cardiac-geometriesx 0.1.1__tar.gz → 0.1.2__tar.gz

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: cardiac-geometriesx
-Version: 0.1.1
+Version: 0.1.2
 Summary: A python library for cardiac geometries
 Author-email: Henrik Finsberg <henriknf@simula.no>
 License: MIT

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "cardiac-geometriesx"
-version = "0.1.1"
+version = "0.1.2"
 description = "A python library for cardiac geometries"
 authors = [{name = "Henrik Finsberg", email = "henriknf@simula.no"}]
 license = {text = "MIT"}
@@ -156,7 +156,7 @@ tag = true
 sign_tags = false
 tag_name = "v{new_version}"
 tag_message = "Bump version: {current_version} → {new_version}"
-current_version = "0.1.1"
+current_version = "0.1.2"
 
 
 [[tool.bumpversion.files]]

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/src/cardiac_geometries/fibers/lv_ellipsoid.py

@@ -131,9 +131,11 @@ def create_microstructure(
     )
 
     if outdir is not None:
-        with dolfinx.io.XDMFFile(mesh.comm, Path(outdir) / "laplace.xdmf", "w") as file:
-            file.write_mesh(mesh)
-            file.write_function(t)
+        with dolfinx.io.VTXWriter(
+            mesh.comm, Path(outdir) / "laplace.bp", [t], engine="BP4"
+        ) as file:
+            file.write(0.0)
+
     system = compute_system(
         t,
         function_space=function_space,

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/src/cardiac_geometries/fibers/slab.py

@@ -134,9 +134,10 @@ def create_microstructure(
         function_space=function_space,
     )
     if outdir is not None:
-        with dolfinx.io.XDMFFile(mesh.comm, Path(outdir) / "laplace.xdmf", "w") as file:
-            file.write_mesh(mesh)
-            file.write_function(t)
+        with dolfinx.io.VTXWriter(
+            mesh.comm, Path(outdir) / "laplace.bp", [t], engine="BP4"
+        ) as file:
+            file.write(0.0)
 
     system = compute_system(
         t,

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/src/cardiac_geometries/fibers/utils.py

@@ -20,9 +20,11 @@ def save_microstructure(
     from ..utils import element2array
 
     # Save for paraview visualization
-    with dolfinx.io.VTXWriter(mesh.comm, Path(outdir) / "microstructure-viz.bp", functions, engine="BP4") as file:
+    with dolfinx.io.VTXWriter(
+        mesh.comm, Path(outdir) / "microstructure-viz.bp", functions, engine="BP4"
+    ) as file:
         file.write(0.0)
-        
+
     # Save with proper function space
     filename = Path(outdir) / "microstructure.bp"
     for function in functions:

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/src/cardiac_geometries/geometry.py

@@ -12,7 +12,7 @@ import numpy as np
 from . import utils
 
 
-@dataclass#(frozen=True, slots=True)
+@dataclass  # (frozen=True, slots=True)
 class Geometry:
     mesh: dolfinx.mesh.Mesh
     markers: dict[str, tuple[str, str]] = field(default_factory=dict)

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/src/cardiac_geometriesx.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: cardiac-geometriesx
-Version: 0.1.1
+Version: 0.1.2
 Summary: A python library for cardiac geometries
 Author-email: Henrik Finsberg <henriknf@simula.no>
 License: MIT

{cardiac_geometriesx-0.1.1 → cardiac_geometriesx-0.1.2}/tests/test_cli.py

@@ -16,13 +16,14 @@ from cardiac_geometries import Geometry, cli
     ],
     ids=["slab", "lv_ellipsoid"],
 )
-def test_script(script, tmp_path: Path):
+@pytest.mark.parametrize("fiber_space", ["P_1", "P_2"])
+def test_script(fiber_space, script, tmp_path: Path):
     runner = CliRunner()
 
     comm = MPI.COMM_WORLD
     path = comm.bcast(tmp_path, root=0)
 
-    res = runner.invoke(script, [path.as_posix(), "--create-fibers"])
+    res = runner.invoke(script, [path.as_posix(), "--create-fibers", "--fiber-space", fiber_space])
     assert res.exit_code == 0
     assert path.is_dir()
     geo = Geometry.from_folder(comm=comm, folder=path)