[galaxy-dev] Trimmomatic doesn't recognise pair collection

Hi there I've got Trimmomatic installed (from the toolshed) into our local Galaxy server (server is latest commit on the dev branch from GitHub). It refuses to see a dataset pair as a valid input, however. I've tested this with two types: firstly a pair made out of 2 individual datasets (both fastqsanger) and then also a list of pairs. I've tested this with 'planemo serve' and the tool works, but for some reason it is not working on our server. Any ideas? Thanks, Peter