No, Chapters hasn't stopped carrying Trek novels in general, my local Chapters in Nova Scotia has eleven copies of the Captain Kirk autobiography. For what it's worth, the last year or so the actual Chapters stores are just slow to get new releases in general. Since I have a membership card with them, I prefer getting stuff from them and have since settled with ordering from their website.
I haven't seen any of those titles at my local store, either. Just curious - anyone know why there aren't any new Trek novels set in the new film continuity? I'm not really interested in reading about the old continuity, pre-Trek 09, (I tried reading some of the post TNG Nemesis stuff, but there was too much backstory I didn't know about )but wouldperhaps be interested in stories of the new continuity, if they tied into the films, the way Star Wars is doing with their latest "Road to The Force Awakens" novels... Will we ever see something like that setting up for Star Trek Beyond?
This is covered a lot on this forum, but long story short, Bad Robot won't authorize Pocket Books to cover anything from the Abrams movies, and four novels set in the Abramsverse due to be released summer 2010 were pulled at the last moment with no real explanation. So, no there will be no novels setting up for Beyond, in fact the novel line-up for 2016 has already been announced with nothing related to Beyond there.
There will probably be a comic prequel to Beyond released by IDW, which had such prequels for Trek XI and STID. Though I hope this time they go for a title which doesn't try to ham fist the term "Countdown" in there.
Long story short: JJ had planned a full multi-media presence for Trek: books, comics, web, movie, even a TV series. CBS balked at doing a series (and at stopping all merch for Old Trek to make room to push the new Trek). JJ got his shorts in a knot as a result and had the books pulled.
If you want to know what the Trek rennaisance would have looked like, look at how Disney is doing Star Wars currently.