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import shutil
from pathlib import Path
import pytest
from tests.vcell_parsing_test import extract_simdata
from vcelldata.mesh import CartesianMesh
from vcelldata.simdata_models import PdeDataSet, DataFunctions
from vcelldata.zarr_writer import write_zarr
test_data_dir = (Path(__file__).parent.parent / "test_data").absolute()
def test_zarr_writer():
extract_simdata()
sim_data_dir = test_data_dir
sim_id = 946368938
job_id = 0
pde_dataset = PdeDataSet(base_dir=sim_data_dir, log_filename=f"SimID_{sim_id}_{job_id}_.log")
pde_dataset.read()
data_functions = DataFunctions(function_file=sim_data_dir / f"SimID_{sim_id}_{job_id}_.functions")
data_functions.read()
mesh = CartesianMesh(mesh_file=sim_data_dir / f"SimID_{sim_id}_{job_id}_.mesh")
mesh.read()
write_zarr(pde_dataset=pde_dataset, data_functions=data_functions, mesh=mesh, zarr_dir=test_data_dir / "zarr")
# TODO: verify the written data
# recursively remove files and directories from path (equivalent to rm -rf) for test_data_dir / "zarr"
shutil.rmtree(test_data_dir / "zarr")
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