When the docker-demon starts it adds a couple of rules to iptables.
When all rules are deleted via iptables -F i have to stop and restart the docker demon to re-create dockers rules.
Is there a way to have docker re-add it's additional rules?
the best way is to restart your docker service, then it'll re-add your docker rules to iptables. (on deb-based: sudo service docker restart)
however, if you just want to restore those rules without restarting your service, i saved mine so you can inspect, and adjust it to work for you, then load using sudo iptables-restore ./iptables-docker-ports.backup
edit and save this to ./iptables-docker-ports.backup
# Generated by iptables-save v1.4.21 on Thu Apr 30 20:48:42 2015
*nat
:PREROUTING ACCEPT [18:1080]
:INPUT ACCEPT [18:1080]
:OUTPUT ACCEPT [22:1550]
:POSTROUTING ACCEPT [22:1550]
:DOCKER - [0:0]
-A PREROUTING -m addrtype --dst-type LOCAL -j DOCKER
-A OUTPUT ! -d 127.0.0.0/8 -m addrtype --dst-type LOCAL -j DOCKER
-A POSTROUTING -s 172.17.0.0/16 ! -o docker0 -j MASQUERADE
-A POSTROUTING -s 172.17.0.1/32 -d 172.17.0.1/32 -p tcp -m tcp --dport 80 -j MASQUERADE
-A DOCKER ! -i docker0 -p tcp -m tcp --dport 3001 -j DNAT --to-destination 172.17.0.1:80
COMMIT
# Completed on Thu Apr 30 20:48:42 2015
# Generated by iptables-save v1.4.21 on Thu Apr 30 20:48:42 2015
*filter
:INPUT ACCEPT [495:53218]
:FORWARD ACCEPT [0:0]
:OUTPUT ACCEPT [480:89217]
:DOCKER - [0:0]
-A FORWARD -o docker0 -j DOCKER
-A FORWARD -o docker0 -m conntrack --ctstate RELATED,ESTABLISHED -j ACCEPT
-A FORWARD -i docker0 ! -o docker0 -j ACCEPT
-A FORWARD -i docker0 -o docker0 -j ACCEPT
-A DOCKER -d 172.17.0.1/32 ! -i docker0 -o docker0 -p tcp -m tcp --dport 80 -j ACCEPT
COMMIT
# Completed on Thu Apr 30 20:48:42 2015