I clamped the brake lines when I took off the calipers, so I figured I could just bleed the brakes a little and then top off the MC, but the pedal is pretty soft. So, now what? (yes searched)

 

Gravity bleed until you are sure ZERO air is in the line(s).

 

get a long vaccum hose, fill clear bottle halfway with brake fluid(plastic or glass),insert hose into bottom of bottle, force hose over bleed screw open bleed screw,(make sure you can see bottle or have someone look at it for you). Pump brakes until all bubbles are gone tighten bleed screw then remove hose, check resevior fill as needed do all wheels starting with right rear,left rear,right front left front.