The reason I am defensive when it comes to these articles is because they are actively used by hate groups to validate a perspective of the world where some nations are unworthy of their lives, freedom and right to self determination. Presenting these articles without an accompanying them with the context of the time does not help that situation.
You have to understand that religion was really important (maybe the most important thing) for the people of that period, and you have to know that their religion was threatened for centuries inside their own borders, you have to know about "La reconquista".
In a time of period were your territory was just regained from Moors after centuries of occupation and threatens to your life and beliefs. The only logical move was to identify those who were still Moors in the shadows, from their point of view they were the remains of the invaders they were still dangerous.
You have to know about the kind of punishments for the law breakers (not only religion laws) on that period of time, you have to know that the inquisition was the organization that investigated the cases to identify those who were false conversions (those who were still a threaten from their point of view), then when someone was found guilty for breaking their laws the state was responsable for imparting justice, their justice is very different from today's justice, we have learned a lot, but you can't properly understand their actions if you don't understand the context.
You can argue there was a law, and different rules, and a bunch of abstract concepts... in the end it is someone being killed for making God angry, and the form of execution is no different than a ritual.
For example, if we sent an average Hacker News reader back to the time of the Inquisition, they would start trying to share their scientific knowledge with others, talking about the laws of physics, chemistry, etc. Immediately after, they would be accused of witchcraft (chemistry back then was alchemy, a form of witchcraft) and that person would be tortured and then killed in a bonfire. That system is the one you seem to be defending now.