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git annex unused supports an --from option to select a specific remote to find unused data in. When you use that on a repository which is not linked to from the current repository by a git remote, git annex fails:
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$ git annex unused --from somerepository
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git-annex: there is no available git remote named somerepository
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$ git annex unused --from repowithremote
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unused repowithremote (checking for unused data...)
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[...]
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As git annex at least for newly-deleted files knows when those are stored in the given repository, git annex should at least find those.
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