adding kalman
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185
kalman/compute_solution_errors.py
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185
kalman/compute_solution_errors.py
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from dolfin import *
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import numpy as np
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from common import inout
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from pathlib import Path
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import argparse
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def get_indices_glob(path):
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path_all = list(Path().glob(path.format(i='*')))
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indices = sorted(int(str(s).split('/')[-2]) for s in path_all)
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return indices
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def find_checkpoints(options, path_checkpoint):
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indices = options['estimation']['measurements'][0]['indices']
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# look for u.h5 checkpoints
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chkpt_root = str(Path(path_checkpoint).joinpath('{i}/u.h5'))
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# if indices were given in input file, check if u.h5 checkpoints or X0.h5
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if indices:
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if not Path(chkpt_root.format(indices[0])).is_file():
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chkpt_root = str(Path(path_checkpoint).joinpath('{i}/X0.h5'))
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if not Path(chkpt_root.format(indices[0])).is_file():
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raise Exception('No checkpoints found in folder ' + chkpt_root)
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else:
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# get indices from folder names of u.h5 checkpoints
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indices = get_indices_glob(chkpt_root)
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# if no indices were found, look for X0.h5 files
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if not indices:
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chkpt_root = str(Path(path_checkpoint).joinpath('{i}/X0.h5'))
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indices = get_indices_glob(chkpt_root)
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# still no indices? raise Exception
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if not indices:
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print(chkpt_root)
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raise Exception('No checkpoint indices found')
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dt = options['timemarching']['dt']
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times = dt*np.array(indices)
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if MPI.rank(MPI.comm_world) == 0:
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print('indices: \n')
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print('\t', indices)
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print('times: \n')
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print('\t', times)
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files = [chkpt_root.format(i=i) for i in indices]
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# check if all files are found
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for f in files:
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if not Path(f).is_file():
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raise FileNotFoundError(f)
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return indices, times, files
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def get_h5_fun_name(file):
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if 'X0.h5' in file:
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fun = '/X'
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else:
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fun = '/u'
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return fun
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def filter_indices(ind1, ind2, files1, files2):
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''' Filter indices and files such that only maching files and indicies
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remain.
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Args:
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ind1 (list): list of indices of dataset 1
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ind2 (list): list of indices of dataset 2
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files1 (list): list of files of dataset 1
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files2 (list): list of files of dataset 2
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'''
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ind = []
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files_filt1 = []
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files_filt2 = []
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for i in ind1:
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if i in ind2:
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ind.append(i)
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files_filt1.append(files1[list(ind1).index(i)])
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files_filt2.append(files2[list(ind2).index(i)])
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return ind, files_filt1, files_filt2
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def compute_errors(inputfile, path_checkpoint_1,
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path_checkpoint_2, relative=False):
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options = inout.read_parameters(inputfile)
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indices1, times1, files1 = find_checkpoints(options, path_checkpoint_1)
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indices2, times2, files2 = find_checkpoints(options, path_checkpoint_2)
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indices, files1, files2 = filter_indices(indices1, indices2, files1,
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files2)
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fun1 = get_h5_fun_name(files1[0])
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fun2 = get_h5_fun_name(files2[0])
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# assert np.allclose(indices1, indices2), 'Indices do not match!'
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# assert np.allclose(times1, times2), 'Time stamps do not match!'
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mesh, _, _ = inout.read_mesh(options['mesh'])
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if 'fluid' in options:
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assert options['fem']['velocity_space'] in ('p1', 'p2'), (
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'velocity space not supported, use p1 or p2')
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deg = int(options['fem']['velocity_space'][-1])
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elif 'material' in options:
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deg = options['solver']['fe_degree']
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V = VectorFunctionSpace(mesh, 'P', deg)
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u1 = Function(V)
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u2 = Function(V)
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err_l2 = []
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err_linf = []
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for i, (f1, f2) in enumerate(zip(files1, files2)):
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# file_ref = str(Path(path_fwd_tentative_checkpoint).joinpath(
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# '{i}/u.h5'.format(i=i)))
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# file_roukf = str(Path(path_roukf_state_checkpoint).joinpath(
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# '{i}/X0.h5'.format(i=i)))
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t0 = inout.read_HDF5_data(V.mesh().mpi_comm(), f1, u1, fun1)
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t1 = inout.read_HDF5_data(V.mesh().mpi_comm(), f2, u2, fun2)
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assert np.allclose(t0, t1), ('Timestamps do not match! {} vs {} '
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'(HDF5 files)'.format(t0, t1))
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if relative:
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u_l2 = norm(u1, 'l2')
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u_linf = norm(u1.vector(), 'linf')
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if u_l2 == 0:
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u_l2 = 1
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print('i = {} \t norm(u1) == 0, do not normalize!'.format(i))
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if u_linf == 0:
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u_linf = 1
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print('i = {} \t max(u1) == 0, do not normalize!'.format(i))
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else:
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u_l2 = u_linf = 1
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err_l2.append(errornorm(u1, u2, 'l2', degree_rise=0)/u_l2)
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err_linf.append(norm(u1.vector() - u2.vector(), 'linf')/u_linf)
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print('i = {} \t L2 error: {} \t Linf error: {}'.format(i, err_l2[-1],
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err_linf[-1]))
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print('max L2 error: {}'.format(max(err_l2)))
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print('max Linf error: {}'.format(max(err_linf)))
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def get_parser():
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parser = argparse.ArgumentParser(
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description='''
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Compute errors between vector function checkpoints of two simulations.
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Can be ROUKF checkpoints, but if forward and ROUKF
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files are found in the same checkpoint folder (0/u.h5 and 0/X.5),
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the forward file will be preferred.''',
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formatter_class=argparse.RawDescriptionHelpFormatter)
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parser.add_argument('inputfile', type=str, help='path to yaml input file')
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parser.add_argument('path_checkpoint_1', type=str,
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help='Path to checkpoints of simulation 1')
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parser.add_argument('path_checkpoint_2', type=str,
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help='Path to checkpoints of simulation 2')
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parser.add_argument('-r', '--relative', action='store_true',
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help='compute relative errors')
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return parser
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if __name__ == '__main__':
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args = get_parser().parse_args()
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compute_errors(args.inputfile, args.path_checkpoint_1,
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args.path_checkpoint_2, relative=args.relative)
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