Use --ignore-dependencies only when necessary
Using the --ignore-dependencies switch was causing the ipactl stop command
not to stop all instances of dirsrv and dogtag. Make sure the switch is used
only when necessary, i.e. to prevent ipa-otpd.socket from getting stuck during
the shutdown transaction.
https://fedorahosted.org/freeipa/ticket/3730https://fedorahosted.org/freeipa/ticket/3729