How do I manually "shut down" an hard drive without plugging it out?

What you're looking for is to 'spin down' a drive. Here is a similar question.

If you want to disable drives with the command line, you can use DevCon:

devcon disable <hardware id>

Using the device manager:

Right click on disk > disable

https://www.meinfach.net/revosleep/

http://hddscan.com/

Personally I prefer revosleep

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