The first scaling option is to decrease the amount of work overall. You could cut the entire workout in half as a great place to start. If you have been running a lot, but not doing much in the way of the bodyweight work in the middle, then maybe you keep the run at 1 mile and cut the bodyweight reps in half. There are lots of ways to manipulate the reps to ensure you re doing an appropriate volume for you.

The run can also be modified to a different cardio movement like a bike or row depending on equipment access. The goal would be for this portion to last 6-12 minutes.

The rows can be done with a barbell, dumbbell, using a set of rings, or anything you can pull towards you or puck yourself towards. This is the movement most likely to cause overuse injury if you go from doing zero reps over the last few weeks to 100 today so be wary!

The push ups can be performed from your knees or by elevating the hands to make them easier.

The air squats can be performed to a target to limit your depth to a safe range of motion if needed.

This workout can be made more difficult by keeping the reps in the middle unpartitioned (ie performing all 100 pull ups before moving to the push ups then 200 push ups before moving to the 300 air squats). You can also make this more difficult by wearing a weighted vest. If you have not been training any of these movements with a weighted vest, then I would be very careful about the number of reps you perform with a vest should you attempt that version.