repo stringlengths 2 99 | file stringlengths 13 225 | code stringlengths 0 18.3M | file_length int64 0 18.3M | avg_line_length float64 0 1.36M | max_line_length int64 0 4.26M | extension_type stringclasses 1
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pySDC | pySDC-master/pySDC/tests/test_projects/test_soft_failure/test_generate_statistics.py | import pytest
@pytest.mark.base
def test_generate_statistics():
from pySDC.projects.soft_failure.generate_statistics import main
main()
| 147 | 15.444444 | 68 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_AC/test_temp_forcing.py | import pytest
@pytest.mark.mpi4py
def test_main_serial():
from pySDC.projects.AllenCahn_Bayreuth.run_temp_forcing_verification import main
main(cwd='pySDC/projects/AllenCahn_Bayreuth/')
| 197 | 21 | 84 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_AC/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/tests/test_projects/test_AC/test_simple_forcing.py | import pytest
import subprocess
import os
import warnings
@pytest.mark.mpi4py
def test_main_serial():
from pySDC.projects.AllenCahn_Bayreuth.run_simple_forcing_verification import main, visualize_radii
main()
visualize_radii()
@pytest.mark.slow
@pytest.mark.mpi4py
def test_main_parallel():
# try to... | 1,526 | 30.8125 | 183 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_compression/test_proof_of_concept.py | import pytest
@pytest.mark.libpressio
@pytest.mark.parametrize("thresh", [1e-6, 1e-8])
@pytest.mark.parametrize("useMPI", [True, False])
@pytest.mark.parametrize("num_procs", [1, 4])
def test_compression_proof_of_concept(thresh, useMPI, num_procs):
if useMPI:
import subprocess
import os
#... | 2,085 | 31.59375 | 116 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_compression/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/tests/test_projects/test_SDC_showdown/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/tests/test_projects/test_SDC_showdown/test_fisher.py | import pytest
@pytest.mark.petsc
def test_fisher():
from pySDC.projects.SDC_showdown.SDC_timing_Fisher import main
main()
| 133 | 13.888889 | 66 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_SDC_showdown/test_grayscott.py | import pytest
@pytest.mark.petsc
def test_grayscott():
from pySDC.projects.SDC_showdown.SDC_timing_GrayScott import main
main(cwd='pySDC/projects/SDC_showdown/')
| 173 | 18.333333 | 69 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_fwsw/test_boussinesq.py | import os
import pytest
@pytest.mark.base
def test_plot():
from pySDC.projects.FastWaveSlowWave.plotgmrescounter_boussinesq import plot_buoyancy
assert os.path.isfile('pySDC/projects/FastWaveSlowWave/data/xaxis.npy'), 'ERROR: xaxis.npy does not exist'
assert os.path.isfile('pySDC/projects/FastWaveSlowWav... | 964 | 55.764706 | 112 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_fwsw/test_acoustic.py | import os
import pytest
@pytest.mark.base
def test_plot_convergence():
from pySDC.projects.FastWaveSlowWave.runconvergence_acoustic import plot_convergence
assert os.path.isfile('pySDC/projects/FastWaveSlowWave/data/conv-data.txt'), 'ERROR: conv-data.txt does not exist'
plot_convergence(cwd='pySDC/projec... | 1,016 | 35.321429 | 118 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_fwsw/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/tests/test_projects/test_fwsw/test_fwsw.py | import os
import pytest
import numpy as np
@pytest.mark.base
def test_stifflimit_specrad():
from pySDC.projects.FastWaveSlowWave.plot_stifflimit_specrad import compute_specrad, plot_specrad
nodes_v, lambda_f, specrad, norm = compute_specrad()
assert np.amax(specrad) < 0.9715, 'Spectral radius is too high... | 2,454 | 41.327586 | 104 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_pintsime/test_piline_model.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.PinTSimE.piline_model import main
main()
| 121 | 12.555556 | 57 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_pintsime/test_estimation_check.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.PinTSimE.estimation_check import run
run()
| 123 | 12.777778 | 60 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_pintsime/test_battery_model.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.PinTSimE.battery_model import run
run()
| 120 | 12.444444 | 57 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_pintsime/test_buck_model.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.PinTSimE.buck_model import main
main()
| 119 | 12.333333 | 55 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_pintsime/test_battery_2capacitors_model.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.PinTSimE.battery_2capacitors_model import run
run()
| 132 | 13.777778 | 69 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_pintsime/test_estimation_check_2capacitors.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.PinTSimE.estimation_check_2capacitors import run
run()
| 135 | 14.111111 | 72 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_parallelSDC/test_preconditioner_MPI.py | import os
import subprocess
import pytest
@pytest.mark.slow
@pytest.mark.mpi4py
def test_preconditioner_playground_MPI_5():
# Set python path once
my_env = os.environ.copy()
my_env['PYTHONPATH'] = '../../..:.'
my_env['COVERAGE_PROCESS_START'] = 'pyproject.toml'
cwd = '.'
num_procs = 5
cmd ... | 1,504 | 31.717391 | 119 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_parallelSDC/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/tests/test_projects/test_parallelSDC/test_preconditioner.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.parallelSDC.preconditioner_playground import main, plot_iterations
main()
plot_iterations()
| 176 | 16.7 | 90 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_parallelSDC/test_AllenCahn_parallel.py | import pytest
@pytest.mark.mpi4py
def test_main():
from pySDC.projects.parallelSDC.AllenCahn_parallel import main
# try to import MPI here, will fail if things go wrong (and not in the subprocess part)
try:
import mpi4py
del mpi4py
except ImportError:
raise ImportError('petsc... | 353 | 19.823529 | 91 | py |
pySDC | pySDC-master/pySDC/tests/test_projects/test_parallelSDC/test_fisher.py | import pytest
@pytest.mark.base
def test_main():
from pySDC.projects.parallelSDC.nonlinear_playground import main, plot_graphs
main()
plot_graphs()
@pytest.mark.base
def test_newton_vs_sdc():
from pySDC.projects.parallelSDC.newton_vs_sdc import main as main_newton_vs_sdc
from pySDC.projects.par... | 449 | 22.684211 | 97 | py |
pySDC | pySDC-master/pySDC/playgrounds/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/playground_dtype.py | import numpy as np
import time
from mpi4py import MPI
from mpi4py_fft import PFFT
from pySDC.implementations.datatype_classes.mesh import mesh
from pySDC.implementations.datatype_classes.mesh import mesh
class mytype(np.ndarray):
def __new__(cls, init, val=0.0):
if isinstance(init, mytype):
ob... | 2,153 | 20.979592 | 82 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/datatype_test.py | import time
import numpy as np
from dedalus import public as de
from pySDC.implementations.datatype_classes.mesh import mesh
from pySDC.implementations.datatype_classes.mesh import mesh
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field
from pySDC.playgrounds.Dedalus.dedalus_field_fast import dedalus_fi... | 3,344 | 24.730769 | 75 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/plotenergy.py | from subprocess import call
import numpy as np
from matplotlib import pyplot as plt
from matplotlib.ticker import ScalarFormatter
from pylab import rcParams
fs = 8
params = np.array([[3, 3], [3, 4], [3, 5]])
file = open('energy-exact.txt')
energy_exact = float(file.readline().strip())
Tend = float(file.readline().str... | 2,591 | 30.609756 | 119 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/runconvergence_rk.py | import numpy as np
import pySDC.core.deprecated.PFASST_stepwise as mp
from ProblemClass_conv import acoustic_1d_imex
from pySDC.projects.FastWaveSlowWave.HookClass import plot_solution
from standard_integrators import rk_imex
from pySDC.core import CollocationClasses as collclass
from pySDC.core import Log
from pySDC.... | 3,763 | 32.309735 | 102 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/ploterrorconstants.py | from subprocess import call
import numpy as np
from matplotlib import pyplot as plt
from matplotlib.ticker import ScalarFormatter
from pylab import rcParams
fs = 8
order = np.array([])
nsteps = np.array([])
error = np.array([])
# load SDC data
file = open('conv-data.txt', 'r')
while True:
line = file.readline()
... | 3,561 | 31.981481 | 103 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/ProblemClass.py | r"""
One-dimensional IMEX acoustic-advection
=========================
Integrate the linear 1D acoustic-advection problem:
.. math::
u_t + U u_x + c p_x & = 0 \\
p_t + U p_x + c u_x & = 0.
"""
import numpy as np
import scipy.sparse.linalg as LA
from buildWave1DMatrix import getWave1DMatrix, getWav... | 4,882 | 27.063218 | 130 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/ProblemClass_multiscale.py | r"""
One-dimensional IMEX acoustic-advection
=========================
Integrate the linear 1D acoustic-advection problem:
.. math::
u_t + U u_x + c p_x & = 0 \\
p_t + U p_x + c u_x & = 0.
"""
import numpy as np
import scipy.sparse.linalg as LA
from buildWave1DMatrix import getWave1DMatrix, getWav... | 4,640 | 26.3 | 112 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/dirk.py | import math
import numpy as np
import scipy.sparse as sp
import scipy.sparse.linalg as LA
class dirk:
def __init__(self, M, order):
assert np.shape(M)[0] == np.shape(M)[1], "Matrix M must be quadratic"
self.Ndof = np.shape(M)[0]
self.M = M
self.order = order
assert self.... | 3,105 | 27.236364 | 77 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/runenergy.py | from subprocess import call
import numpy as np
import pySDC.core.deprecated.PFASST_stepwise as mp
from ProblemClass_conv import acoustic_1d_imex
from pySDC.projects.FastWaveSlowWave.HookClass import plot_solution
from standard_integrators import dirk, rk_imex
from pySDC.core import CollocationClasses as collclass
fro... | 4,192 | 34.533898 | 107 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_1d_imex/playground.py | import numpy as np
import pySDC.core.deprecated.PFASST_stepwise as mp
from ProblemClass import acoustic_1d_imex
from matplotlib import pyplot as plt
from pySDC.projects.FastWaveSlowWave.HookClass import plot_solution
from pySDC.core import CollocationClasses as collclass
from pySDC.core import Log
from pySDC.implement... | 3,044 | 31.741935 | 115 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/fwsw/run_convergence.py | from __future__ import print_function
import matplotlib.pyplot as plt
import numpy as np
import pySDC.core.deprecated.PFASST_stepwise as mp
from pySDC.implementations.problem_classes.FastWaveSlowWave_Scalar import swfw_scalar
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.c... | 2,185 | 30.681159 | 96 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/fwsw/plot_stab_vs_m.py | import matplotlib.pyplot as plt
import numpy as np
from matplotlib.ticker import ScalarFormatter
from pySDC.implementations.problem_classes.FastWaveSlowWave_Scalar import swfw_scalar
from pylab import rcParams
from pySDC.core import CollocationClasses as collclass
from pySDC.core import Hooks as hookclass
from pySDC.c... | 3,801 | 39.021053 | 119 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/fwsw/__init__.py | __author__ = 'robert'
| 22 | 10.5 | 21 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/fwsw/playground.py | from __future__ import print_function
import matplotlib.pyplot as plt
import numpy as np
import pySDC.core.deprecated.PFASST_stepwise as mp
from pySDC.implementations.problem_classes.FastWaveSlowWave_Scalar import swfw_scalar
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.c... | 2,696 | 30.360465 | 125 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/playground_datatypes.py | from dedalus import public as de
from dedalus import core
import numpy as np
import matplotlib.pyplot as plt
import time
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field
class wrapper(core.field.Field):
def __abs__(self):
abs = super(wrapper, self).__abs__()
while hasattr(abs, ... | 2,333 | 20.027027 | 65 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/Dynamo_2D_Dedalus_NEW.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.implementations.datatype_classes.mesh import mesh, imex_mesh
class dynamo_2d_dedalus(ptype):
""" """
def __init__(self, problem_params, dtype_u=mesh, dtype_f=ime... | 6,341 | 34.038674 | 115 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/DynamoGP_2D_Dedalus.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class dynamogp_2d_dedalus(ptype):
""" """
def __init__(self, problem_params, dtype... | 6,289 | 34.337079 | 113 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/periodic_playground_parallel.py | import numpy as np
import matplotlib.pyplot as plt
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.Dedalus... | 4,047 | 35.142857 | 118 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/TransferDedalusFields.py | import numpy as np
from pySDC.core.Errors import TransferError
from pySDC.core.SpaceTransfer import space_transfer
from pySDC.implementations.datatype_classes.mesh import mesh, imex_mesh
class dedalus_field_transfer(space_transfer):
"""
Custon base_transfer class, implements Transfer.py
This implementa... | 3,367 | 35.608696 | 104 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/RayleighBenard_monitor.py | import numpy as np
import matplotlib.pyplot as plt
from pySDC.core.Hooks import hooks
class monitor(hooks):
def __init__(self):
super(monitor, self).__init__()
self.imshow = None
def pre_run(self, step, level_number):
"""
Overwrite standard post step hook
Args:
... | 1,266 | 23.365385 | 58 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/AllenCahn_2D_Dedalus_new.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.playgrounds.Dedalus.dedalus_field_new import dedalus_field, rhs_imex_dedalus_field
class allencahn2d_dedalus(ptype):
"""
Example implementing the 2D Allen-Cahn eq... | 5,075 | 35.517986 | 119 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/DynamoGP_2D_Dedalus_NEW.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.implementations.datatype_classes.mesh import mesh, imex_mesh
class dynamogp_2d_dedalus(ptype):
""" """
def __init__(self, problem_params, dtype_u=mesh, dtype_f=i... | 6,194 | 32.306452 | 104 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/HeatEquation_1D_Dedalus_forced.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError, ProblemError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class heat1d_dedalus_forced(ptype):
"""
Example implementing the forc... | 4,418 | 35.221311 | 115 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/playground_parallel.py | from mpi4py import MPI
import matplotlib
matplotlib.use("TkAgg")
from dedalus import public as de
import numpy as np
import matplotlib.pyplot as plt
comm = MPI.COMM_WORLD
world_rank = comm.Get_rank()
world_size = comm.Get_size()
# split world communicator to create space-communicators
color = int(world_rank / worl... | 3,250 | 23.628788 | 121 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/Dynamo_monitor.py | import numpy as np
from pySDC.core.Hooks import hooks
class monitor(hooks):
def pre_run(self, step, level_number):
"""
Overwrite standard post step hook
Args:
step (pySDC.Step.step): the current step
level_number (int): the current level number
"""
... | 1,481 | 24.551724 | 58 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/HeatEquation_2D_Dedalus_forced.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError, ProblemError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class heat2d_dedalus_forced(ptype):
"""
Example implementing the forc... | 4,280 | 33.804878 | 115 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/AllenCahn_2D_Dedalus.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class allencahn2d_dedalus(ptype):
"""
Example implementing the 2D Allen-Cahn equati... | 5,071 | 35.489209 | 119 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/rayleighbenard_playground.py | import numpy as np
import sys
import matplotlib.pyplot as plt
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgro... | 4,363 | 34.193548 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/Dynamo_2D_Dedalus.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class dynamo_2d_dedalus(ptype):
""" """
def __init__(self, problem_params, dtype_u... | 6,674 | 36.290503 | 115 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/dynamo_playground.py | import numpy as np
import sys
import matplotlib.pyplot as plt
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrou... | 4,463 | 34.149606 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/periodic_playground.py | import numpy as np
import matplotlib.pyplot as plt
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_nonMPI import controller_nonMPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.Dedalus.TransferDedalusF... | 3,690 | 35.544554 | 118 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/periodic_playground_2D.py | import numpy as np
import matplotlib.pyplot as plt
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_nonMPI import controller_nonMPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.Dedalus.TransferDedalusF... | 3,582 | 34.83 | 118 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/AllenCahn_monitor.py | import numpy as np
from pySDC.core.Hooks import hooks
class monitor(hooks):
def __init__(self):
"""
Initialization of Allen-Cahn monitoring
"""
super(monitor, self).__init__()
self.init_radius = None
def pre_run(self, step, level_number):
"""
Overwrit... | 3,812 | 30.512397 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/periodic_playground_2D_parallel.py | import sys
import numpy as np
import matplotlib.pyplot as plt
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgro... | 4,915 | 33.377622 | 120 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/AllenCahn_2D_Dedalus_multiple.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class allencahn2d_dedalus(ptype):
"""
Example implementing the 2D Allen-Cahn equati... | 5,071 | 35.489209 | 119 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/dedalus_field.py | import numpy as np
from mpi4py import MPI
from dedalus import public as de
from pySDC.core.Errors import DataError
class dedalus_field(object):
"""
Dedalus data type
This data type can be used whenever structured data with a single unknown per point in space is required
Attributes:
values:... | 11,938 | 32.256267 | 112 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/AC_playground_2D_parallel.py | import sys
import numpy as np
import matplotlib.pyplot as plt
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgro... | 4,345 | 32.689922 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/playground.py | from dedalus import public as de
from dedalus import core
import numpy as np
import matplotlib.pyplot as plt
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field
# class wrapper(core.field.Field):
#
# # def __init__(self, domain):
# # super(wrapper, self).__init__(domain)
#
# def __add__(... | 4,014 | 21.683616 | 99 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/RayleighBenard_2D_Dedalus.py | import numpy as np
from dedalus import public as de
from pySDC.core.Problem import ptype
from pySDC.core.Errors import ParameterError
from pySDC.playgrounds.Dedalus.dedalus_field import dedalus_field, rhs_imex_dedalus_field
class rayleighbenard_2d_dedalus(ptype):
""" """
def __init__(self, problem_params,... | 7,344 | 35.725 | 113 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/Dedalus/dynamogp_playground.py | import numpy as np
import sys
import matplotlib.pyplot as plt
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrou... | 4,474 | 34.23622 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/buildFDMatrix.py | import numpy as np
import scipy.linalg as la
import scipy.sparse as sp
# Only for periodic BC because we have advection only in x direction
def getUpwindMatrix(N, dx):
# stencil = [-1.0, 1.0]
# zero_pos = 2
# coeff = 1.0
# stencil = [1.0, -4.0, 3.0]
# coeff = 1.0/2.0
# zero_p... | 3,057 | 25.136752 | 105 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/buildWave2DMatrix.py | import numpy as np
import scipy.sparse as sp
from build2DFDMatrix import get2DMatrix, getBCHorizontal, get2DUpwindMatrix
def getWave2DUpwindMatrix(N, dx):
Dx = get2DUpwindMatrix(N, dx)
Zero = np.zeros((N[0] * N[1], N[0] * N[1]))
M1 = sp.hstack((Dx, Zero, Zero), format="csr")
M2 = sp.hstack((Zero, Dx... | 1,516 | 29.34 | 75 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/ProblemClass.py | import numpy as np
import scipy.sparse.linalg as LA
from build2DFDMatrix import get2DMesh
from buildWave2DMatrix import getWave2DMatrix, getWave2DUpwindMatrix
from unflatten import unflatten
from pySDC.core.Problem import ptype
from pySDC.implementations.datatype_classes import mesh, rhs_imex_mesh
class acoustic_2d_... | 4,902 | 30.229299 | 165 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/HookClass.py | from matplotlib import cm
from matplotlib import pyplot as plt
from pySDC.core.Hooks import hooks
class plot_solution(hooks):
def __init__(self):
"""
Initialization of output
"""
super(plot_solution, self).__init__()
# add figure object for further use
# se... | 1,663 | 29.254545 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/build2DFDMatrix.py | import sys
sys.path.append('../')
import numpy as np
import scipy.sparse as sp
from buildFDMatrix import getMatrix, getUpwindMatrix, getBCLeft, getBCRight
def get2DUpwindMatrix(N, dx):
Dx = getUpwindMatrix(N[0], dx)
return sp.kron(Dx, sp.eye(N[1]), format="csr")
def get2DMesh(N, x_b, z_b, bc_hor, bc_ver):... | 3,520 | 32.216981 | 111 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/__init__.py | 1 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/unflatten.py | import numpy as np
def unflatten(uin, dim, Nx, Nz):
temp = np.zeros((dim, Nx * Nz))
temp = np.asarray(np.split(uin, dim))
uout = np.zeros((dim, Nx, Nz))
for i in range(0, dim):
uout[i, :, :] = np.split(temp[i, :], Nx)
return uout
| 260 | 22.727273 | 48 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/acoustic_2d_imex/playground.py | import numpy as np
import pySDC.core.deprecated.PFASST_stepwise as mp
from ProblemClass import acoustic_2d_imex
from matplotlib import pyplot as plt
from pySDC.core import CollocationClasses as collclass
from pySDC.core import Log
from pySDC.implementations.datatype_classes import mesh, rhs_imex_mesh
from pySDC.implem... | 2,633 | 29.988235 | 98 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/advection_2d_explicit/ProblemClass.py | import numpy as np
from clawpack import pyclaw
from clawpack import riemann
from unflatten import unflatten
from pySDC.core.Problem import ptype
from pySDC.implementations.datatype_classes import mesh, rhs_imex_mesh
class advection_2d_explicit(ptype):
"""
Example implementing the forced 1D heat equation with... | 4,971 | 28.595238 | 96 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/advection_2d_explicit/HookClass.py | from matplotlib import cm
from matplotlib import pyplot as plt
from pySDC.core.Hooks import hooks
class plot_solution(hooks):
def __init__(self):
"""
Initialization of output
"""
super(plot_solution, self).__init__()
# add figure object for further use
# se... | 1,713 | 28.551724 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/advection_2d_explicit/__init__.py | 1 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/advection_2d_explicit/unflatten.py | import numpy as np
def unflatten(uin, dim, Nx, Nz):
temp = np.zeros((dim, Nx * Nz))
temp = np.asarray(np.split(uin, dim))
uout = np.zeros((dim, Nx, Nz))
for i in range(0, dim):
uout[i, :, :] = np.split(temp[i, :], Nx)
return uout
| 260 | 22.727273 | 48 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/advection_2d_explicit/playground.py | import pySDC.core.Methods as mp
from ProblemClass import advection_2d_explicit
from matplotlib import pyplot as plt
from pySDC.core import CollocationClasses as collclass
from pySDC.core import Log
from pySDC.implementations.datatype_classes import mesh, rhs_imex_mesh
from pySDC.implementations.sweeper_classes.imex_1s... | 2,457 | 30.922078 | 103 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/playground_pmesh_comm.py | from mpi4py import MPI
import matplotlib
matplotlib.use("TkAgg")
import numpy as np
import pfft
import time
import matplotlib.pyplot as plt
from numpy.fft import rfft2, irfft2
from pmesh.pm import ParticleMesh, RealField, ComplexField
def doublesine(i, v):
r = [ii * (Li / ni) for ii, ni, Li in zip(i, v.Nmesh, ... | 1,911 | 24.837838 | 105 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_monitor_and_dump_NEW.py | import numpy as np
import json
from mpi4py import MPI
from pySDC.core.Hooks import hooks
class monitor_and_dump(hooks):
def __init__(self):
"""
Initialization of Allen-Cahn monitoring
"""
super(monitor_and_dump, self).__init__()
self.init_radius = None
self.ndim = ... | 7,672 | 33.254464 | 101 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AC_Temperatur_benchmark.py | import sys
import numpy as np
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.pmesh.AllenCahn_Temperature_... | 5,148 | 34.756944 | 116 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_PMESH_NEW.py | import numpy as np
from mpi4py import MPI
from pmesh.pm import ParticleMesh
from pySDC.core.Errors import ParameterError, ProblemError
from pySDC.core.Problem import ptype
from pySDC.playgrounds.pmesh.PMESH_datatype_NEW import pmesh_datatype, rhs_imex_pmesh
class allencahn_imex(ptype):
"""
Example implementi... | 10,466 | 34.969072 | 120 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/TransferMesh_PMESH.py | from pySDC.core.Errors import TransferError
from pySDC.core.SpaceTransfer import space_transfer
from pySDC.playgrounds.pmesh.PMESH_datatype import pmesh_datatype, rhs_imex_pmesh
import time
class pmesh_to_pmesh(space_transfer):
"""
Custon base_transfer class, implements Transfer.py
This implementation ca... | 4,370 | 39.850467 | 112 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_monitor_and_dump.py | import numpy as np
import json
from mpi4py import MPI
from pySDC.core.Hooks import hooks
class monitor_and_dump(hooks):
def __init__(self):
"""
Initialization of Allen-Cahn monitoring
"""
super(monitor_and_dump, self).__init__()
self.init_radius = None
self.ndim = ... | 7,516 | 33.640553 | 101 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_dump.py | import numpy as np
import json
from mpi4py import MPI
from pySDC.core.Hooks import hooks
class dump(hooks):
def __init__(self):
"""
Initialization of Allen-Cahn monitoring
"""
super(dump, self).__init__()
self.init_radius = None
self.ndim = None
self.comm ... | 3,866 | 31.495798 | 86 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/PMESH_datatype.py | from mpi4py import MPI
import numpy as np
from pySDC.core.Errors import DataError
class pmesh_datatype(object):
"""
Mesh data type with arbitrary dimensions, will contain PMESH values and communicator
Attributes:
values (np.ndarray): contains the ndarray of the values
comm: MPI communica... | 8,399 | 29.882353 | 104 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_PMESH.py | import numpy as np
from mpi4py import MPI
from pmesh.pm import ParticleMesh
from pySDC.core.Errors import ParameterError, ProblemError
from pySDC.core.Problem import ptype
from pySDC.playgrounds.pmesh.PMESH_datatype import pmesh_datatype, rhs_imex_pmesh
class allencahn_imex(ptype):
"""
Example implementing A... | 10,337 | 35.146853 | 120 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/TransferMesh_PMESH_NEW.py | from pySDC.core.Errors import TransferError
from pySDC.core.SpaceTransfer import space_transfer
from pySDC.playgrounds.pmesh.PMESH_datatype_NEW import pmesh_datatype, rhs_imex_pmesh
import time
class pmesh_to_pmesh(space_transfer):
"""
Custon base_transfer class, implements Transfer.py
This implementatio... | 4,929 | 41.136752 | 112 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AC_2D_application.py | import sys
import numpy as np
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.pmesh.AllenCahn_PMESH import... | 4,568 | 34.146154 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AC_benchmark.py | import sys
import numpy as np
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.pmesh.AllenCahn_PMESH import... | 5,136 | 34.923077 | 116 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/PMESH_datatype_NEW.py | from mpi4py import MPI
import numpy as np
from pySDC.core.Errors import DataError
class pmesh_datatype(object):
"""
Mesh data type with arbitrary dimensions, will contain PMESH values and communicator
Attributes:
values (np.ndarray): contains the ndarray of the values
comm: MPI communica... | 8,401 | 30.00369 | 104 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AC_2D_application_NEW.py | import sys
import numpy as np
from mpi4py import MPI
from pySDC.helpers.stats_helper import get_sorted
from pySDC.implementations.controller_classes.controller_MPI import controller_MPI
from pySDC.implementations.sweeper_classes.imex_1st_order import imex_1st_order
from pySDC.playgrounds.pmesh.AllenCahn_PMESH_NEW im... | 4,578 | 34.223077 | 110 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/visualize_Temperature.py | import json
import glob
import numpy as np
import matplotlib
matplotlib.use('TkAgg')
import matplotlib.pyplot as plt
import imageio
def plot_data(name=''):
"""
Visualization using numpy arrays (written via MPI I/O) and json description
Produces one png file per time-step, combine as movie via e.g.
... | 3,225 | 27.052174 | 82 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/__init__.py | 0 | 0 | 0 | py | |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/shift_test.py | import numpy as np
from scipy.signal import resample
ratio = 2
nvars = 2048
cnvars = int(nvars / ratio)
xvalues = np.array([i * 1 / nvars - 0.5 for i in range(nvars)])
uexf = 0.5 * (1 + np.tanh((0.25 - abs(xvalues)) / (np.sqrt(2) * 0.04)))
xvalues = np.array([i * 1 / cnvars - 0.5 for i in range(cnvars)])
uexc = 0.5 *... | 702 | 26.038462 | 71 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_Temperatur_monitor_and_dump.py | import numpy as np
import json
from mpi4py import MPI
from pySDC.core.Hooks import hooks
class monitor_and_dump(hooks):
def __init__(self):
"""
Initialization of Allen-Cahn monitoring
"""
super(monitor_and_dump, self).__init__()
self.init_radius = None
self.ndim = ... | 7,536 | 33.732719 | 101 | py |
pySDC | pySDC-master/pySDC/playgrounds/deprecated/pmesh/AllenCahn_dump_NEW.py | import numpy as np
import json
from mpi4py import MPI
from pySDC.core.Hooks import hooks
class dump(hooks):
def __init__(self):
"""
Initialization of Allen-Cahn monitoring
"""
super(dump, self).__init__()
self.init_radius = None
self.ndim = None
self.comm ... | 4,104 | 31.322835 | 86 | py |
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