Dear all Am I right in thinking that, although the current 'bowtie_wrappers' package from the toolshed creates the file .../galaxy-dist/tool-data/bowtie_indices.loc no data is ever actually loaded from this file (and so any entries added to it are ignored)? Empirically, it appears only entries in the .loc file under .../galaxy-dist/tool-data/toolshed.g2.bx.psu.edu/repos/devteam/bowtie_wrappers/9ca609a2a421/ are actually used to populate the relevant menu in the "bowtie for illumina" tool. Is there a reason why the redundant file is still created? Thanks, best wishes Peter Ps this is in galaxy-dist changeset 14355:007f6a80629a -- Peter Briggs peter.briggs(a)manchester.ac.uk Bioinformatics Core Facility University of Manchester B.1083 Michael Smith Bldg Tel: (0161) 2751482