I successfully installed deepTools using the toolShed from the Galaxy main repos. The problem is that when users try to do analysis with deepTools, they always get the following message:
ERROR: Unable to read builds for site file /mnt/galaxy/galaxy-app/lib/galaxy/util/../../../tool-data/shared/ucsc/ucsc_build_sites.txt
Incidentally, this is the same message I get after successfully downloading genomes from UCSC using dataManagers.
Could someone shed some lights on how to fix this issue?