refactor(cli): Recheck annexed object contents added in previous upload runs #3563
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This solves a case where the command line tools could be interrupted during upload and fail to retransfer keys it created previously. See #3561
Instead of tracking the new annex keys as they are generated per run, we read all annex keys from HEAD and recheck them against the remote.
Reading the existing keys is also necessary to avoid rechecking MD5E hashes for #3562.