For instance, see https://en.wikipedia.org/wiki/Auto-da-fé
(This wasn't unique to Spain, but Spain was certainly an epicenter, due to a large Jewish population forcibly converted during and after the Reconquista)
The whole "it was the civil authorities not the Church" line doesn't really work there, since the Pope was ultimately in charge of both, even if the two were still nominally distinct.
Even in the case of the Spainish Inquisition, where the Church-va-State distinction was somewhat more real – you have to ask whether the Church encouraged or discouraged the civil authorities from imposing capital punishment on those it convicted of heresy. I think you will find that the answer was very much "encourage", not "discourage" or neutral. "We didn't execute anybody, we just encouraged the government to execute them" is a rather laughable defence.
That's literally why I started off my comment with "I'm not going to excuse the church". You're absolutely right that there ought to have been a reckoning with the consequences.
If you can't, then it's just a waste of my time.
I repeat: Do you actually have any evidence for what you're saying?
If it helps, though, the Roman Inquisition, an organ of the Church, also liked to burn the odd apostate.
Frankly, it sounds as though you are randomly spouting phrases in an attempt to sound educated.