are different things. In a deadlock, there is no "failed" transaction: they are both guilty. There is no guarantee which one will be rolled back.
You must use rollback, your style code will insert duplicate. for example you should :
$retry = 0;
$done = false;
$this->entityManager->getConnection()->beginTransaction(); // suspend auto-commit
while (!$done and $retry < 3) {
    try {
        $this->entityManager->flush();
        $this->entityManager->getConnection()->commit(); // commit if succesfull
        $done = true;
    } catch (\Exception $e) {
        $this->entityManager->getConnection()->rollback(); // transaction marked for rollback only
        $retry++;
    }
}
Hope this help.
This is how I am dealing with retrying failed transactions with Sf2.7 and doctrine 2.4.7:
use Doctrine\Bundle\DoctrineBundle\Registry;
use Doctrine\ORM\EntityManager;
class Foo
{
    /**
     * @var Registry
     */
    protected $doctrine;
    public function __construct(Registry $registry)
    {
        $this->doctrine = $registry;
    }
    protected function doSomething($entity, $attempt)
    {
        $em = $this->getEntityManager();
        $conn = $em->getConnection();
        try{
            $conn->beginTransaction();
            $entity->setBar("baz");
            $em->flush();
            $conn->commit();
        } catch(\PDOException $e){
            $conn->rollBack();
            $attempt++;
            if($attempt <= 3){
                $this->doSomething($repayment, $attempt);
            }
        }
    }
    /**
     * @return EntityManager
     */
    protected function getEntityManager()
    {
        /** @var EntityManager $em */
        $em = $this->doctrine->getManager();
        if(!$em->isOpen()){
            $this->doctrine->resetManager();
            $em = $this->doctrine->getManager();
        }
        return $em;
    }
}
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