Index

A

abspath() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) acceptance_rate() (bumps.dream.state.MCMCDraw method) accumulate() (bumps.history.History method) (bumps.history.Trace method) acos() (in module bumps.pmath) acosd() (in module bumps.parameter) (in module bumps.pmath) acosh() (in module bumps.pmath) ACR() (in module bumps.dream.acr) adapt() (bumps.dream.crossover.AdaptiveCrossover method) (bumps.dream.crossover.BaseAdaptiveCrossover method) (bumps.dream.crossover.Crossover method) (bumps.dream.crossover.LogAdaptiveCrossover method) AdaptiveCrossover (class in bumps.dream.crossover) Alias (class in bumps.parameter) alpha (bumps.dream.core.Dream attribute) (bumps.options.BumpsOpts attribute) AMQPMapper (class in bumps.mapper) apply() (bumps.dream.bounds.Bounds method) (bumps.dream.bounds.ClipBounds method) (bumps.dream.bounds.FoldBounds method) (bumps.dream.bounds.IgnoreBounds method) (bumps.dream.bounds.RandomBounds method) (bumps.dream.bounds.ReflectBounds method) arccos() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) arccosd() (in module bumps.parameter) arccosh() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) arcsin() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method)

arcsind() (in module bumps.parameter) arcsinh() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) arctan() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) arctan2d() (in module bumps.parameter) arctand() (in module bumps.parameter) arctanh() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) args (bumps.parameter.Function attribute) asin() (in module bumps.pmath) asind() (in module bumps.parameter) (in module bumps.pmath) asinh() (in module bumps.pmath) atan() (in module bumps.pmath) atan2() (in module bumps.pmath) atan2d() (in module bumps.parameter) (in module bumps.pmath) atand() (in module bumps.parameter) (in module bumps.pmath) atanh() (in module bumps.pmath) auto_shift() (in module bumps.plotutil)

B

BaseAdaptiveCrossover (class in bumps.dream.crossover) BaseFitProblem (class in bumps.fitproblem) BaseParameter (class in bumps.parameter) best() (bumps.dream.state.MCMCDraw method) BFGSFit (class in bumps.fitters) Bounded (class in bumps.bounds) BoundedAbove (class in bumps.bounds) BoundedBelow (class in bumps.bounds) BoundedNormal (class in bumps.bounds) bounds (bumps.dream.model.Density attribute) (bumps.dream.model.LogDensity attribute) (bumps.dream.model.MCMCModel attribute) (bumps.dream.model.Mixture attribute) (bumps.dream.model.MVNormal attribute) (bumps.dream.model.Simulation attribute) (bumps.fitters.DreamModel attribute) Bounds (class in bumps.bounds) (class in bumps.dream.bounds) bounds() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.parameter.BaseParameter property) (bumps.parameter.Constant property) (bumps.parameter.Function property) (bumps.parameter.IntegerParameter property) (bumps.parameter.OperatorAdd property) (bumps.parameter.OperatorDiv property) (bumps.parameter.OperatorMul property) (bumps.parameter.OperatorPow property) (bumps.parameter.OperatorSub property) (bumps.parameter.Parameter property) (bumps.parameter.Reference property) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) bounds_style (bumps.dream.core.Dream attribute) boxed_function() (in module bumps.parameter) bspline() (in module bumps.bspline) bumps.bounds module bumps.bspline module bumps.cheby module bumps.cli module bumps.curve module bumps.data module bumps.dream.acr module bumps.dream.bounds module bumps.dream.core module bumps.dream.corrplot module bumps.dream.crossover module bumps.dream.diffev module bumps.dream.entropy module bumps.dream.exppow module bumps.dream.formatnum module bumps.dream.gelman module bumps.dream.geweke module bumps.dream.initpop module bumps.dream.ksmirnov module

bumps.dream.mahal module bumps.dream.metropolis module bumps.dream.model module bumps.dream.outliers module bumps.dream.state module bumps.dream.stats module bumps.dream.tile module bumps.dream.util module bumps.dream.varplot module bumps.dream.views module bumps.errplot module bumps.fitproblem module bumps.fitservice module bumps.fitters module bumps.formatnum module bumps.history module bumps.initpop module bumps.lsqerror module bumps.mapper module bumps.monitor module bumps.mono module bumps.names module bumps.options module bumps.parameter module bumps.partemp module bumps.pdfwrapper module bumps.plotutil module bumps.plugin module bumps.pmath module bumps.pymcfit module bumps.quasinewton module bumps.random_lines module bumps.simplex module bumps.util module bumps.vfs module bumps.wsolve module BumpsOpts (class in bumps.options) burn (bumps.dream.core.Dream attribute)

C

c_interface (bumps.dream.bounds.Bounds attribute) (bumps.dream.bounds.ClipBounds attribute) (bumps.dream.bounds.FoldBounds attribute) (bumps.dream.bounds.IgnoreBounds attribute) (bumps.dream.bounds.RandomBounds attribute) (bumps.dream.bounds.ReflectBounds attribute) calc_errors() (in module bumps.errplot) (in module bumps.plugin) calc_errors_from_state() (in module bumps.errplot) can_pickle() (in module bumps.mapper) ceil() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) chains() (bumps.dream.state.MCMCDraw method) chdir() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) cheby_approx() (in module bumps.cheby) cheby_coeff() (in module bumps.cheby) cheby_points() (in module bumps.cheby) cheby_val() (in module bumps.cheby) checkpoint (bumps.fitters.CheckpointMonitor attribute) (bumps.options.BumpsOpts attribute) CheckpointMonitor (class in bumps.fitters) chisq() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.FitDriver method) (bumps.pdfwrapper.DirectProblem method) (bumps.pdfwrapper.PDF method) (bumps.pdfwrapper.VectorPDF method) (bumps.pymcfit.PyMCProblem method) chisq_str() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) (bumps.pdfwrapper.PDF method) (bumps.pdfwrapper.VectorPDF method) (bumps.pymcfit.PyMCProblem method) ChoiceList (class in bumps.options) chol_cov() (in module bumps.lsqerror) chol_stderr() (in module bumps.lsqerror) ci() (bumps.wsolve.LinearModel method) (bumps.wsolve.PolynomialModel method) clear() (bumps.history.History method) clip() (bumps.fitters.FitDriver method) clip_set() (bumps.parameter.IntegerParameter method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) ClipBounds (class in bumps.dream.bounds) coeff (bumps.wsolve.PolynomialModel attribute) comb() (in module bumps.lsqerror) config_history() (bumps.fitservice.ServiceMonitor method) (bumps.fitters.CheckpointMonitor method) (bumps.fitters.ConsoleMonitor method) (bumps.fitters.StepMonitor method) (bumps.monitor.Logger method) (bumps.monitor.Monitor method) (bumps.monitor.TimedUpdate method)

config_matplotlib() (in module bumps.cli) console() (in module bumps.dream.util) ConsoleMonitor (class in bumps.fitters) Constant (class in bumps.parameter) Constraint (class in bumps.parameter) ConstraintEQ (class in bumps.parameter) ConstraintGE (class in bumps.parameter) ConstraintGT (class in bumps.parameter) ConstraintLE (class in bumps.parameter) ConstraintLT (class in bumps.parameter) ConstraintNE (class in bumps.parameter) constraints_nllf() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) coordinated_colors() (in module bumps.plotutil) corr() (in module bumps.lsqerror) Corr2d (class in bumps.dream.corrplot) cos() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) cosd() (in module bumps.parameter) (in module bumps.pmath) cosh() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) count_inflections() (in module bumps.mono) cov() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.FitDriver method) (bumps.fitters.LevenbergMarquardtFit method) (bumps.wsolve.LinearModel property) (bumps.wsolve.PolynomialModel property) cov_entropy() (in module bumps.dream.entropy) cov_init() (in module bumps.dream.initpop) (in module bumps.initpop) CR (bumps.dream.core.Dream attribute) CR_spacing (bumps.dream.core.Dream attribute) CR_weight() (bumps.dream.state.MCMCDraw method) credible_interval() (in module bumps.dream.stats) Crossover (class in bumps.dream.crossover) current() (in module bumps.parameter) Curve (class in bumps.curve)

D

data_view() (in module bumps.plugin) DE_eps (bumps.dream.core.Dream attribute) DE_noise (bumps.dream.core.Dream attribute) DE_pairs (bumps.dream.core.Dream attribute) DE_snooker_rate (bumps.dream.core.Dream attribute) de_step() (in module bumps.dream.diffev) DE_steps (bumps.dream.core.Dream attribute) default() (bumps.parameter.IntegerParameter class method) (bumps.parameter.Parameter class method) (bumps.parameter.Reference class method) DEFit (class in bumps.fitters) degree (bumps.wsolve.PolynomialModel attribute) degrees() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) demo_hessian() (in module bumps.lsqerror) demo_jacobian() (in module bumps.lsqerror) demo_stderr_hilbert() (in module bumps.lsqerror) demo_stderr_perturbed() (in module bumps.lsqerror) Density (class in bumps.dream.model) der() (bumps.wsolve.PolynomialModel method) derive_vars() (bumps.dream.state.MCMCDraw method) dev() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method)

dhsv() (in module bumps.plotutil) DirectProblem (class in bumps.pdfwrapper) discrete (bumps.parameter.BaseParameter attribute) (bumps.parameter.Constant attribute) (bumps.parameter.Function attribute) (bumps.parameter.IntegerParameter attribute) (bumps.parameter.OperatorAdd attribute) (bumps.parameter.OperatorDiv attribute) (bumps.parameter.OperatorMul attribute) (bumps.parameter.OperatorPow attribute) (bumps.parameter.OperatorSub attribute) (bumps.parameter.Parameter attribute) (bumps.parameter.Reference attribute) Distribution (class in bumps.bounds) DoF (bumps.wsolve.LinearModel attribute) (bumps.wsolve.PolynomialModel attribute) DR_scale (bumps.dream.core.Dream attribute) draw() (bumps.dream.state.MCMCDraw method) (in module bumps.dream.util) draws (bumps.dream.core.Dream attribute) Dream (class in bumps.dream.core) DreamFit (class in bumps.fitters) DreamModel (class in bumps.fitters) dvalue() (bumps.parameter.OperatorAdd property) (bumps.parameter.OperatorDiv property) (bumps.parameter.OperatorMul property) (bumps.parameter.OperatorPow property) (bumps.parameter.OperatorSub property)

E

entropy (bumps.options.BumpsOpts attribute) entropy() (bumps.dream.state.MCMCDraw method) (bumps.fitters.DreamFit method) (bumps.fitters.FitDriver method) (in module bumps.dream.entropy) eps_init() (in module bumps.initpop) error_plot() (bumps.fitters.DreamFit method) exists() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) exp() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath)

expm1() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) exppow_pars() (in module bumps.dream.exppow)

F

feasible() (bumps.parameter.IntegerParameter method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) FIELDS (bumps.fitters.StepMonitor attribute) fit() (bumps.fitters.FitDriver method) (bumps.options.BumpsOpts property) (in module bumps.fitters) fit_config (bumps.options.BumpsOpts attribute) FIT_CONFIG (in module bumps.options) FitBase (class in bumps.fitters) FitConfig (class in bumps.options) FitDriver (class in bumps.fitters) Fitness (class in bumps.fitproblem) FitProblem() (in module bumps.fitproblem) fitservice() (in module bumps.fitservice) fittable (bumps.parameter.BaseParameter attribute) (bumps.parameter.Constant attribute) (bumps.parameter.Function attribute) (bumps.parameter.IntegerParameter attribute) (bumps.parameter.OperatorAdd attribute) (bumps.parameter.OperatorDiv attribute) (bumps.parameter.OperatorMul attribute) (bumps.parameter.OperatorPow attribute) (bumps.parameter.OperatorSub attribute) (bumps.parameter.Parameter attribute) (bumps.parameter.Reference attribute) fittable() (in module bumps.parameter) fixed (bumps.parameter.BaseParameter attribute) (bumps.parameter.Constant attribute) (bumps.parameter.Function attribute) (bumps.parameter.IntegerParameter attribute) (bumps.parameter.OperatorAdd attribute) (bumps.parameter.OperatorDiv attribute) (bumps.parameter.OperatorMul attribute) (bumps.parameter.OperatorPow attribute) (bumps.parameter.OperatorSub attribute) (bumps.parameter.Parameter attribute) (bumps.parameter.Reference attribute) FLAGS (bumps.options.BumpsOpts attribute) (bumps.options.ParseOpts attribute) flatten() (in module bumps.parameter) floor() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method)

FoldBounds (class in bumps.dream.bounds) form_quantiles() (in module bumps.plotutil) format() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.parameter) format_uncertainty() (in module bumps.dream.formatnum) (in module bumps.formatnum) format_uncertainty_compact() (in module bumps.dream.formatnum) (in module bumps.formatnum) format_uncertainty_pm() (in module bumps.dream.formatnum) (in module bumps.formatnum) format_value() (in module bumps.dream.formatnum) (in module bumps.formatnum) format_vars() (in module bumps.dream.stats) (in module bumps.dream.views) FreeVariables (class in bumps.parameter) FS (in module bumps.vfs) fs_abspath() (bumps.vfs.VFS method) fs_chdir() (bumps.vfs.VFS method) fs_exists() (bumps.vfs.VFS method) fs_getcwd() (bumps.vfs.VFS method) fs_isdir() (bumps.vfs.VFS method) fs_isfile() (bumps.vfs.VFS method) fs_listdir() (bumps.vfs.VFS method) fs_py3_open() (bumps.vfs.VFS method) fs_realpath() (bumps.vfs.VFS method) Function (class in bumps.parameter) function() (in module bumps.parameter)

G

gelman() (bumps.dream.state.MCMCDraw method) (in module bumps.dream.gelman) generate() (in module bumps.initpop) get01() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) get_model() (bumps.parameter.FreeVariables method) (bumps.parameter.ParameterSet method) getcwd() (bumps.vfs.RealFS method) getfull() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method)

getopts() (in module bumps.options) getp() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) geweke() (in module bumps.dream.geweke) gmm_entropy() (in module bumps.dream.entropy) goalseek_interval (bumps.dream.core.Dream attribute) goalseek_minburn (bumps.dream.core.Dream attribute) goalseek_optimizer (bumps.dream.core.Dream attribute) gradient() (in module bumps.lsqerror)

H

has_residuals (bumps.pdfwrapper.DirectProblem attribute) (bumps.pdfwrapper.PDF attribute) (bumps.pdfwrapper.VectorPDF attribute) has_residuals() (bumps.fitproblem.BaseFitProblem property) (bumps.fitproblem.MultiFitProblem property) hermite() (in module bumps.mono) hessian() (in module bumps.lsqerror) hessian_cov() (in module bumps.lsqerror)

high (bumps.dream.bounds.Bounds attribute) (bumps.dream.bounds.ClipBounds attribute) (bumps.dream.bounds.FoldBounds attribute) (bumps.dream.bounds.IgnoreBounds attribute) (bumps.dream.bounds.RandomBounds attribute) (bumps.dream.bounds.ReflectBounds attribute) hilbert() (in module bumps.lsqerror) hilbertinv() (in module bumps.lsqerror) History (class in bumps.history)

I

id (bumps.fitters.BFGSFit attribute) (bumps.fitters.DEFit attribute) (bumps.fitters.DreamFit attribute) (bumps.fitters.LevenbergMarquardtFit attribute) (bumps.fitters.MPFit attribute) (bumps.fitters.PSFit attribute) (bumps.fitters.PTFit attribute) (bumps.fitters.RLFit attribute) (bumps.fitters.SimplexFit attribute) (bumps.fitters.SnobFit attribute) identify_outliers() (in module bumps.dream.outliers)

IgnoreBounds (class in bumps.dream.bounds) IMPLICIT_VALUES (bumps.options.BumpsOpts attribute) (bumps.options.ParseOpts attribute) indfloat() (in module bumps.data) init_bounds() (in module bumps.bounds) install_plugin() (in module bumps.cli) IntegerParameter (class in bumps.parameter) isdir() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) isfile() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method)

J

jacobian() (in module bumps.lsqerror)

jacobian_cov() (in module bumps.lsqerror)

K

kbhit() (in module bumps.util) keep_best() (bumps.dream.state.MCMCDraw method)

ksmirnov() (in module bumps.dream.ksmirnov) kw (bumps.parameter.Function attribute)

L

labels (bumps.dream.model.Density attribute) (bumps.dream.model.LogDensity attribute) (bumps.dream.model.MCMCModel attribute) (bumps.dream.model.Mixture attribute) (bumps.dream.model.MVNormal attribute) (bumps.dream.model.Simulation attribute) (bumps.fitters.DreamModel attribute) labels() (bumps.dream.state.MCMCDraw property) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) LevenbergMarquardtFit (class in bumps.fitters) lhs_init() (in module bumps.dream.initpop) (in module bumps.initpop) limits (bumps.bounds.Bounded attribute) (bumps.bounds.BoundedAbove attribute) (bumps.bounds.BoundedBelow attribute) (bumps.bounds.BoundedNormal attribute) (bumps.bounds.Bounds attribute) (bumps.bounds.Distribution attribute) (bumps.bounds.Normal attribute) (bumps.bounds.SoftBounded attribute) (bumps.bounds.Unbounded attribute) LinearModel (class in bumps.wsolve) listdir() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) load() (bumps.fitters.DEFit method) (bumps.fitters.DreamFit method) (bumps.fitters.FitDriver method) load_best() (in module bumps.cli) load_history() (in module bumps.fitters) load_model() (in module bumps.cli) (in module bumps.plugin) load_problem() (in module bumps.fitproblem) load_state() (in module bumps.dream.state) log() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath)

log10() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) log1p() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) log_density() (bumps.dream.model.Density method) (bumps.dream.model.LogDensity method) (bumps.dream.model.MCMCModel method) (bumps.dream.model.Mixture method) (bumps.dream.model.MVNormal method) (bumps.dream.model.Simulation method) (bumps.fitters.DreamModel method) LogAdaptiveCrossover (class in bumps.dream.crossover) LogDensity (class in bumps.dream.model) Logger (class in bumps.monitor) logp() (bumps.dream.state.MCMCDraw method) logp_slice() (bumps.dream.state.MCMCDraw method) low (bumps.dream.bounds.Bounds attribute) (bumps.dream.bounds.ClipBounds attribute) (bumps.dream.bounds.FoldBounds attribute) (bumps.dream.bounds.IgnoreBounds attribute) (bumps.dream.bounds.RandomBounds attribute) (bumps.dream.bounds.ReflectBounds attribute)

M

mahalanobis() (in module bumps.dream.mahal) main() (in module bumps.cli) make_bounds_handler() (in module bumps.dream.bounds) manager (bumps.mapper.MPMapper attribute) map() (bumps.dream.model.Density method) (bumps.dream.model.LogDensity method) (bumps.dream.model.MCMCModel method) (bumps.dream.model.Mixture method) (bumps.dream.model.MVNormal method) (bumps.dream.model.Simulation method) (bumps.fitters.DreamModel method) mark_outliers() (bumps.dream.state.MCMCDraw method) max_correlation() (in module bumps.lsqerror) max_tile_size() (in module bumps.dream.tile) MCMCDraw (class in bumps.dream.state) MCMCModel (class in bumps.dream.model) meshsteps (bumps.options.BumpsOpts attribute) metropolis() (in module bumps.dream.metropolis) metropolis_dr() (in module bumps.dream.metropolis) min_slice() (bumps.dream.state.MCMCDraw method) MINARGS (bumps.options.BumpsOpts attribute) (bumps.options.ParseOpts attribute) Mixture (class in bumps.dream.model) model (bumps.dream.core.Dream attribute) model_nllf() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) model_parameters() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) model_points() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) model_reset() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) model_update() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) model_view() (in module bumps.plugin) models() (bumps.fitproblem.MultiFitProblem property) module bumps.bounds bumps.bspline bumps.cheby bumps.cli bumps.curve bumps.data bumps.dream.acr bumps.dream.bounds bumps.dream.core bumps.dream.corrplot bumps.dream.crossover bumps.dream.diffev bumps.dream.entropy bumps.dream.exppow bumps.dream.formatnum bumps.dream.gelman bumps.dream.geweke bumps.dream.initpop bumps.dream.ksmirnov bumps.dream.mahal bumps.dream.metropolis bumps.dream.model bumps.dream.outliers bumps.dream.state bumps.dream.stats bumps.dream.tile bumps.dream.util bumps.dream.varplot bumps.dream.views bumps.errplot bumps.fitproblem bumps.fitservice bumps.fitters bumps.formatnum bumps.history bumps.initpop bumps.lsqerror bumps.mapper bumps.monitor bumps.mono bumps.names bumps.options bumps.parameter bumps.partemp bumps.pdfwrapper bumps.plotutil bumps.plugin bumps.pmath bumps.pymcfit bumps.quasinewton bumps.random_lines bumps.simplex bumps.util bumps.vfs bumps.wsolve

Monitor (class in bumps.monitor) MonitorRunner (class in bumps.fitters) monospline() (in module bumps.mono) MPFit (class in bumps.fitters) MPIMapper (class in bumps.mapper) MPMapper (class in bumps.mapper) MultiFitProblem (class in bumps.fitproblem) MultiStart (class in bumps.fitters) MVNEntropy (class in bumps.dream.entropy) MVNormal (class in bumps.dream.model)

N

name (bumps.fitters.BFGSFit attribute) (bumps.fitters.DEFit attribute) (bumps.fitters.DreamFit attribute) (bumps.fitters.LevenbergMarquardtFit attribute) (bumps.fitters.MPFit attribute) (bumps.fitters.MultiStart attribute) (bumps.fitters.PSFit attribute) (bumps.fitters.PTFit attribute) (bumps.fitters.RLFit attribute) (bumps.fitters.SimplexFit attribute) (bumps.fitters.SnobFit attribute) (bumps.parameter.BaseParameter attribute) (bumps.parameter.Constant attribute) (bumps.parameter.Function attribute) (bumps.parameter.IntegerParameter attribute) (bumps.parameter.OperatorAdd attribute) (bumps.parameter.OperatorDiv attribute) (bumps.parameter.OperatorMul attribute) (bumps.parameter.OperatorPow attribute) (bumps.parameter.OperatorSub attribute) (bumps.parameter.Parameter attribute) (bumps.parameter.Reference attribute) namespace (bumps.mapper.MPMapper attribute) Ncr() (bumps.dream.state.MCMCDraw property) new_model() (in module bumps.plugin) next_color() (in module bumps.plotutil) Ngen() (bumps.dream.state.MCMCDraw property) nice() (in module bumps.mapper) nice_range() (in module bumps.bounds) nllf() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.dream.model.Density method) (bumps.dream.model.LogDensity method) (bumps.dream.model.MCMCModel method) (bumps.dream.model.Mixture method) (bumps.dream.model.MVNormal method) (bumps.dream.model.Simulation method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.DreamModel method) (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (bumps.pdfwrapper.DirectProblem method) (bumps.pdfwrapper.PDF method) (bumps.pdfwrapper.VectorPDF method) (bumps.pymcfit.PyMCProblem method)

noise (bumps.options.BumpsOpts attribute) Normal (class in bumps.bounds) notify (bumps.options.BumpsOpts attribute) Npop() (bumps.dream.state.MCMCDraw property) Nsamples() (bumps.dream.state.MCMCDraw property) Nthin() (bumps.dream.state.MCMCDraw property) numpoints() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.fitproblem.Fitness method) (bumps.pdfwrapper.PDF method) (bumps.pdfwrapper.VectorPDF method) Nupdate() (bumps.dream.state.MCMCDraw property) Nvar() (bumps.dream.state.MCMCDraw property)

O

op (bumps.parameter.Function attribute) open() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) OperatorAdd (class in bumps.parameter) OperatorDiv (class in bumps.parameter)

OperatorMul (class in bumps.parameter) OperatorPow (class in bumps.parameter) OperatorSub (class in bumps.parameter) origin (bumps.wsolve.PolynomialModel attribute) outlier_test (bumps.dream.core.Dream attribute) outliers() (bumps.dream.state.MCMCDraw method)

P

p() (bumps.wsolve.LinearModel property) (bumps.wsolve.PolynomialModel property) parallel (bumps.options.BumpsOpts attribute) parallel_tempering() (in module bumps.partemp) Parameter (class in bumps.parameter) parameter_nllf() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) parameter_residuals() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) parameters() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.fitproblem.Fitness method) (bumps.parameter.Alias method) (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.FreeVariables method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (bumps.pdfwrapper.PDF method) (bumps.pdfwrapper.VectorPDF method) ParameterSet (class in bumps.parameter) pars (bumps.options.BumpsOpts attribute) parse_file() (in module bumps.data) parse_int() (in module bumps.options) parse_tolerance() (in module bumps.fitters) parse_var() (in module bumps.dream.stats) ParseOpts (class in bumps.options) particle_swarm() (in module bumps.random_lines) pbs() (in module bumps.bspline) PDF (class in bumps.pdfwrapper) pdf() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) perturbed_hessian() (in module bumps.lsqerror) pi() (bumps.wsolve.LinearModel method) (bumps.wsolve.PolynomialModel method) plot() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.dream.corrplot.Corr2d method) (bumps.dream.model.Density method) (bumps.dream.model.LogDensity method) (bumps.dream.model.MCMCModel method) (bumps.dream.model.Mixture method) (bumps.dream.model.MVNormal method) (bumps.dream.model.Simulation method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.DreamFit method) (bumps.fitters.DreamModel method) (bumps.fitters.FitDriver method) (bumps.options.BumpsOpts property) (bumps.pdfwrapper.DirectProblem method) (bumps.pdfwrapper.PDF method) (bumps.pdfwrapper.VectorPDF method) (bumps.pymcfit.PyMCProblem method) (bumps.wsolve.PolynomialModel method) plot_all() (in module bumps.dream.views) plot_corr() (in module bumps.dream.views)

plot_corrmatrix() (in module bumps.dream.views) plot_err() (in module bumps.curve) plot_inflections() (in module bumps.mono) plot_logp() (in module bumps.dream.views) plot_quantiles() (in module bumps.plotutil) plot_trace() (in module bumps.dream.views) plot_var() (in module bumps.dream.varplot) plot_vars() (in module bumps.dream.varplot) PLOTTERS (bumps.options.BumpsOpts attribute) pm() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.ParameterSet method) (bumps.parameter.Reference method) (in module bumps.bounds) pm_raw() (in module bumps.bounds) pmp() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.ParameterSet method) (bumps.parameter.Reference method) (in module bumps.bounds) pmp_raw() (in module bumps.bounds) PoissonCurve (class in bumps.curve) PolynomialModel (class in bumps.wsolve) pool (bumps.mapper.MPMapper attribute) popfs() (in module bumps.vfs) population (bumps.dream.core.Dream attribute) preview() (in module bumps.cli) problem_id (bumps.mapper.MPMapper attribute) prod() (in module bumps.pmath) profile() (in module bumps.cheby) (in module bumps.util) provides() (bumps.history.History method) PSFit (class in bumps.fitters) PTFit (class in bumps.fitters) push_seed (class in bumps.util) pushdir (class in bumps.util) pushfs() (in module bumps.vfs) put() (bumps.history.Trace method) put01() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) putfull() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) py2_open (bumps.vfs.RealFS attribute) py2_open() (bumps.vfs.ZipFS method) PyMCProblem (class in bumps.pymcfit)

Q

quasinewton() (in module bumps.quasinewton)

queue (bumps.options.BumpsOpts attribute)

R

R() (bumps.dream.corrplot.Corr2d method) radians() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) random() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) random_init() (in module bumps.initpop) random_lines() (in module bumps.random_lines) RandomBounds (class in bumps.dream.bounds) randomize() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.parameter.IntegerParameter method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) (in module bumps.parameter) range() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.ParameterSet method) (bumps.parameter.Reference method) RealFS (class in bumps.vfs) realpath() (bumps.vfs.RealFS method) (bumps.vfs.ZipFS method) redirect_console (class in bumps.util) Reference (class in bumps.parameter) ReflectBounds (class in bumps.dream.bounds)

register() (in module bumps.fitters) reload_errors() (in module bumps.errplot) remove_outliers() (bumps.dream.state.MCMCDraw method) requires() (bumps.history.History method) (bumps.history.Trace method) Resampler (class in bumps.fitters) reset() (bumps.dream.crossover.AdaptiveCrossover method) (bumps.dream.crossover.BaseAdaptiveCrossover method) (bumps.dream.crossover.Crossover method) (bumps.dream.crossover.LogAdaptiveCrossover method) residual() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) residuals() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.VectorPDF method) resize() (bumps.dream.state.MCMCDraw method) restore() (bumps.history.History method) (bumps.history.Trace method) restore_data() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) resume (bumps.options.BumpsOpts attribute) resynth (bumps.options.BumpsOpts attribute) resynth() (in module bumps.cli) resynth_data() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) RLFit (class in bumps.fitters) rnorm (bumps.wsolve.LinearModel attribute) (bumps.wsolve.PolynomialModel attribute)

S

sample() (bumps.dream.core.Dream method) (bumps.dream.state.MCMCDraw method) save() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.dream.state.MCMCDraw method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.DEFit method) (bumps.fitters.DreamFit method) (bumps.fitters.FitDriver method) save_best() (in module bumps.cli) save_history() (in module bumps.fitters) save_state() (in module bumps.dream.state) seed (bumps.options.BumpsOpts attribute) selected_fitter() (bumps.options.FitConfig property) selected_name() (bumps.options.FitConfig property) selected_values() (bumps.options.FitConfig property) SerialMapper (class in bumps.mapper) ServiceMonitor (class in bumps.fitservice) set() (bumps.parameter.IntegerParameter method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) set_active_model() (bumps.fitproblem.MultiFitProblem method) set_from_cli() (bumps.options.FitConfig method) set_integer_vars() (bumps.dream.state.MCMCDraw method) set_model() (bumps.parameter.FreeVariables method) (bumps.parameter.ParameterSet method) set_mplconfig() (in module bumps.cli) set_visible_vars() (bumps.dream.state.MCMCDraw method) setp() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) setpriority() (in module bumps.mapper) settings (bumps.fitters.BFGSFit attribute) (bumps.fitters.DEFit attribute) (bumps.fitters.DreamFit attribute) (bumps.fitters.LevenbergMarquardtFit attribute) (bumps.fitters.MPFit attribute) (bumps.fitters.MultiStart attribute) (bumps.fitters.PSFit attribute) (bumps.fitters.PTFit attribute) (bumps.fitters.RLFit attribute) (bumps.fitters.SimplexFit attribute) (bumps.fitters.SnobFit attribute) shortest_credible_interval() (in module bumps.dream.stats) show() (bumps.dream.state.MCMCDraw method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.DreamFit method) (bumps.fitters.FitDriver method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) show_cov() (bumps.fitters.FitDriver method) show_entropy() (bumps.fitters.FitDriver method) show_err() (bumps.fitters.FitDriver method) show_errors() (in module bumps.errplot) (in module bumps.plugin) show_improvement() (bumps.fitservice.ServiceMonitor method) (bumps.fitters.CheckpointMonitor method) (bumps.fitters.ConsoleMonitor method) (bumps.monitor.TimedUpdate method) show_progress() (bumps.fitservice.ServiceMonitor method) (bumps.fitters.CheckpointMonitor method) (bumps.fitters.ConsoleMonitor method) (bumps.monitor.TimedUpdate method) simplex() (in module bumps.simplex) SimplexFit (class in bumps.fitters) simulate_data() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) Simulation (class in bumps.dream.model) sin() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) sind() (in module bumps.parameter) (in module bumps.pmath) sinh() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath)

snapshot() (bumps.history.History method) (bumps.history.Trace method) SnobFit (class in bumps.fitters) soft_range() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) SoftBounded (class in bumps.bounds) solve() (bumps.fitters.BFGSFit method) (bumps.fitters.DEFit method) (bumps.fitters.DreamFit method) (bumps.fitters.FitBase method) (bumps.fitters.LevenbergMarquardtFit method) (bumps.fitters.MPFit method) (bumps.fitters.MultiStart method) (bumps.fitters.PSFit method) (bumps.fitters.PTFit method) (bumps.fitters.Resampler method) (bumps.fitters.RLFit method) (bumps.fitters.SimplexFit method) (bumps.fitters.SnobFit method) sqrt() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) stable_best() (bumps.dream.state.MCMCDraw method) start_mapper() (bumps.mapper.AMQPMapper static method) (bumps.mapper.MPIMapper static method) (bumps.mapper.MPMapper static method) (bumps.mapper.SerialMapper static method) start_value() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) start_worker() (bumps.mapper.AMQPMapper static method) (bumps.mapper.MPIMapper static method) (bumps.mapper.MPMapper static method) (bumps.mapper.SerialMapper static method) starts (bumps.options.BumpsOpts attribute) state (bumps.dream.core.Dream attribute) stats() (in module bumps.dream.stats) std() (bumps.wsolve.LinearModel property) (bumps.wsolve.PolynomialModel property) stderr() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.fitters.DreamFit method) (bumps.fitters.FitDriver method) (in module bumps.lsqerror) stderr_from_cov() (bumps.fitters.FitDriver method) StepMonitor (class in bumps.fitters) stop_mapper() (bumps.mapper.AMQPMapper static method) (bumps.mapper.MPIMapper static method) (bumps.mapper.MPMapper static method) (bumps.mapper.SerialMapper static method) store (bumps.options.BumpsOpts attribute) substitute() (in module bumps.parameter) sum() (in module bumps.pmath) summarize() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.pdfwrapper.DirectProblem method) (bumps.pymcfit.PyMCProblem method) (in module bumps.parameter)

T

tan() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) tand() (in module bumps.parameter) (in module bumps.pmath) tanh() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) (in module bumps.pmath) theory() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) thinning (bumps.dream.core.Dream attribute) time (bumps.options.BumpsOpts attribute) TimedUpdate (class in bumps.monitor) title (bumps.dream.state.MCMCDraw attribute) to_dict() (bumps.bounds.Bounded method) (bumps.bounds.BoundedAbove method) (bumps.bounds.BoundedBelow method) (bumps.bounds.BoundedNormal method) (bumps.bounds.Bounds method) (bumps.bounds.Distribution method) (bumps.bounds.Normal method) (bumps.bounds.SoftBounded method) (bumps.bounds.Unbounded method) (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.Fitness method) (bumps.fitproblem.MultiFitProblem method) (bumps.parameter.Alias method) (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.FreeVariables method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.ParameterSet method) (bumps.parameter.Reference method) (in module bumps.parameter)

Trace (class in bumps.history) transport() (bumps.options.BumpsOpts property) TRANSPORTS (bumps.options.BumpsOpts attribute) trim (bumps.options.BumpsOpts attribute) trim_portion() (bumps.dream.state.MCMCDraw method) trunc() (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method)

U

Unbounded (class in bumps.bounds) unique() (in module bumps.parameter) update() (bumps.curve.Curve method) (bumps.curve.PoissonCurve method) (bumps.dream.crossover.AdaptiveCrossover method) (bumps.dream.crossover.BaseAdaptiveCrossover method) (bumps.dream.crossover.Crossover method) (bumps.dream.crossover.LogAdaptiveCrossover method) (bumps.fitproblem.Fitness method) (bumps.history.History method) (bumps.parameter.Alias method)

USAGE (bumps.options.BumpsOpts attribute) (bumps.options.ParseOpts attribute) use_delayed_rejection (bumps.dream.core.Dream attribute)

V

valid() (bumps.fitproblem.BaseFitProblem method) (bumps.fitproblem.MultiFitProblem method) (bumps.parameter.BaseParameter method) (bumps.parameter.Constant method) (bumps.parameter.Function method) (bumps.parameter.IntegerParameter method) (bumps.parameter.OperatorAdd method) (bumps.parameter.OperatorDiv method) (bumps.parameter.OperatorMul method) (bumps.parameter.OperatorPow method) (bumps.parameter.OperatorSub method) (bumps.parameter.Parameter method) (bumps.parameter.Reference method) value (bumps.parameter.BaseParameter attribute) (bumps.parameter.Parameter attribute) value() (bumps.parameter.Constant property) (bumps.parameter.Function property) (bumps.parameter.IntegerParameter property) (bumps.parameter.OperatorAdd property) (bumps.parameter.OperatorDiv property) (bumps.parameter.OperatorMul property) (bumps.parameter.OperatorPow property) (bumps.parameter.OperatorSub property) (bumps.parameter.Reference property)

VALUES (bumps.options.BumpsOpts attribute) (bumps.options.ParseOpts attribute) values() (bumps.parameter.ParameterSet property) var() (bumps.wsolve.LinearModel property) (bumps.wsolve.PolynomialModel property) var_plot_size() (in module bumps.dream.varplot) var_stats() (in module bumps.dream.stats) VarStats (class in bumps.dream.stats) varying() (in module bumps.parameter) VectorPDF (class in bumps.pdfwrapper) VFS (class in bumps.vfs) vfs_init() (in module bumps.vfs) view (bumps.options.BumpsOpts attribute)

W

weight (bumps.dream.crossover.AdaptiveCrossover attribute) (bumps.dream.crossover.BaseAdaptiveCrossover attribute) (bumps.dream.crossover.LogAdaptiveCrossover attribute)

wnn_entropy() (in module bumps.dream.entropy) wpolyfit() (in module bumps.wsolve) wsolve() (in module bumps.wsolve)

X

x (bumps.wsolve.LinearModel attribute)

Y

yesno() (in module bumps.options)

Z

ZipFS (class in bumps.vfs)