"My leg has been hurting me since the (second round) Rubin match," he said.
"I was able to navigate through the pain. For some reason against Stan I had it from the start on both sides of the groin.
"I felt my quad midway through the second set already, and the groin started to hurt midway through the third set.
"I just told myself, The rules are there that you can use them. We shouldn't be using these rules or abusing the system. I think I've led the way for 20 years.
"So I think to be critical there is exaggerating. I'm the last guy to call a medical timeout. I don't know what he's talking about."
After losing the fourth set 6-3, Federer recovered to win the final set by the same scoreline.
Beaten finalist Rafael Nadal said he had "no opinion" about the about that.
I don't know what's going on. Federer missed the final six months of last year's tour after he had surgery on an injured knee.