Index

_

__init__() (sarkas.core.Parameters method) (sarkas.potentials.core.Potential method) (sarkas.processes.PostProcess method) (sarkas.processes.PreProcess method) (sarkas.processes.Process method) (sarkas.processes.Simulation method) (sarkas.time_evolution.integrators.Integrator method) (sarkas.time_evolution.thermostats.Thermostat method) (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.tools.transport.TransportCoefficients method) (sarkas.utilities.io.InputOutput method) (sarkas.utilities.timing.SarkasTimer method)

A

absorbing_bc() (sarkas.time_evolution.integrators.Integrator method) algorithm_info() (sarkas.utilities.io.InputOutput static method) AlgorithmError AlgorithmWarning

alpha_to_int() (in module sarkas.utilities.io) analytical_approx_pppm() (sarkas.processes.PreProcess method) arg_update_doc() (in module sarkas.tools.observables) average_slices_data() (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method)

B

betamp() (in module sarkas.utilities.maths)

boundary_condition_setup() (sarkas.time_evolution.integrators.Integrator method)

C

calc_coupling_constant() (sarkas.core.Parameters method) calc_diff_flux_acf() (in module sarkas.tools.observables) calc_electron_properties() (sarkas.core.Parameters method) (sarkas.potentials.core.Potential static method) calc_k_data() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) calc_kt_data() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) calc_magnetic_parameters() (sarkas.core.Parameters method) calc_moments() (in module sarkas.tools.observables) calc_nkt() (in module sarkas.tools.observables) calc_parameters() (sarkas.core.Parameters method) calc_pressure_tensor() (in module sarkas.tools.observables) calc_screening_length() (sarkas.potentials.core.Potential method) calc_Skw() (in module sarkas.tools.observables) calc_slices_data() (sarkas.tools.observables.VelocityAutoCorrelationFunction method) calc_vacf() (in module sarkas.tools.observables) calc_vkt() (in module sarkas.tools.observables) calculate_herm_coeff() (in module sarkas.tools.observables) calculate_run_slices_data() (sarkas.tools.observables.ElectricCurrent method) check_restart() (sarkas.processes.Simulation method) check_units() (sarkas.core.Parameters method) col_mapper() (in module sarkas.tools.observables) common_parser() (sarkas.processes.PostProcess method) (sarkas.processes.PreProcess method) (sarkas.processes.Process method) (sarkas.processes.Simulation method)

compute() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) compute_doc() (in module sarkas.tools.observables) compute_from_rdf() (sarkas.tools.observables.Thermodynamics method) compute_hermite_expansion() (sarkas.tools.observables.VelocityDistribution method) compute_moments() (sarkas.tools.observables.VelocityDistribution method) compute_sum_rule_integrals() (sarkas.tools.observables.RadialDistributionFunction method) convert_bytes() (in module sarkas.utilities.io) copy_params() (sarkas.potentials.core.Potential method) (sarkas.time_evolution.integrators.Integrator method) (sarkas.utilities.io.InputOutput method) correlationfunction() (in module sarkas.utilities.maths) create_dir() (sarkas.tools.transport.TransportCoefficients method) create_dirs_filenames() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) create_distribution() (sarkas.tools.observables.VelocityDistribution method) create_file_paths() (sarkas.utilities.io.InputOutput method) create_hexagonal_lattice() (in module sarkas.potentials.tests.test_force_pp) create_species_arrays() (sarkas.core.Parameters method) current() (sarkas.utilities.timing.SarkasTimer static method) CurrentCorrelationFunction (class in sarkas.tools.observables) cyclotronic() (sarkas.time_evolution.integrators.Integrator method) cyclotronic_zdir() (sarkas.time_evolution.integrators.Integrator method)

D

df_column_names() (sarkas.tools.observables.PressureTensor method) diffusion() (sarkas.tools.transport.TransportCoefficients method) DiffusionFlux (class in sarkas.tools.observables)

dump() (sarkas.utilities.io.InputOutput method) dump_xyz() (sarkas.utilities.io.InputOutput method) DynamicStructureFactor (class in sarkas.tools.observables)

E

electrical_conductivity() (sarkas.tools.transport.TransportCoefficients method) ElectricCurrent (class in sarkas.tools.observables) equilibrate() (sarkas.processes.Simulation method)

evolve_loop() (sarkas.processes.PostProcess method) (sarkas.processes.PreProcess method) (sarkas.processes.Process method) (sarkas.processes.Simulation method)

F

fd_doc_hparams() (in module sarkas.utilities.fdints) fd_doc_iparams() (in module sarkas.utilities.fdints) fermidirac_integral() (in module sarkas.utilities.fdints) file_header() (sarkas.utilities.io.InputOutput method) force_error_analytic_lcl() (in module sarkas.utilities.maths) force_error_analytic_pp() (in module sarkas.utilities.maths) force_error_approx_pm() (in module sarkas.utilities.maths) force_error_approx_pppm() (in module sarkas.utilities.maths) from_dict() (sarkas.core.Parameters method) (sarkas.potentials.core.Potential method) (sarkas.time_evolution.integrators.Integrator method) (sarkas.time_evolution.thermostats.Thermostat method) (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.utilities.io.InputOutput method)

from_yaml() (sarkas.utilities.io.InputOutput method)

G

grab_sim_data() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method)

grad_expansion() (in module sarkas.tools.observables) green_function_timer() (sarkas.processes.PreProcess method)

I

initialization() (sarkas.processes.PostProcess method) (sarkas.processes.PreProcess method) (sarkas.processes.Process method) (sarkas.processes.Simulation method)

InputOutput (class in sarkas.utilities.io) Integrator (class in sarkas.time_evolution.integrators) interdiffusion() (sarkas.tools.transport.TransportCoefficients method)

K

kspace_setup() (in module sarkas.tools.observables)

L

langevin() (sarkas.time_evolution.integrators.Integrator method)

load_from_restart() (in module sarkas.tools.observables)

M

magnetic_boris() (sarkas.time_evolution.integrators.Integrator method) magnetic_boris_zdir() (sarkas.time_evolution.integrators.Integrator method) magnetic_helpers() (sarkas.time_evolution.integrators.Integrator method) magnetic_pos_verlet() (sarkas.time_evolution.integrators.Integrator method) magnetic_pos_verlet_zdir() (sarkas.time_evolution.integrators.Integrator method) magnetic_setup() (sarkas.time_evolution.integrators.Integrator method) magnetic_verlet() (sarkas.time_evolution.integrators.Integrator method) magnetic_verlet_zdir() (sarkas.time_evolution.integrators.Integrator method) magnetize() (sarkas.processes.Simulation method) make_color_map() (sarkas.processes.PreProcess method) make_directories() (sarkas.utilities.io.InputOutput method) make_fit_plot() (sarkas.processes.PreProcess static method) make_force_v_timing_plot() (sarkas.processes.PreProcess method) make_lagrangian_plot() (sarkas.processes.PreProcess method) make_line_plot() (sarkas.processes.PreProcess method) make_pppm_color_map() (sarkas.processes.PreProcess method) make_pppm_line_plot() (sarkas.processes.PreProcess method) make_timing_plots() (sarkas.processes.PreProcess method) method_pretty_print() (sarkas.potentials.core.Potential method) method_setup() (sarkas.potentials.core.Potential method) module sarkas.core sarkas.potentials sarkas.potentials.core sarkas.potentials.coulomb sarkas.potentials.egs sarkas.potentials.force_pm sarkas.potentials.force_pp sarkas.potentials.hs_yukawa sarkas.potentials.lennardjones sarkas.potentials.moliere sarkas.potentials.qsp sarkas.potentials.tests sarkas.potentials.tests.test_coulomb sarkas.potentials.tests.test_egs sarkas.potentials.tests.test_force_pm sarkas.potentials.tests.test_force_pp sarkas.potentials.tests.test_lennardjones sarkas.potentials.tests.test_moliere sarkas.potentials.tests.test_qsp sarkas.potentials.tests.test_yukawa sarkas.potentials.yukawa sarkas.processes sarkas.time_evolution sarkas.time_evolution.integrators sarkas.time_evolution.thermostats sarkas.tools sarkas.tools.observables sarkas.tools.transport sarkas.utilities sarkas.utilities.exceptions sarkas.utilities.fdints sarkas.utilities.io sarkas.utilities.maths sarkas.utilities.tests sarkas.utilities.tests.test_fdints sarkas.utilities.tests.test_maths sarkas.utilities.timing

N

normality_tests() (sarkas.tools.observables.VelocityDistribution method)

num_sort() (in module sarkas.utilities.io)

O

Observable (class in sarkas.tools.observables)

open_bc() (sarkas.time_evolution.integrators.Integrator method)

P

Parameters (class in sarkas.core) parse() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.tools.transport.TransportCoefficients method) parse_k_data() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) parse_kt_data() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) ParticlesError ParticlesWarning periodic_bc() (sarkas.time_evolution.integrators.Integrator method) PhysicsWarning plot() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method)

plot_labels() (in module sarkas.tools.observables) plot_tc() (sarkas.tools.transport.TransportCoefficients method) postproc_estimates() (sarkas.processes.PreProcess method) PostProcess (class in sarkas.processes) postprocess_info() (sarkas.utilities.io.InputOutput method) pot_acc_setup() (sarkas.time_evolution.integrators.Integrator method) Potential (class in sarkas.potentials.core) potential_info() (sarkas.utilities.io.InputOutput static method) pppm_approximation() (sarkas.processes.PreProcess method) pppm_setup() (sarkas.potentials.core.Potential method) prepare_histogram_args() (sarkas.tools.observables.VelocityDistribution method) PreProcess (class in sarkas.processes) preprocess_sizing() (sarkas.utilities.io.InputOutput method) preprocess_timing() (sarkas.utilities.io.InputOutput method) PressureTensor (class in sarkas.tools.observables) pretty_print() (sarkas.core.Parameters method) (sarkas.potentials.core.Potential method) (sarkas.time_evolution.integrators.Integrator method) (sarkas.time_evolution.thermostats.Thermostat method) (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.tools.transport.TransportCoefficients method) pretty_print_info() (in module sarkas.potentials.coulomb) (in module sarkas.potentials.egs) (in module sarkas.potentials.hs_yukawa) (in module sarkas.potentials.lennardjones) (in module sarkas.potentials.qsp) (in module sarkas.potentials.yukawa) Process (class in sarkas.processes) produce() (sarkas.processes.Simulation method)

R

RadialDistributionFunction (class in sarkas.tools.observables) read_npz() (sarkas.utilities.io.InputOutput static method) read_pickle() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.utilities.io.InputOutput method)

read_pickle_single() (sarkas.utilities.io.InputOutput method) reflecting_bc() (sarkas.time_evolution.integrators.Integrator method) remove_preproc_dumps() (sarkas.processes.PreProcess method) run() (sarkas.processes.PostProcess method) (sarkas.processes.PreProcess method) (sarkas.processes.Simulation method)

S

sarkas.core module sarkas.potentials module sarkas.potentials.core module sarkas.potentials.coulomb module sarkas.potentials.egs module sarkas.potentials.force_pm module sarkas.potentials.force_pp module sarkas.potentials.hs_yukawa module sarkas.potentials.lennardjones module sarkas.potentials.moliere module sarkas.potentials.qsp module sarkas.potentials.tests module sarkas.potentials.tests.test_coulomb module sarkas.potentials.tests.test_egs module sarkas.potentials.tests.test_force_pm module sarkas.potentials.tests.test_force_pp module sarkas.potentials.tests.test_lennardjones module sarkas.potentials.tests.test_moliere module sarkas.potentials.tests.test_qsp module sarkas.potentials.tests.test_yukawa module sarkas.potentials.yukawa module sarkas.processes module sarkas.time_evolution module sarkas.time_evolution.integrators module sarkas.time_evolution.thermostats module sarkas.tools module sarkas.tools.observables module sarkas.tools.transport module sarkas.utilities module sarkas.utilities.exceptions module sarkas.utilities.fdints module sarkas.utilities.io module sarkas.utilities.maths module sarkas.utilities.tests module sarkas.utilities.tests.test_fdints module sarkas.utilities.tests.test_maths module sarkas.utilities.timing module SarkasError SarkasTimer (class in sarkas.utilities.timing) SarkasWarning

save_hdf() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.tools.transport.TransportCoefficients method) save_pickle() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.utilities.io.InputOutput method) screen_figlet() (sarkas.utilities.io.InputOutput static method) set_species_attributes() (sarkas.core.Parameters method) setup() (sarkas.core.Parameters method) (sarkas.potentials.core.Potential method) (sarkas.processes.PostProcess method) (sarkas.processes.PreProcess method) (sarkas.processes.Process method) (sarkas.processes.Simulation method) (sarkas.time_evolution.integrators.Integrator method) (sarkas.time_evolution.thermostats.Thermostat method) (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.utilities.io.InputOutput method) setup_checkpoint() (sarkas.utilities.io.InputOutput method) setup_doc() (in module sarkas.tools.observables) setup_from_simulation() (sarkas.processes.PostProcess method) setup_init() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) setup_multirun_dirs() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) sim_box_setup() (sarkas.core.Parameters method) Simulation (class in sarkas.processes) simulation_summary() (sarkas.utilities.io.InputOutput method) start() (sarkas.utilities.timing.SarkasTimer method) StaticStructureFactor (class in sarkas.tools.observables) stop() (sarkas.utilities.timing.SarkasTimer method) sum_rule() (sarkas.tools.observables.PressureTensor method)

T

temp_energy_plot() (sarkas.tools.observables.Thermodynamics method) test_assignment_function() (in module sarkas.potentials.tests.test_force_pm) test_calc_charge_dens() (in module sarkas.potentials.tests.test_force_pm) test_coulomb_force() (in module sarkas.potentials.tests.test_coulomb) test_coulomb_force_pppm() (in module sarkas.potentials.tests.test_coulomb) test_create_cells_array() (in module sarkas.potentials.tests.test_force_pp) test_create_head_list_arrays() (in module sarkas.potentials.tests.test_force_pp) test_create_k_arrays() (in module sarkas.potentials.tests.test_force_pm) test_crete_k_arrays_2D() (in module sarkas.potentials.tests.test_force_pm) test_egs_force() (in module sarkas.potentials.tests.test_egs) test_fd0h() (in module sarkas.utilities.tests.test_fdints) test_fd10h() (in module sarkas.utilities.tests.test_fdints) test_fd11h() (in module sarkas.utilities.tests.test_fdints) test_fd12h() (in module sarkas.utilities.tests.test_fdints) test_fd13h() (in module sarkas.utilities.tests.test_fdints) test_fd14h() (in module sarkas.utilities.tests.test_fdints) test_fd15h() (in module sarkas.utilities.tests.test_fdints) test_fd16h() (in module sarkas.utilities.tests.test_fdints) test_fd17h() (in module sarkas.utilities.tests.test_fdints) test_fd18h() (in module sarkas.utilities.tests.test_fdints) test_fd19h() (in module sarkas.utilities.tests.test_fdints) test_fd1h() (in module sarkas.utilities.tests.test_fdints) test_fd20h() (in module sarkas.utilities.tests.test_fdints) test_fd21h() (in module sarkas.utilities.tests.test_fdints) test_fd2h() (in module sarkas.utilities.tests.test_fdints) test_fd3h() (in module sarkas.utilities.tests.test_fdints) test_fd4h() (in module sarkas.utilities.tests.test_fdints) test_fd5h() (in module sarkas.utilities.tests.test_fdints) test_fd6h() (in module sarkas.utilities.tests.test_fdints) test_fd7h() (in module sarkas.utilities.tests.test_fdints) test_fd8h() (in module sarkas.utilities.tests.test_fdints) test_fd9h() (in module sarkas.utilities.tests.test_fdints) test_fdm1h() (in module sarkas.utilities.tests.test_fdints) test_fdm3h() (in module sarkas.utilities.tests.test_fdints) test_fdm5h() (in module sarkas.utilities.tests.test_fdints) test_fdm7h() (in module sarkas.utilities.tests.test_fdints) test_fdm9h() (in module sarkas.utilities.tests.test_fdints)

test_fermidirac_integral() (in module sarkas.utilities.tests.test_fdints) test_fogf() (in module sarkas.potentials.tests.test_force_pm) test_invfd1h() (in module sarkas.utilities.tests.test_fdints) test_lj_force() (in module sarkas.potentials.tests.test_lennardjones) test_lj_force_analytic_lcl() (in module sarkas.utilities.tests.test_maths) test_moliere_force() (in module sarkas.potentials.tests.test_moliere) test_moliere_force_analytic_lcl() (in module sarkas.utilities.tests.test_maths) test_yukawa_force() (in module sarkas.potentials.tests.test_yukawa) test_yukawa_force_analytic_lcl() (in module sarkas.utilities.tests.test_maths) test_yukawa_force_pppm() (in module sarkas.potentials.tests.test_yukawa) test_yukawa_gk() (in module sarkas.utilities.tests.test_maths) Thermodynamics (class in sarkas.tools.observables) Thermostat (class in sarkas.time_evolution.thermostats) thermostat_setup() (sarkas.time_evolution.integrators.Integrator method) thermostate() (sarkas.time_evolution.integrators.Integrator method) time_acceleration() (sarkas.processes.PreProcess method) time_division() (sarkas.utilities.timing.SarkasTimer static method) time_evolution_loop() (sarkas.processes.PreProcess method) time_info() (sarkas.utilities.io.InputOutput static method) time_n_space_estimates() (sarkas.processes.PreProcess method) time_stamp() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) (sarkas.utilities.io.InputOutput method) TimerError timing_study() (sarkas.utilities.io.InputOutput method) timing_study_calculation() (sarkas.processes.PreProcess method) TransportCoefficients (class in sarkas.tools.transport) type_setup() (sarkas.potentials.core.Potential method) (sarkas.time_evolution.integrators.Integrator method)

U

update() (sarkas.time_evolution.thermostats.Thermostat method) update_args() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method) update_brute() (sarkas.potentials.core.Potential method) update_finish() (sarkas.tools.observables.CurrentCorrelationFunction method) (sarkas.tools.observables.DiffusionFlux method) (sarkas.tools.observables.DynamicStructureFactor method) (sarkas.tools.observables.ElectricCurrent method) (sarkas.tools.observables.Observable method) (sarkas.tools.observables.PressureTensor method) (sarkas.tools.observables.RadialDistributionFunction method) (sarkas.tools.observables.StaticStructureFactor method) (sarkas.tools.observables.Thermodynamics method) (sarkas.tools.observables.VelocityAutoCorrelationFunction method) (sarkas.tools.observables.VelocityDistribution method)

update_fmm_coulomb() (sarkas.potentials.core.Potential method) update_fmm_yukawa() (sarkas.potentials.core.Potential method) update_linked_list() (sarkas.potentials.core.Potential method) update_params() (in module sarkas.potentials.coulomb) (in module sarkas.potentials.egs) (in module sarkas.potentials.hs_yukawa) (in module sarkas.potentials.lennardjones) (in module sarkas.potentials.moliere) (in module sarkas.potentials.qsp) (in module sarkas.potentials.yukawa) update_pm() (sarkas.potentials.core.Potential method) update_pppm() (sarkas.potentials.core.Potential method)

V

VelocityAutoCorrelationFunction (class in sarkas.tools.observables) VelocityDistribution (class in sarkas.tools.observables)

verlet() (sarkas.time_evolution.integrators.Integrator method) viscosity() (sarkas.tools.transport.TransportCoefficients method)

Y

yukawa_green_function() (in module sarkas.utilities.maths)