Help → Lots of msg files

Lots of msg files

My popfile install saved a load of msg files in a 00 directory. My hoster complains, that it contains viruses, which might be true. Popfile seems to have sorted them out somehow. Yet, I will have to get rid of them somehow. What would happen if I deleted all those files (all of them not only the "infected" ones)? Will this dumb popfile down? Is there a way to avoid these files to be saved in the first place?