It is just the same as installing the roofing panels. The only difference is that you should pre drill holes in the clear panels rather than just nailing through or screwing them down. I am sure that your local lumber store can explain how to install the panels. If it still seems too much of a job for you, your local lumber store can also put you in contact with a qualified person or contractor to install them for you.
I pUT the opaque panels up over my run and they are excellent ND letting filtered light in. Very easy to do! My suggestion would be to pick an end section and close it off with hardware cloth, use those opaque panels to get some light through the ceiling, even maybe a section of the wall, get an old window or two (they don't need to be nice, craigslist, freecycle, etc) and install for ventilation and light, lay hardware cloth along the floor and fill with sand and you're good to go! That's a great structure to start with! You could subdivide it for several uses!