[galaxy-dev] building NGS indexes on user sequences

Hi We want to allow users to index sequences in galaxy (for example in the data libraries) for use with NGS tools (Bowtie, BWA, etc). Has anyone made tools for NGS indexing? It will also require changing the .loc files for the NGS tools & dynamic re-configuring of tools, which is all possible. Users might want to index & map reads to either their own sequences or other sequences that arent available in the default list, and this would remove the need for admin intervention. Any one else doing something similar? Or can it be done now & I just dont see it? Cheers, Mike.