They should not have been thumbing through any of your docs
File a complaint form immediately.
Whether you chose to not present ID or not, their check is a "security/safety" (what has been referred to as an 'administrative' search) check and nothing else.
By them forcing you to empty your pockets and actually rummaging through your papers they went outside their SOPs.
File a complaint immediately!
I've had something similar happen to me when a TSO found my 'other' boarding pass that had already been marked SSSS but I had printed out 2 of the paper ones before checking luggage. He looked at me like "Why do you have two BPs for the same flight?", shrugged and continued w/the swabbing.
Seriously - that is a direct violation of the letter of the law for the purposes of the airport screening. Similarly to what the NYPD can do here for subway riders who haven't entered the station. The police can only look for suspicious items and cannot review/evaluate/read/note anything other than whether the backpack/purse/bag contains said suspicious items.
Anything else is beyond the scope of their allowed duties.