Hello all, I'm looking at how to automatically script setting up a Galaxy instance with selected tools with dependencies as part of automated testing [*]. Can the Galaxy API be used to run the dependency instructions in a tool_dependencies.xml file (without using a Tool Shed)? Or more generally, can the Galaxy API be used to install a Tool Shed package from disk (i.e. point it at the files which would normally be uploaded to a Tool Shed)? Or, for an automated installation of local tools must I first setup a local Tool Shed and upload the tools there? Thanks, Peter [*] I'm using the TravisCI system for automated testing of my Galaxy tools now hosted on GitHub, which works by running the tests on a clean virtual machine: http://blastedbio.blogspot.com/2013/09/using-travis-ci-for-testing-galaxy-to... This means I need to automate the installation of Galaxy (easy), the tools I wish to test and their dependencies. This configuration would be less effort (and a more useful test) if it could mimic tool and dependency installation from the Tool Shed by reading my dependency XML files.