Fix config docstrings and remove obsolete YAML config file constructor

src/miv_simulator/config.py

@@ -143,16 +143,20 @@ def _cast(v) -> int:
 ParametricCoordinate = Tuple[U_Coordinate, V_Coordinate, L_Coordinate]
 Rotation = Tuple[float, float, float]
 
-"""One of the layers defined in the LayersDef enum."""
+
 LayerName = str
-"""For a given neuron kind, this defines the distribution (i.e. numbers) of neurons accross the different layers."""
+"""One of the layers defined in the LayersDef enum."""
+
 CellDistribution = Dict[LayerName, int]
-"""Describes a volume extent"""
+"""For a given neuron kind, this defines the distribution (i.e. numbers) of neurons accross the different layers."""
+
 LayerExtents = Dict[LayerName, List[ParametricCoordinate]]
-"""Describes constraints on the distribution of neurons in a given layer."""
+"""Describes a volume extent"""
+
 CellConstraints = Optional[
     Dict[PopulationName, Dict[LayerName, Tuple[float, float]]]
 ]
+"""Describes constraints on the distribution of neurons in a given layer."""
 
 
 # Pydantic data models
@@ -264,7 +268,3 @@ def probabilities_sum_to_one(x):
 
 
 CellDistributions = Dict[PopulationName, CellDistribution]
-
-
-def path(*append) -> str:
-    return os.path.join(os.path.dirname(__file__), *append)

src/miv_simulator/utils/utils.py

@@ -27,7 +27,6 @@
 import click
 import numpy as np
 import yaml
-from miv_simulator.config import path as config_path
 from mpi4py import MPI
 from numpy import float64, uint32
 from scipy import signal, sparse
@@ -316,19 +315,8 @@ def include(self, node: ScalarNode) -> Dict[str, Any]:
         with open(filename) as f:
             return yaml.load(f, IncludeLoader)
 
-    def include_default(self, node: ScalarNode) -> Dict[str, Any]:
-        """
-
-        :param node:
-        :return:
-        """
-        filename = os.path.join(config_path(), self.construct_scalar(node))
-        with open(filename) as f:
-            return yaml.load(f, IncludeLoader)
-
 
 IncludeLoader.add_constructor("!include", IncludeLoader.include)
-IncludeLoader.add_constructor("!include_default", IncludeLoader.include_default)
 
 
 class ExplicitDumper(yaml.SafeDumper):