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Add --no_shed_install option. #841
@bgruening's original advice was to base this on whether
I understand the critique that there are too many commands with too many options, and I have done things to make the default behaviors better (for instance none of the --conda_*** flags really need to be used for typical runs now). Rather than restricting functionality or making too clever assumptions I prefer the to go the route of documentation that focused on the actual commands to run and the relevant options for that use case. Therefore I've updated the documentation related to external Galaxy testing - and that doesn't cover twenty options - it covers only three - the most important three for external Galaxy testing including this new one.