http://www.pbs.org/wgbh/pages/frontline/shows/pope/etc/bio.html
During the war, Wojtyla turned to the Polish Church--the only institution built on an indestructible, eternal truth. Yet even here, the Nazis were trying to choke off the breath of Catholicism. As soon as they took over Krakow, General Frank requisitioned the Royal Castle on Wawel Hill. He closed Wawel Cathedral, one of the oldest Catholic repositories and the very heart of religious life in Krakow. Frank allowed a priest to say Mass every Sunday, but only to an empty church--Krakowians were not allowed to attend.
Hitler himself wrote General Frank that Polish priests "will preach what we want them to preach. If any priests acts differently, we shall make short work of him. The task of the priest is to keep the Poles quiet, stupid, and dull-witted...There should be only one master for the Poles, the German." Wojtyla had very real reason to believe that Nazis were going to destroy the Polish Church, along with Polish culture and the Polish nation itself. As
Neal Ascherson said to us, "The genocide of the Poles appeared to be already beginning...It's very difficult to imagine that people can say to themselves, 'Maybe in twenty-five years time there'll be nobody alive who speaks Polish.' It seems outrageous, unimaginable. But that's how people thought. And the Nazis helped them to think like that, by what they said and what they did." After all he'd lost, the terror of losing the Word was too much. The Germans could kill priests, but not the Priesthood; they could destroy churches, but not the Church.
When Karol Wojtyla joined Archbishop Sapieha's secret seminary in 1944, he was giving himself to the only power of goodness left in a dark world. He accepted it on its own terms. It was the last bastion of everything he loved. It was not in his power to change it--not yet.