The examples weren't being properly tested in the last commit. When we fixed
that a lot of bugs in the new implementation of environment and agent were
found, which accounts for most of these changes.
The main difference is the mechanism to load simulations from a configuration
file. For that to work, we had to rework our module loading code in
`serialization` and add a `source_file` attribute to configurations (and
simulations, for that matter).
* Removed old/unnecessary models
* Added a `simulation.{iter_}from_py` method to load simulations from python
files
* Changed tests of examples to run programmatic simulations
* Fixed programmatic examples
* Removed references to `set_state`
* Split some functionality from `agents` into separate files (`fsm` and
`network_agents`)
* Rename `neighboring_agents` to `neighbors`
* Delete some spurious functions
Documentation needs some improvement
The API has been simplified to only allow for ONE topology per
NetworkEnvironment.
This covers the main use case, and simplifies the code.
