Therac 25 is a radiation therapy machine that lead to 3 deaths and 3 injuries in 1980s. That's the worst accidents in history which are caused by software bugs. In 1993, Leveson and Turner did a thorough investigation (click the link for full version) into Therac 25 and published a paper to conclude their investigation.
I am going to give a presentation next week about these tragedies. However, I don't understand the paper's explanation on the bug. I enclose the related part of the paper as follows (ZOOM OUT to read),

The following is some of my understanding of the code,

Then I got stuck!
The Magnet process is to setup all magnets and the entire process takes about 8secs. The BUG is that the PTime clears the magnet setting flag in its first execution, which is not reset later. The paper indicates, as a result, the PTime process will only check the input change for the first magnet setting because of the bug. But what I don't understand is the line in the red rectangle.

The line examines if the input has changed at the end of every magnet setup. Even if Ptime fails to check it, this line will still check if the change happened, and then the bug would be ineffective. I am really baffled. Since this is a very influential paper, I presume I somehow misunderstood its explanation.