I usually go roof first but if it's a sturdy frame it doesn't really matter although TeeGee has a point, I've touched the glass walls with a boot-tip more than once.
One point, if its possible, move the frame without dismantleing it. I've found more than once that the beggers never go back as was.
Do a quick measure of the glass before you remove it. I've moved some in the past where the assembly was a poor job and the person fitting the original glass had resrted to cutting it to fit! If it's a home made one this is more important and you might be better off numbering each pane.