How can I convert a video File into a 3D format that can be seen with the new 3D Glasses?

You can’t convert a 2D movie to a 3D one, at least not properly. There are some techniques that attempt to simulate 3D, but I doubt that they are very effective.

A real 3D (stereoscopic) replicates the way human vision sees depth. Instead of our two eyes, they use two cameras (or some split optics on one camera) to provide a left and right eye view of the scene. The key is parallax, the difference in view from two angles.

The glasses for 3D TV are active-shutters, and are expensive. Theaters use inexpensive polarized glasses and polarized projectors (Real3D) or narrow-band color filters (Dolby 3D) to achieve left-right eye separation.

The old red/blue glasses are a pretty crude technique called anaglyphic stereo. Color quality really suffers with those.