Closed a R-IRA acct in 2018. Deposited the check (payable to Vanguard) into a T-IRA by error. What's the best way to move money to Roth IRA from T-IRA to reduce tax?

Bank issued a 1099-R so we reported on 2018's tax return as a roll over within 60 days. Vanguard will not issue a 5498 because they think it's a direct transfer(we did not receive the money).  Bank is willing to changing the code as a direct rollover.  We don't want to do a Roth conversion because it was Roth money before.  What can Vanguard to to avoid complicated reporting and unnecessary tax? Any reporting to the the IRS? Thank you.