Index

_

__call__() (pigreads.schema.basic.Slice method) (pigreads.schema.diffusivity.DiffusivityFile method) (pigreads.schema.diffusivity.DiffusivityParams method) (pigreads.schema.model.ModelDefinition method) (pigreads.schema.setter.SetterFile method) (pigreads.schema.setter.SetterSlices method) (pigreads.schema.setter.SetterSpherical method) (pigreads.schema.stimulus.SignalStep method) __delitem__() (pigreads.helper.ModelParameters method) __getitem__() (pigreads.helper.ModelParameters method) (pigreads.models.Models method)

__iter__() (pigreads.helper.ModelParameters method) (pigreads.models.Models method) __len__() (pigreads.core.Models method) (pigreads.helper.ModelParameters method) (pigreads.models.Models method) __repr__() (pigreads.helper.ModelParameters method) __setitem__() (pigreads.helper.ModelParameters method) __str__() (pigreads.helper.ModelParameters method) _key_to_index() (pigreads.helper.ModelParameters method)

A

add() (pigreads.core.Models method) (pigreads.models.Models method) adjust_work_size() (pigreads.core.Models method)

all_parameters (pigreads.schema.model.ModelDefinition property) available (pigreads.models.Models attribute) axis (pigreads.schema.basic.Slice attribute)

B

BaseProgressIterator (class in pigreads.progress)

block_size (pigreads.core.Models property) (pigreads.models.Models property)

C

center (pigreads.schema.setter.SetterSpherical attribute) cmd (pigreads.schema.setter.SetterFile attribute) (pigreads.schema.setter.SetterSlices attribute) (pigreads.schema.setter.SetterSpherical attribute)

code (pigreads.schema.model.ModelDefinition attribute) code() (pigreads.models.Models method) compile() (pigreads.core.Models method) context (pigreads.core.Models property) core (pigreads.models.Models property)

D

delta() (in module pigreads.helper) deltas() (in module pigreads.helper) description (pigreads.schema.model.ModelDefinition attribute) Df (pigreads.schema.diffusivity.DiffusivityParams attribute) Diffusivity (in module pigreads.schema.diffusivity) diffusivity (pigreads.schema.model.ModelDefinition attribute) (pigreads.schema.simulation.Simulation attribute) diffusivity_matrix() (in module pigreads.diffusivity) DiffusivityFile (class in pigreads.schema.diffusivity) DiffusivityParams (class in pigreads.schema.diffusivity) Dn (pigreads.schema.diffusivity.DiffusivityParams attribute)

dois (pigreads.schema.model.ModelDefinition attribute) double_precision (pigreads.core.Models property) (pigreads.schema.simulation.Simulation attribute) draw_thick_line() (pigreads.gui.LiveView method) Ds (pigreads.schema.diffusivity.DiffusivityParams attribute) dt (pigreads.schema.simulation.Simulation attribute) dtype (pigreads.models.Models property) duration (pigreads.schema.stimulus.SignalStep attribute) dx (pigreads.schema.simulation.Simulation attribute) dy (pigreads.schema.simulation.Simulation attribute) dz (pigreads.schema.simulation.Simulation attribute)

E

end (pigreads.schema.basic.Slice attribute)

exponent (pigreads.schema.setter.SetterSpherical attribute)

F

f (pigreads.schema.diffusivity.DiffusivityParams attribute)

file (pigreads.schema.diffusivity.DiffusivityFile attribute) (pigreads.schema.setter.SetterFile attribute)

G

get_block_size() (pigreads.core.Models method) get_definition() (pigreads.models.Models method) get_entry() (pigreads.models.Models method) get_key() (pigreads.core.Models method) (pigreads.models.Models method)

get_number_definitions() (pigreads.core.Models method) get_parameter() (pigreads.core.Models method) (pigreads.models.Models method) get_upper_triangle() (in module pigreads.helper)

I

imshow_defaults() (in module pigreads.plot) inhom (pigreads.schema.simulation.Simulation attribute)

init (pigreads.schema.simulation.Simulation attribute) inside (pigreads.schema.setter.SetterSpherical attribute) is_dict_of_dicts() (pigreads.schema.simulation.Simulation static method)

J

JSONProgressIterator (class in pigreads.progress)

K

key (pigreads.schema.model.ModelEntry attribute)

L

LiveView (class in pigreads.gui)

M

meta (pigreads.schema.model.ModelDefinition property) model_config (pigreads.schema.basic.Slice attribute) (pigreads.schema.basic.Vector3D attribute) (pigreads.schema.diffusivity.DiffusivityFile attribute) (pigreads.schema.diffusivity.DiffusivityParams attribute) (pigreads.schema.model.ModelDefinition attribute) (pigreads.schema.model.ModelEntry attribute) (pigreads.schema.setter.SetterFile attribute) (pigreads.schema.setter.SetterSlices attribute) (pigreads.schema.setter.SetterSpherical attribute) (pigreads.schema.simulation.Simulation attribute) (pigreads.schema.stimulus.SignalStep attribute) (pigreads.schema.stimulus.Stimulus attribute) ModelDefinition (class in pigreads.schema.model) ModelEntry (class in pigreads.schema.model) ModelParameters (class in pigreads.helper) Models (class in pigreads.core) (class in pigreads.models) models (pigreads.schema.simulation.Simulation attribute)

module pigreads pigreads.cli pigreads.compat pigreads.core pigreads.diffusivity pigreads.gui pigreads.helper pigreads.models pigreads.plot pigreads.progress pigreads.schema pigreads.schema.basic pigreads.schema.diffusivity pigreads.schema.model pigreads.schema.setter pigreads.schema.simulation pigreads.schema.stimulus movie() (in module pigreads.plot)

N

n (pigreads.schema.diffusivity.DiffusivityParams attribute) name (pigreads.schema.model.ModelDefinition attribute) Nfr (pigreads.schema.simulation.Simulation attribute) normalise() (pigreads.schema.model.ModelEntry class method) (pigreads.schema.setter.SetterSlices class method) normalise_diffusivity() (pigreads.schema.simulation.Simulation class method) normalise_inhom() (pigreads.schema.simulation.Simulation class method) normalise_init() (pigreads.schema.simulation.Simulation class method) normalise_kwargs() (pigreads.gui.LiveView static method)

normalise_list_of_setters() (in module pigreads.schema.setter) normalise_models() (pigreads.schema.simulation.Simulation class method) normalise_shape() (pigreads.schema.stimulus.Stimulus class method) normalise_vector() (in module pigreads.helper) Nt (pigreads.schema.simulation.Simulation attribute) Nv (pigreads.core.Models property) (pigreads.models.Models property) Nx (pigreads.schema.simulation.Simulation attribute) Ny (pigreads.schema.simulation.Simulation attribute) Nz (pigreads.schema.simulation.Simulation attribute)

O

outside (pigreads.schema.setter.SetterSpherical attribute)

P

parameters (pigreads.schema.model.ModelDefinition attribute) (pigreads.schema.model.ModelEntry attribute) pigreads module pigreads (pigreads.schema.simulation.Simulation attribute) pigreads.cli module pigreads.compat module pigreads.core module pigreads.diffusivity module pigreads.gui module pigreads.helper module pigreads.models module pigreads.plot module pigreads.progress module

pigreads.schema module pigreads.schema.basic module pigreads.schema.diffusivity module pigreads.schema.model module pigreads.schema.setter module pigreads.schema.simulation module pigreads.schema.stimulus module PlainProgressIterator (class in pigreads.progress) plot_frame() (in module pigreads.plot) prepare_array() (in module pigreads.helper) prepare_context() (pigreads.core.Models method) prepare_inhom() (pigreads.schema.simulation.Simulation method) prepare_models() (pigreads.schema.simulation.Simulation method) prepare_space() (pigreads.schema.simulation.Simulation method) prepare_states() (pigreads.schema.simulation.Simulation method) prepare_stim() (pigreads.schema.simulation.Simulation method) PROGRESS_ITERS (in module pigreads.progress)

Q

queue (pigreads.core.Models property)

R

radius (pigreads.schema.setter.SetterSpherical attribute) real (pigreads.core.Models property) resting_states() (pigreads.models.Models method)

run() (in module pigreads.compat) (pigreads.core.Models method) (pigreads.models.Models method) (pigreads.schema.simulation.Simulation method)

S

set_block_size() (pigreads.core.Models method) set_parameter() (pigreads.core.Models method) (pigreads.models.Models method) Setter (in module pigreads.schema.setter) SetterFile (class in pigreads.schema.setter) SetterSlices (class in pigreads.schema.setter) SetterSpherical (class in pigreads.schema.setter) shape (pigreads.schema.stimulus.Stimulus attribute) signal (pigreads.schema.stimulus.Stimulus attribute)

SignalStep (class in pigreads.schema.stimulus) Simulation (class in pigreads.schema.simulation) Slice (class in pigreads.schema.basic) slices (pigreads.schema.setter.SetterSlices attribute) start (pigreads.schema.basic.Slice attribute) (pigreads.schema.stimulus.SignalStep attribute) step (pigreads.schema.basic.Slice attribute) stim (pigreads.schema.simulation.Simulation attribute) Stimulus (class in pigreads.schema.stimulus)

T

T (class in pigreads.progress) to_dict() (pigreads.helper.ModelParameters method) to_ithildin() (in module pigreads.helper)

total (pigreads.progress.JSONProgressIterator attribute) (pigreads.progress.PlainProgressIterator attribute) tuple (pigreads.schema.basic.Vector3D property)

U

update() (pigreads.gui.LiveView method)

V

value (pigreads.schema.setter.SetterSlices attribute) variables (pigreads.schema.model.ModelDefinition attribute) (pigreads.schema.stimulus.SignalStep attribute)

varidx() (pigreads.schema.simulation.Simulation static method) Vector3D (class in pigreads.schema.basic)

W

weights() (in module pigreads.compat) (pigreads.core.Models method) (pigreads.models.Models method)

X

x (pigreads.schema.basic.Vector3D attribute)

Y

y (pigreads.schema.basic.Vector3D attribute)

Z

z (pigreads.schema.basic.Vector3D attribute)