def test_write_xdmf_3d(self): """Test the function `write_xdmf` for a 3D configuration.""" names = ['p', 'u', 'v', 'w'] for name in names: datadir = pathlib.Path('none') nstart, nt, nsave = 0, 1000, 100 filepath1 = pathlib.Path(name + '1.xmf') petibmpy.write_xdmf(filepath1, datadir, self.gridpath_3d, name, nstart=nstart, nt=nt, nsave=nsave) filepath2 = pathlib.Path(name + '2.xmf') states = list(range(nstart, nt + 1, nsave)) petibmpy.write_xdmf(filepath2, datadir, self.gridpath_3d, name, states=states) self.assertTrue(filecmp.cmp(filepath1, filepath2)) filepath1.unlink() filepath2.unlink()
outdir = datadir / 'postprocessing' / name outdir.mkdir(parents=True, exist_ok=True) # Read the cell-centered grid. x, y, z = petibmpy.read_grid_hdf5(gridpath, 'p') # Read the grid of the x-component of the vorticity. grid_wx = petibmpy.read_grid_hdf5(gridpath, 'wx') # Save the grid on which is defined the Q-criterion. gridpath = outdir / 'grid.h5' petibmpy.write_grid_hdf5(gridpath, name, x, y, z) # List of time-step indices to process. timesteps = [7750, 7875, 8000, 8250, 8375, 8500, 8625, 8750, 8875] interp_args = dict(bounds_error=False, method='linear', fill_value=None) for timestep in timesteps: print('[time step {}] Computing the cell-centered x-vorticity ...' .format(timestep)) filepath = datadir / '{:0>7}.h5'.format(timestep) # Load and interpolate the x-vorticity field on the cell-centered grid. wx = petibmpy.read_field_hdf5(filepath, 'wx') wx = petibmpy.interpolate3d(wx, grid_wx, (x, y, z), **interp_args) # Save the cell-centered x-vorticity field into file. filepath = outdir / '{:0>7}.h5'.format(timestep) petibmpy.write_field_hdf5(filepath, name, wx) # Write the XDMF file to visualize with VisIt. filepath = outdir / (name + '.xmf') petibmpy.write_xdmf(filepath, outdir, gridpath, name, states=timesteps)
# Get directories. simudir = pathlib.Path(__file__).absolute().parents[1] datadir = simudir / 'output' / 'solution' outdir = simudir / 'output' / 'postprocessing' / name outdir.mkdir(parents=True, exist_ok=True) # Read 3D grid and write 2D grid. gridpath = simudir / 'output' / 'grid.h5' x, y = petibmpy.read_grid_hdf5(gridpath, name) gridpath = outdir / 'grid.h5' petibmpy.write_grid_hdf5(gridpath, name, x, y) # Get temporal parameters. filepath = simudir / 'config.yaml' with open(filepath, 'r') as infile: config = yaml.load(infile, Loader=yaml.FullLoader)['parameters'] dt = config['dt'] states = sorted([int(p.stem) for p in datadir.iterdir()]) for state in states: print('[time step {}]'.format(state)) filename = '{:0>7}.h5'.format(state) filepath = datadir / filename data = petibmpy.read_field_hdf5(filepath, name) filepath = outdir / filename petibmpy.write_field_hdf5(filepath, name, data) # Write XDMF file to visualize field with VisIt. filepath = outdir / (name + '.xmf') petibmpy.write_xdmf(filepath, outdir, gridpath, name, dt, states=states)