You'll probably be fine, Ian. The only common antibiotic side-effect that would affect your running is diarrhoea, and there is some evidence that taking probiotics (to put back "good" gut bacteria) can help - if you decide to take this approach but find the cost of probiotics eye-watering, I have been given lots of vouchers for money off Actimel that I could send to you.
All of the antibiotics commonly used for getting rid of the germ that causes impetigo - flucloxacillin, co-amoxiclav, and erythromycin - can cause diarrhoea but only erythromycin commonly causes vomiting.
Chances are, you'll be completely fine.
Cheers, V-rap.