I currently have two stand-alone instances of Apache IoTDB server (A and B). Both of which are run by docker, while server A is newly started. After I copy server B's data/datanode/data and data/datanode/system directory to the corresponding directory of server A, and started server A, the data still cannot be queried out in server A. I wonder which step I did wrong or what else should I do to be able to query data?

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You need to use load command in Apache IoTDB to successfully import the data from server A to server B. All your other steps are correct, so try to execute load data statement and try query again.