No. It's better to shock tonight with one carboy and then again in the morning.

BUT YOU MUST KEEP UP A CONSISTENT LEVEL OF CHLORINE OR YOU WILL NEVER SOLVE YOUR PROBLEM! AND ALGAE IS NOT YOUR PROBLEM--YOU HAVE ANOTHER BIOLOGIC YOU MUST KILL!

You MUST check and adjust your chlorine 3x a day now. You have no alternative--2x a day isn't enough. 1st thing in the morning, late afternoon or before dinner, and at bed time.

Use the dilution method with your OTO set if you must. Use test strips if you must--you can tell with them if FC is above 10ppm or below it. You MUST hammer your pool with chlorine--putting in two carboys at once may well damage your liner--better to get your pool to shock level and keep it there, seperating them by 8-12 hours.