[souffle]

I'd have the chest problem checked out pretty soon and hopefully get some antibiotics. We have had both Baytril and more recently Septrin for a hammy with a chest infection. The Septrin worked better and was taken more readily as it tastes nice I believe! I'm sure your vet will prescribe what he thinks best though.
I would show the vet the scent gland however it may be better to wait a bit to try and clear it until she is better with the chest thing as trying to do it just now will be stressful. It often needs quite a bit of squeezing unfortunately. It there is a bit if infection hopefully the antibiotics will help that too.