The command will rerun and check all chunks of your problem set and grade it, i.e. it determines which tests are passed or not. The results are stored in a submission file: psname___username.sub, which will be part of the submitted solution. The function works similarly than check.problem.set, but makes sure that all exercies are checked.
make.submission( ps = get.ps(), user.name = get.user.name(), ps.name = ps$name, stud.path = ps$stud.path, stud.short.file = ps$stud.short.file, add.log = TRUE, reset = TRUE, set.warning.1 = TRUE, verbose = FALSE, catch.errors = TRUE, from.knitr = !interactive(), use.null.device = TRUE, ups.dir = ps$ups.dir )