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Is it possible to configure triggers to run antivirus-scans after events such as uploads? Or is there the possibility of using a plugin for CompleteFTP which will allow anti-virus scans?

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Regarding virus scanning, the following will scan each uploaded file using Microsoft Defender:

Microsoft Defender will automatically take remedial action if a virus is found. If you need to define your own actions then you can use a batch script that checks the errorlevel returned by MpCmdRun, which will be 2 if a virus is found.

 You can also script more complex actions using Powershell or Javascript if necessary.