Index

A

Action (class in bdld.actions.action) add (bdld.actions.birth_death.ApproxVariant attribute) add() (bdld.histogram.Histogram method) add_particle() (bdld.actions.bussi_parinello_ld.BussiParinelloLD method) all_positive (bdld.inputparser.Input attribute)

apply_boundary_condition_periodic() (bdld.potential.potential.Potential method) apply_boundary_condition_reflective() (bdld.potential.potential.Potential method) ApproxVariant (class in bdld.actions.birth_death) at_most_3dim (bdld.inputparser.Input attribute) axes() (bdld.grid.Grid method) (bdld.histogram.Histogram method)

B

bd_prob_density() (in module bdld.main) bdld module bdld.actions module bdld.actions.action module bdld.actions.birth_death module bdld.actions.bussi_parinello_ld module bdld.actions.delta_f_action module bdld.actions.fes_action module bdld.actions.histogram_action module bdld.actions.trajectory_action module bdld.grid module bdld.histogram module

bdld.inputparser module bdld.main module bdld.particle module bdld.potential module bdld.potential.mueller_brown module bdld.potential.polynomial module bdld.potential.potential module bin_centers() (bdld.histogram.Histogram method) BirthDeath (class in bdld.actions.birth_death) BirthDeath.Stats (class in bdld.actions.birth_death) boundary_condition (bdld.potential.potential.Potential property) BoundaryCondition (class in bdld.potential.potential) BpldParticle (class in bdld.actions.bussi_parinello_ld) BussiParinelloLD (class in bdld.actions.bussi_parinello_ld)

C

calc_additive_correction() (in module bdld.actions.birth_death) calc_betas() (bdld.actions.birth_death.BirthDeath method) calc_kernel() (in module bdld.actions.birth_death) calculate_delta_f() (in module bdld.actions.delta_f_action) calculate_fes() (in module bdld.actions.fes_action) calculate_probability_density() (bdld.potential.potential.Potential method)

calculate_reference() (bdld.potential.potential.Potential method) check_mask_shapes() (in module bdld.actions.delta_f_action) clear() (bdld.histogram.Histogram method) coefficients_from_file() (in module bdld.potential.polynomial) Condition (class in bdld.inputparser) convolve() (in module bdld.grid) copy_empty() (bdld.grid.Grid method)

D

data (bdld.grid.Grid property) DeltaFAction (class in bdld.actions.delta_f_action)

dens_kernel_convolution() (in module bdld.actions.birth_death) do_birth_death() (bdld.actions.birth_death.BirthDeath method)

E

energy() (bdld.potential.mueller_brown.MuellerBrownPotential method) (bdld.potential.polynomial.PolynomialPotential method) (bdld.potential.potential.Potential method)

evaluate() (bdld.potential.mueller_brown.MuellerBrownPotential method) (bdld.potential.potential.Potential method) exp() (bdld.grid.Grid method)

F

FesAction (class in bdld.actions.fes_action) final_run() (bdld.actions.action.Action method) (bdld.actions.birth_death.BirthDeath method) (bdld.actions.delta_f_action.DeltaFAction method) (bdld.actions.fes_action.FesAction method) (bdld.actions.histogram_action.HistogramAction method) (bdld.actions.trajectory_action.TrajectoryAction method)

force() (bdld.potential.mueller_brown.MuellerBrownPotential method) (bdld.potential.polynomial.PolynomialPotential method) (bdld.potential.potential.Potential method) from_npoints() (in module bdld.grid) from_stepsizes() (in module bdld.grid) from_str() (bdld.actions.birth_death.ApproxVariant class method)

G

get_all_numbered_values() (in module bdld.inputparser) get_fields() (bdld.potential.potential.Potential method)

get_traj_data() (bdld.actions.histogram_action.HistogramAction method) get_valid_data() (in module bdld.actions.action) Grid (class in bdld.grid)

H

Histogram (class in bdld.histogram)

HistogramAction (class in bdld.actions.histogram_action)

I

init_logger() (in module bdld.main) init_momentum() (bdld.particle.Particle method) init_particles() (in module bdld.main)

Input (class in bdld.inputparser) InputOption (class in bdld.inputparser) interpolate() (bdld.grid.Grid method)

L

log() (bdld.grid.Grid method)

M

main() (in module bdld.main) min_max_to_ranges() (in module bdld.inputparser) module bdld bdld.actions bdld.actions.action bdld.actions.birth_death bdld.actions.bussi_parinello_ld bdld.actions.delta_f_action bdld.actions.fes_action bdld.actions.histogram_action bdld.actions.trajectory_action bdld.grid bdld.histogram bdld.inputparser bdld.main bdld.particle bdld.potential bdld.potential.mueller_brown bdld.potential.polynomial bdld.potential.potential

MuellerBrownPotential (class in bdld.potential.mueller_brown) mult (bdld.actions.birth_death.ApproxVariant attribute)

N

nd_trapz() (in module bdld.actions.birth_death)

numbered_state_options() (in module bdld.inputparser)

O

OptionError

orig (bdld.actions.birth_death.ApproxVariant attribute)

P

parse() (bdld.inputparser.InputOption method) parse_all() (bdld.inputparser.Input method) parse_birth_death() (bdld.inputparser.Input method) parse_delta_f() (bdld.inputparser.Input method) parse_fes() (bdld.inputparser.Input method) parse_histogram() (bdld.inputparser.Input method) parse_ld() (bdld.inputparser.Input method) parse_particle_distribution() (bdld.inputparser.Input method) parse_particles() (bdld.inputparser.Input method) parse_potential() (bdld.inputparser.Input method) parse_section() (bdld.inputparser.Input static method)

parse_trajectories() (bdld.inputparser.Input method) Particle (class in bdld.particle) perform_moves() (bdld.actions.birth_death.BirthDeath method) periodic (bdld.potential.potential.BoundaryCondition attribute) plot() (bdld.actions.fes_action.FesAction method) plot_fes() (in module bdld.actions.fes_action) points() (bdld.grid.Grid method) PolynomialPotential (class in bdld.potential.polynomial) positive (bdld.inputparser.Input attribute) positive_or_zero (bdld.inputparser.Input attribute) Potential (class in bdld.potential.potential) print() (bdld.actions.birth_death.BirthDeath.Stats method)

R

random_other() (bdld.actions.birth_death.BirthDeath method) reflective (bdld.potential.potential.BoundaryCondition attribute) remove_particle() (bdld.actions.bussi_parinello_ld.BussiParinelloLD method) reset() (bdld.actions.birth_death.BirthDeath.Stats method) run() (bdld.actions.action.Action method) (bdld.actions.birth_death.BirthDeath method) (bdld.actions.bussi_parinello_ld.BussiParinelloLD method) (bdld.actions.delta_f_action.DeltaFAction method) (bdld.actions.fes_action.FesAction method) (bdld.actions.histogram_action.HistogramAction method) (bdld.actions.trajectory_action.TrajectoryAction method)

S

save_fig_interactive() (in module bdld.actions.fes_action) SectionError set_from_func() (bdld.grid.Grid method) set_polyval() (bdld.potential.polynomial.PolynomialPotential method) setup_birth_death() (in module bdld.main) setup_delta_f() (in module bdld.main) setup_fes() (in module bdld.main)

setup_histogram() (in module bdld.main) setup_ld() (in module bdld.main) setup_particle_distribution() (in module bdld.main) setup_potential() (in module bdld.main) setup_trajectories() (in module bdld.main) sparsify() (in module bdld.grid) stepsizes_from_npoints() (in module bdld.grid)

T

TrajectoryAction (class in bdld.actions.trajectory_action)

W

walker_density() (in module bdld.actions.birth_death) walker_density_grid() (bdld.actions.birth_death.BirthDeath method) write() (bdld.actions.delta_f_action.DeltaFAction method) (bdld.actions.fes_action.FesAction method) (bdld.actions.histogram_action.HistogramAction method) (bdld.actions.trajectory_action.TrajectoryAction method)

write_to_file() (bdld.grid.Grid method)