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TAP 4 (the map file) describes how users may specify that a certain repository should be used for some targets, while other repositories are to be used for other targets.
We should reference the map file in the specification once TAP 4 is reviewed and accepted, which depends on the acceptance of TAP 7 (conformance testing). Pending pull request for the map file implementation is available here: theupdateframework/python-tuf#430
A detailed outline of the map file should be covered in the specification, similar to pull request theupdateframework/python-tuf#440 that has now been merged.