"""This package contains the initial concentration item."""
from __future__ import annotations
from typing import List
import numpy as np
from glotaran.model import model_item
from glotaran.parameter import Parameter
[docs]@model_item(
properties={
"compartments": List[str],
"parameters": List[Parameter],
"exclude_from_normalize": {"type": List[str], "default": []},
}
)
class InitialConcentration:
"""An initial concentration describes the population of the compartments at
the beginning of an experiment."""
[docs] def normalized(self) -> np.ndarray:
normalized = np.array(self.parameters)
idx = [c not in self.exclude_from_normalize for c in self.compartments]
normalized[idx] /= np.sum(normalized[idx])
return normalized