I'm using Application Loader 3.1 and i've found that these messages happened because Apple was not accepting watchkit. Nowadays Apple already accepts them so i don't know why i'm getting theses errors. Some help?
Turns out Xcode 6.2 adds the *.app to your Bundle Resources. This causes the errors.
You should go to Project->Targets->App->Build Phases->Copy Bundle Resources and delete the *.app file.