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When starting the container, you can set this with the following option

--ulimit nofile=1024

The entire command might look like this:

docker container run -dit -p 8080:5000 --ulimit nofile=1024 --tmpfs /opt/omd/sites/cmk/tmp:uid=1000,gid=1000 -v monitoring:/omd/sites --name monitoring -v /etc/localtime:/etc/localtime:ro --restart always checkmk/check-mk-raw:1.6.0-latest

This is also described in our official guide, and we urgently recommend reading the following two articles in their entirety when running Checkmk in Docker:

Installation as a Docker-Container

Checkmk server in a Docker container

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