modelbase2 0.1.79__py3-none-any.whl → 0.3.0__py3-none-any.whl

modelbase2/sbml/__init__.py

@@ -0,0 +1,14 @@
+"""SBML support for modelbase2.
+
+Allows importing and exporting metabolic models in SBML format.
+"""
+
+from __future__ import annotations
+
+__all__ = [
+    "read",
+    "write",
+]
+
+from ._export import write
+from ._import import read

modelbase2/sbml/_data.py

@@ -0,0 +1,77 @@
+from __future__ import annotations
+
+__all__ = [
+    "AtomicUnit",
+    "Compartment",
+    "CompositeUnit",
+    "Compound",
+    "Derived",
+    "Function",
+    "Parameter",
+    "Reaction",
+]
+
+from dataclasses import dataclass
+from typing import TYPE_CHECKING
+
+if TYPE_CHECKING:
+    from collections.abc import Mapping
+
+
+@dataclass
+class AtomicUnit:
+    kind: str
+    exponent: int
+    scale: int
+    multiplier: float
+
+
+@dataclass
+class CompositeUnit:
+    sbml_id: str
+    units: list
+
+
+@dataclass
+class Parameter:
+    value: float
+    is_constant: bool
+
+
+@dataclass
+class Compartment:
+    name: str
+    dimensions: int
+    size: float
+    units: str
+    is_constant: bool
+
+
+@dataclass
+class Compound:
+    compartment: str | None
+    initial_amount: float
+    substance_units: str | None
+    has_only_substance_units: bool
+    has_boundary_condition: bool
+    is_constant: bool
+    is_concentration: bool
+
+
+@dataclass
+class Derived:
+    body: str
+    args: list[str]
+
+
+@dataclass
+class Function:
+    body: str
+    args: list[str]
+
+
+@dataclass
+class Reaction:
+    body: str
+    stoichiometry: Mapping[str, float | str]
+    args: list[str]