Index

A

add_cable_type() (arborize.definitions.Definition method) add_ion() (arborize.CableType method) (arborize.definitions.CableType method) add_mech() (arborize.CableType method) (arborize.definitions.CableType method) add_synapse() (arborize.CableType method) (arborize.definitions.CableType method) add_synapse_type() (arborize.definitions.Definition method) anchor() (arborize.CableType class method) (arborize.definitions.CableType class method) append() (arborize.schematic.CableBranch method) (arborize.schematic.UnitBranch method) arbor_build() (in module arborize) (in module arborize.builders) arborize module arborize._util module arborize.builders module

arborize.constraints module arborize.definitions module arborize.exceptions module arborize.parameter module arborize.schematic module arborize.schematics module arborize.synapse module ArborizeError ArborizeWarning Assert (class in arborize._util) assert_() (arborize._util.Assert method) (arborize.CableType method) (arborize.definitions.CableType method)

B

bluepyopt_build() (in module arborize) (in module arborize.builders)

Branch (class in arborize.schematic) bsb_schematic() (in module arborize) (in module arborize.schematics)

C

cable (arborize.CableType attribute) (arborize.constraints.CableTypeConstraints attribute) (arborize.constraints.CableTypeConstraintsDict attribute) (arborize.definitions.CableType attribute) (arborize.definitions.CableTypeDict attribute) cable_properties_class (arborize.constraints.ConstraintsDefinition attribute) (arborize.definitions.Definition property) (arborize.definitions.ModelDefinition attribute) (arborize.ModelDefinition attribute) cable_type_class (arborize.constraints.ConstraintsDefinition attribute) (arborize.definitions.Definition property) (arborize.definitions.ModelDefinition attribute) (arborize.ModelDefinition attribute) cable_types (arborize.constraints.ConstraintsDefinitionDict attribute) (arborize.definitions.ModelDefinitionDict attribute) CableBranch (class in arborize.schematic) CableParameter (class in arborize.parameter) CableProperties (class in arborize) (class in arborize.definitions) CablePropertiesDict (class in arborize.definitions) CablePropertyConstraints (class in arborize.constraints) CablePropertyConstraintsDict (class in arborize.constraints) CableType (class in arborize) (class in arborize.definitions) CableTypeConstraints (class in arborize.constraints) CableTypeConstraintsDict (class in arborize.constraints)

CableTypeDict (class in arborize.definitions) children (arborize.schematic.Branch attribute) (arborize.schematic.CableBranch attribute) (arborize.schematic.UnitBranch attribute) cm (arborize.CableProperties attribute) (arborize.constraints.CablePropertyConstraintsDict attribute) (arborize.definitions.CableProperties attribute) (arborize.definitions.CablePropertiesDict attribute) Constraint (class in arborize.constraints) ConstraintsDefinition (class in arborize.constraints) ConstraintsDefinitionDict (class in arborize.constraints) ConstraintValue (in module arborize.constraints) ConstructionError Copy (class in arborize._util) copy() (arborize._util.Copy method) (arborize.CableType method) (arborize.definitions.CableType method) (arborize.definitions.Definition method) (arborize.definitions.Mechanism method) (arborize.definitions.Synapse method) (arborize.Mechanism method) CP (class in arborize.definitions) create_empty() (arborize.schematic.Schematic method) create_location() (arborize.schematic.Schematic method) create_name() (arborize.schematic.Schematic method) CT (class in arborize.definitions)

D

default() (arborize.CableType class method) (arborize.constraints.CableTypeConstraints class method) (arborize.definitions.CableType class method) default_ions_dict (class in arborize.definitions) define_constraints() (in module arborize) (in module arborize.constraints)

define_model() (in module arborize) (in module arborize.definitions) definition (arborize.schematic.Schematic property) (arborize.schematic.UnitBranch attribute) Definition (class in arborize.definitions)

E

ExpandedSynapseDict (class in arborize.definitions) ext_con (arborize.constraints.IonConstraintsDict attribute) (arborize.definitions.Ion attribute) (arborize.definitions.IonDict attribute) (arborize.Ion attribute)

F

file_schematic() (in module arborize) (in module arborize.schematics)

freeze() (arborize.schematic.Schematic method) from_value() (arborize.constraints.Constraint class method) FrozenError

G

get_arclengths() (in module arborize._util) get_cable_types() (arborize.definitions.Definition method) (arborize.schematic.Schematic method)

get_compound_cable_types() (arborize.schematic.Schematic method) get_location_name() (in module arborize._util) get_synapse_types() (arborize.definitions.Definition method) (arborize.schematic.Schematic method)

I

I (class in arborize.definitions) int_con (arborize.constraints.IonConstraintsDict attribute) (arborize.definitions.Ion attribute) (arborize.definitions.IonDict attribute) (arborize.Ion attribute) Ion (class in arborize) (class in arborize.definitions) ion_class (arborize.constraints.ConstraintsDefinition attribute) (arborize.definitions.Definition property) (arborize.definitions.ModelDefinition attribute) (arborize.ModelDefinition attribute) IonConstraints (class in arborize.constraints)

IonConstraintsDict (class in arborize.constraints) IonDict (class in arborize.definitions) IonParameter (class in arborize.parameter) ions (arborize.CableType attribute) (arborize.constraints.CableTypeConstraints attribute) (arborize.constraints.CableTypeConstraintsDict attribute) (arborize.definitions.CableType attribute) (arborize.definitions.CableTypeDict attribute) is_empty_constraint() (in module arborize._util) is_mech_id() (in module arborize) (in module arborize.definitions) Iterable (class in arborize._util)

L

labels (arborize.schematic.UnitBranch attribute)

lower (arborize.constraints.Constraint property)

M

M (class in arborize.definitions) mech_id (arborize.definitions.Synapse attribute) mechanism (arborize.definitions.ExpandedSynapseDict attribute) Mechanism (class in arborize) (class in arborize.definitions) mechanism_class (arborize.constraints.ConstraintsDefinition attribute) (arborize.definitions.Definition property) (arborize.definitions.ModelDefinition attribute) (arborize.ModelDefinition attribute) MechanismConstraints (class in arborize.constraints) mechanisms (arborize.constraints.CableTypeConstraintsDict attribute) (arborize.definitions.CableTypeDict attribute) mechdict (class in arborize.definitions) MechId (in module arborize._util) MechIdTuple (in module arborize._util) MechParameter (class in arborize.parameter) mechs (arborize.CableType attribute) (arborize.constraints.CableTypeConstraints attribute) (arborize.definitions.CableType attribute) Merge (class in arborize._util)

merge() (arborize._util.Merge method) (arborize.CableType method) (arborize.definitions.CableType method) (arborize.definitions.Mechanism method) (arborize.Mechanism method) ModelDefinition (class in arborize) (class in arborize.definitions) ModelDefinitionDict (class in arborize.definitions) ModelDefinitionError ModelError module arborize arborize._util arborize.builders arborize.constraints arborize.definitions arborize.exceptions arborize.parameter arborize.schematic arborize.schematics arborize.synapse

N

name (arborize.schematic.Schematic property)

neuron_build() (in module arborize) (in module arborize.builders)

P

Parameter (class in arborize.parameter) parameters (arborize.constraints.MechanismConstraints attribute) (arborize.definitions.ExpandedSynapseDict attribute) parent (arborize.schematic.Branch attribute) (arborize.schematic.CableBranch attribute) (arborize.schematic.UnitBranch attribute)

Point (class in arborize.schematic) points (arborize.schematic.Branch attribute) presynaptic() (arborize.synapse.Synapse method)

R

Ra (arborize.CableProperties attribute) (arborize.constraints.CablePropertyConstraintsDict attribute) (arborize.definitions.CableProperties attribute) (arborize.definitions.CablePropertiesDict attribute)

record() (arborize.synapse.Synapse method) rev_pot (arborize.constraints.IonConstraintsDict attribute) (arborize.definitions.Ion attribute) (arborize.definitions.IonDict attribute) (arborize.Ion attribute)

S

S (class in arborize.definitions) Schematic (class in arborize.schematic) SchematicError set() (arborize.CableType method) (arborize.definitions.CableType method) set_cable_params() (arborize.parameter.CableParameter method) set_next_id() (arborize.schematic.Schematic method) set_param() (arborize.schematic.Schematic method) set_tolerance() (arborize.constraints.Constraint method) (arborize.constraints.ConstraintsDefinition method) stimulate() (arborize.synapse.Synapse method) Synapse (class in arborize.definitions) (class in arborize.synapse)

synapse_class (arborize.constraints.ConstraintsDefinition attribute) (arborize.definitions.Definition property) (arborize.definitions.ModelDefinition attribute) (arborize.ModelDefinition attribute) synapse_types (arborize.constraints.ConstraintsDefinitionDict attribute) (arborize.definitions.ModelDefinitionDict attribute) SynapseConstraints (class in arborize.constraints) SynapseConstraintsDict (in module arborize.constraints) synapses (arborize.CableType attribute) (arborize.constraints.CableTypeConstraints attribute) (arborize.constraints.CableTypeConstraintsDict attribute) (arborize.definitions.CableType attribute) (arborize.definitions.CableTypeDict attribute)

T

throw_frozen() (in module arborize.schematic) to_dict() (arborize.CableProperties method) (arborize.CableType method) (arborize.definitions.CableProperties method) (arborize.definitions.CableType method) (arborize.definitions.Definition method) (arborize.definitions.Ion method) (arborize.definitions.Mechanism method) (arborize.Ion method) (arborize.Mechanism method)

to_mech_id() (in module arborize.definitions) tolerance (arborize.constraints.Constraint property) TransmitterError

U

UnconnectedPointInSpaceWarning UnitBranch (class in arborize.schematic)

UnknownLocationError UnknownSynapseError upper (arborize.constraints.Constraint property)