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I see, so the Yubikey is plugged on the server, and the clients use it through an API. There is SignServer that does something like this too, but Jsign can't call it directly.

If you don't mind coding a bit in Java you could implement the net.jsign.jca.SigningService interface to call your REST API. That's how Jsign calls AWS, Google Cloud and other signing services. Then you would sign though your API by using a custom storetype:

jsign --storetype MYKEYSTORE --storepass password --alias alias application.exe

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@obones
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@ebourg
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