[galaxy-dev] fastq format recognition

I have a new galaxy installation on my server. I uploaded two fastq files and now I'm trying to run trimmomatic and fastqc. In both cases I am presented with a drop down list of fastq files to select from but the lists are empty. I double checked the fastq file attributes and they are both set to fastq. Any ideas what's wrong? Another question: I have fastq files already on the same server as the galaxy installation. How can I get them into galaxy? I have not set up ftp yet. Can I move them into a data directory somewhere? Thanks!