Here is the situation

The servers are setup for a replica set with a keyfile and replica name configured in the conf file

I am trying to run a command on 127.0.0.1 to initialize the replica set. It fails with the following error

29 Apr 2015 22:20:58,981 ERROR ~ MongDBInstance-configureReplicaSet: Timed out after 10000 ms while waiting for a server that matches ReadPreferenceServerSelector{readPreference=secondaryPreferred}. Client view of cluster state is {type=UNKNOWN, servers=[{address=127.0.0.1:27017, type=REPLICA_SET_GHOST, roundTrip Time=1.5 ms, state=CONNECTED}]

If I remove the replica set parameter from the conf file the commands work fine. I need to run commands in this mode because that is now I initialize the replica set.