I'm sure I'm misunderstanding your question.
How many pictures you can download to a PC is limited only by the PC's storage capacity.
Remote operation using Atlas SDK seems like a huge project to me, but if you're an experienced SW developer I guess it's doable.
I would investigate existing solutions before starting such a project.
I have a Flir C5 and use Flir Tools for post-analysis of pictures, works fine. No remote control though.
Seems like Flir Tools is obsolete now, Thermal Studio Suite is the new thing.