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Today I set up a new directory on my web server and used Cyberduck to sync a local directory to the one on the server. The first transfer, when the remote directory was empty and so all files were copied over, got a status of "Synchronization complete". Subsequent transfers, where only one or two files needed to be transferred, got status of "transfer incomplete". As others have said, it looks like all the data was transfered, it is just the bookkeeping and status report that is wrong.
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