Bio Filter problems

I'm just trying to understand what's going on. I had what I thought was a
fungus problem (turned out to be the so called "Rainbowfish Lip Disease"
which I guess goes away on its own)...anyhoo...4 of 10 with the problem so I
treated the whole tank. My hospital tank isn't big enough for 4 rainbows.

I used a Jungle Labs "Fungus Clear Tank Buddies", which has BACTERIAL
TREATMENT TO PREVENT SECONDARY INFECTIONS. I just completely overlooked
that part. Well, it looks like my Biological Filter has taken a hit. My
theory is that I just damaged it rather than destroyed. I'm doing 10% daily
water changes (after a few big ones after the treatment). My amonia and
nitrates just aren't comming down though. Amonia keeps hanging in right
around 1 ppm and nitrites at about .25 ppm (both had been zero for quite a
while). I guess if I've still got nitrites, I must have bacteria taking
down the amonia...just not enough of them. So now what, do I just keep with
the water changes until they zero out again? I guess it's been about a week
now.

Regards!