I’ve managed to fix this issue in a CentOS:7 Docker container.
I’ve followed mainly the Guide on CentOS Docker image project.

FROM centos:7

ENV container docker
RUN (cd /lib/systemd/system/sysinit.target.wants/; for i in *; do [ $i == 
systemd-tmpfiles-setup.service ] || rm -f $i; done); 
rm -f /lib/systemd/system/multi-user.target.wants/*;
rm -f /etc/systemd/system/*.wants/*;
rm -f /lib/systemd/system/local-fs.target.wants/*; 
rm -f /lib/systemd/system/sockets.target.wants/*udev*; 
rm -f /lib/systemd/system/sockets.target.wants/*initctl*; 
rm -f /lib/systemd/system/basic.target.wants/*;
rm -f /lib/systemd/system/anaconda.target.wants/*;

# Install anything. The service you want to start must be a SystemD service.

CMD ["/usr/sbin/init"]

Now, build the image, and run it using at least the following arguments to docker run command: -v /run -v /sys/fs/cgroup:/sys/fs/cgroup:ro

Then main point is that /usr/sbin/init must be the first process inside the Docker container.

So if you want to use a custom script that executes some commands before running /usr/sbin/init, launch it at the end of your script using exec /usr/sbin/init (in a bash script).

Here is an example:

ADD cmd.sh /usr/local/bin/
RUN chmod +x /usr/local/bin/cmd.sh

CMD ["/usr/local/bin/cmd.sh"]

And here is the content of cmd.sh:

#!/bin/bash

# Do some stuffs

exec /usr/sbin/init # To correctly start D-Bus thanks to https://forums.docker.com/t/any-simple-and-safe-way-to-start-services-on-centos7-systemd/5695/8

You could have System is booting up. See pam_nologin(8) if your using the PAM system, in that case, delete /usr/lib/tmpfiles.d/systemd-nologin.conf in your Dockerfile because it creates the file /var/run/nologin which generates this specific error.

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