If she's locked off only in the kitchen and in the lounge then how did she poo in your bedroom???
And i'm sorry but of course she's not going to like being penned or caged especially if you let her out at the first instance that she puts up a fuss! But if you want to sort her out then you need to do it so she doesn't keep making herself sick over and over. Once they get cat flu they will continue to get it because you really can't vaccinate them for it. So this will be a regular occurrence for you once every year if not more. It's best if you get a routine down to get hold of the virus and get her better as quick as you can. It wouldn't be fair to leave her to be ill for weeks at a time like that when you could sort it shorter by just being a little more strict and not such a softy! But it's easily done! We're all guilty, but at the end of the day we do what we have to do when it's the best thing for our babies!