I don't have a problem figuring out who's the protagonist and who's the antagonist. That's clearly defined right from the word "Go" (well, actually, the antagonist, and their precise goals, remains shadowy through much of the first book), but in this particular case cited above, the positions are very unclear. In the first scene the protagonist presents a paper at a scientific symposium and finds himself denigrated by this other minor character who happens to have a lot of power and influence in the field the protagonist is working in.
In the second scene the minor character suddenly shows up at the protagonists college and labs and very excitedly announces he's talked with the university president and the protagonists teachers and advisors and they've all decided he's ready to receive/be granted his PhD (this is after the university has been given a sizable amount of money to "pave the way" for the protagonists research and give him a base of operations by the government). The protagonist does deserve his PhD, BTW, but this is a bit early for him to actually get it and it's somewhat "out of the blue".
Now, I've known for some time that there are ulterior motives behind the grant, mainly the desire for more government money by the university. In addition everyone in his field is picking away at the protagonists research, grabbing bits and pieces of it for themselves,but I didn;t realize until the other night what a nice setup the old, wise, formerly antagonistic and now friendly professor would make for a special antagonist for the protagonist. He's nearly a perfect mole (another mole is discovered late in the first book, but he's a fellow student of the protagonists) for the protagonists enemies (who try to kill him late in the book).
It would be very, very interesting, I think, to turn this former adversary, now friend, of the protagonist into somebody much more powerful and important within the organization of the enemy than he currently appears. He might even be at the forfront of the group that caused the problem the protagonist is working to fix.
In the second scene the minor character suddenly shows up at the protagonists college and labs and very excitedly announces he's talked with the university president and the protagonists teachers and advisors and they've all decided he's ready to receive/be granted his PhD (this is after the university has been given a sizable amount of money to "pave the way" for the protagonists research and give him a base of operations by the government). The protagonist does deserve his PhD, BTW, but this is a bit early for him to actually get it and it's somewhat "out of the blue".
Now, I've known for some time that there are ulterior motives behind the grant, mainly the desire for more government money by the university. In addition everyone in his field is picking away at the protagonists research, grabbing bits and pieces of it for themselves,but I didn;t realize until the other night what a nice setup the old, wise, formerly antagonistic and now friendly professor would make for a special antagonist for the protagonist. He's nearly a perfect mole (another mole is discovered late in the first book, but he's a fellow student of the protagonists) for the protagonists enemies (who try to kill him late in the book).
It would be very, very interesting, I think, to turn this former adversary, now friend, of the protagonist into somebody much more powerful and important within the organization of the enemy than he currently appears. He might even be at the forfront of the group that caused the problem the protagonist is working to fix.