If you open scene in scene viewer and it looks 90 degrees rotated, it's because some scene formats don't contain information on up vector, it's not possible to open them correctly without manual adjustment.

Solution is simple - open User preferences window, adjust Import / Up and open scene again.

Global illumination solvers in Lightsprint SDK are up vector independent, they don't need to know up vector and rotate scene. Only scene viewer and default camera settings expect up vector Y, so scenes are converted at import time.