The comparison is between two things, the police forcing you to give them access your phone for no explicit reason, or the police forcing you to allow them to physically and invasively search your whole body for no explicit reason. You are conflating that comparison with a bunch of other things happening external to the specific actions the police are allowed to do.
The reasons why both are happening doesn't mean you can't objectively compare whether what the police are doing is acceptable outside of the larger situation that is causing them to do it. The question is if one seems unacceptable, shouldn't the other be too? If you want to talk about levels of violence between these two, stop and frisk certainly seems to be something closer to approaching physical violence, or at least the greater potential for it, then searching your phone.