hi, i just started being sexually active, and had my first pap test done. 1st my doctor told me that i had bacterial vaginosis. i was perscribed medication but as soon as i started it i had my period and couldn't continue

anyhow, i just finished my period and i was wondering if i should start all over again? or just continue it... i would ask my doctor, but shes very hard to reach.
another question, her secretary just called me this morning telling me i should get a colposcopy done. I'm a little scared now.
also, is it safe to have intercourse in this situation? :$