No spark - battery connected wrong!!!

[pieman]

First time for this, hope i get it right.
You will all say what an idiot but here I go, re-building an 3xw and tried to get her started after fitting new exhaust and removing an old datatag alarm.battery fitted to bike run down so took battery from my ZZR1100,did not notice connections are wrong way round until bright spark and knackered fuse!!!Now i have no spark at plugs, engine turns over,replaced fuel pump i frazzeled and replaced engine control unit, any help would be great.