Yaml config override does not change the binding variables in the config file

[eugene-yang]

For config files that use config variables for run name, the overriding variables are not considered when binding the variables.
For example, when running patapsco test_config.yml --set queries.psq.path=dummy.dict and the config file is something like

run:
    name: psq-{queries.psq.path}
....
queries:
    psq:
        path: original.dict

The run name will still be psq-original.dict.

The variable checks also take place before the overriding variables are put into the config object. Ideally, it should be checked after processing the overriding variables.
https://github.com/hltcoe/patapsco/blob/master/patapsco/config.py#L118