Index

_

__call__() (pyrates.utility.Interactive2DParamPlot method), [1] __getitem__() (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.frontend.template.operator.OperatorTemplate method) (pyrates.frontend.template.operator_graph.OperatorGraphTemplate method) (pyrates.ir.abc.AbstractBaseIR method) (pyrates.ir.circuit.NetworkGraph method)

__iter__() (pyrates.ir.node.NodeIR method) (pyrates.ir.node.VectorizedNodeIR method) (pyrates.ir.operator_graph.OperatorGraph method) __len__() (pyrates.ir.node.VectorizedNodeIR method) __repr__() (pyrates.frontend.template.abc.AbstractBaseTemplate method)

A

AbstractBaseIR (class in pyrates.ir.abc) AbstractBaseTemplate (class in pyrates.frontend.template.abc) adapt_circuit() (in module pyrates.utility), [1] add_code_line() (pyrates.backend.base.base_backend.CodeGen method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) add_edge() (pyrates.ir.circuit.NetworkGraph method) add_edges_from_matrix() (pyrates.frontend.template.circuit.CircuitTemplate method) add_import() (pyrates.backend.base.base_backend.BaseBackend method) add_indent() (pyrates.backend.base.base_backend.CodeGen method) add_linebreak() (pyrates.backend.base.base_backend.CodeGen method) add_node_template() (pyrates.frontend.template.circuit.CircuitTemplate method) add_op() (pyrates.backend.computegraph.ComputeGraph method) (pyrates.ir.node.VectorizedNodeIR method) add_op_edge() (pyrates.ir.node.VectorizedNodeIR method) add_operator() (pyrates.ir.operator_graph.VectorizedOperatorGraph method)

add_parsed_variable() (pyrates.ir.operator.ProtectedVariableDict method) add_to_dict() (in module pyrates.frontend.dict) add_var() (pyrates.backend.computegraph.ComputeGraph method) add_var_hist() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.julia.julia_backend.JuliaBackend method) add_var_update() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.computegraph.ComputeGraph method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) (pyrates.backend.julia.julia_backend.JuliaBackend method) (pyrates.backend.tensorflow.tensorflow_backend.TensorflowBackend method) Algebra (class in pyrates.backend.parser) append_values() (pyrates.ir.operator_graph.VectorizedOperatorGraph method) apply() (pyrates.frontend.template.abc.AbstractBaseTemplate method) (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.frontend.template.operator.OperatorTemplate method) (pyrates.frontend.template.operator_graph.OperatorGraphTemplate method)

B

BaseBackend (class in pyrates.backend.base.base_backend)

break_line() (pyrates.backend.fortran.fortran_backend.FortranBackend method)

C

cache (pyrates.frontend.template.operator.OperatorTemplate attribute) cache_func() (in module pyrates.ir.node) cg (pyrates.backend.parser.ExpressionParser attribute) check_vname() (in module pyrates.frontend.template.operator) CircuitIR (class in pyrates.ir.circuit) circuits (pyrates.frontend.template.circuit.CircuitTemplate attribute) CircuitTemplate (class in pyrates.frontend.template.circuit) clear() (in module pyrates.utility), [1] (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.base.base_backend.CodeGen method) (pyrates.backend.computegraph.ComputeGraph method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.ir.circuit.CircuitIR method) clear_cache() (in module pyrates.frontend.template) clear_frontend_caches() (in module pyrates.utility), [1]

clear_ir_caches() (in module pyrates.ir.node) CodeGen (class in pyrates.backend.base.base_backend) collect_edges() (pyrates.frontend.template.circuit.CircuitTemplate method) compile() (pyrates.backend.computegraph.ComputeGraph method) compute_graph (pyrates.frontend.template.circuit.CircuitTemplate property) ComputeGraph (class in pyrates.backend.computegraph) ComputeGraphBackProp (class in pyrates.backend.computegraph) ComputeNode (class in pyrates.backend.computegraph) ComputeOp (class in pyrates.backend.computegraph) ComputeVar (class in pyrates.backend.computegraph) create_directory() (in module pyrates.utility), [1] create_index_str() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) (pyrates.backend.julia.julia_backend.JuliaBackend method) (pyrates.backend.tensorflow.tensorflow_backend.TensorflowBackend method) create_input_node() (in module pyrates.frontend.template.circuit)

D

dict_from_yaml() (in module pyrates.frontend.fileio.yaml) dtype (pyrates.backend.computegraph.ComputeNode attribute) (pyrates.backend.computegraph.ComputeOp attribute) (pyrates.backend.computegraph.ComputeVar attribute) (pyrates.ir.operator.Variable attribute)

dump() (in module pyrates.frontend.fileio.pickle) dump_to_yaml() (in module pyrates.frontend.fileio.yaml)

E

EdgeIR (class in pyrates.ir.edge) edges (pyrates.frontend.template.circuit.CircuitTemplate attribute) (pyrates.ir.circuit.CircuitIR property) (pyrates.ir.circuit.NetworkGraph property) EdgeTemplate (class in pyrates.frontend.template.edge) equations (pyrates.ir.operator.OperatorIR property) eval_graph() (pyrates.backend.computegraph.ComputeGraph method) eval_node() (pyrates.backend.computegraph.ComputeGraph method) eval_nodes() (pyrates.backend.computegraph.ComputeGraph method)

eval_subgraph() (pyrates.backend.computegraph.ComputeGraph method) expr (pyrates.backend.computegraph.ComputeOp attribute) expr_stack (pyrates.backend.parser.ExpressionParser attribute) expr_str (pyrates.backend.parser.ExpressionParser attribute) expr_to_str() (pyrates.backend.base.base_backend.BaseBackend static method) (pyrates.backend.fortran.fortran_backend.FortranBackend static method) (pyrates.backend.julia.julia_backend.JuliaBackend static method) ExpressionParser (class in pyrates.backend.parser) extend() (pyrates.ir.node.VectorizedNodeIR method) extract_var() (in module pyrates.backend.parser)

F

finalize_idx_str() (pyrates.backend.base.base_backend.BaseBackend static method) (pyrates.backend.tensorflow.tensorflow_backend.TensorflowBackend method) FortranBackend (class in pyrates.backend.fortran.fortran_backend) from_circuit() (in module pyrates.frontend.dict) from_edge() (in module pyrates.frontend.dict)

from_file() (pyrates.ir.abc.AbstractBaseIR class method) from_node() (in module pyrates.frontend.dict) from_operator() (in module pyrates.frontend.dict) from_yaml() (in module pyrates.frontend.template) (pyrates.frontend.template.abc.AbstractBaseTemplate class method) func (pyrates.backend.computegraph.ComputeOp attribute)

G

generate() (pyrates.backend.base.base_backend.CodeGen method) generate_func() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) (pyrates.backend.julia.julia_backend.JuliaBackend method) generate_func_head() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) generate_func_tail() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) (pyrates.backend.julia.julia_backend.JuliaBackend method) get_data() (pyrates.utility.Interactive2DParamPlot method), [1] get_edge() (pyrates.frontend.template.circuit.CircuitTemplate method) get_edges() (pyrates.frontend.template.circuit.CircuitTemplate method) get_fname() (pyrates.backend.base.base_backend.BaseBackend method) get_frontend_varname() (pyrates.ir.circuit.CircuitIR method) get_hist_func() (pyrates.backend.base.base_backend.BaseBackend static method) (pyrates.backend.julia.julia_backend.JuliaBackend method) get_inputs() (pyrates.ir.edge.EdgeIR method) get_interp_def() (in module pyrates.backend.fortran.fortran_funcs) get_node_template() (pyrates.frontend.template.circuit.CircuitTemplate method) get_nodes() (pyrates.frontend.template.circuit.CircuitTemplate method) get_op() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.computegraph.ComputeGraph method) (pyrates.frontend.template.operator_graph.OperatorGraphTemplate method)

get_run_func() (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.ir.circuit.CircuitIR method) get_sigmoid_def() (in module pyrates.backend.fortran.fortran_funcs) get_sign_def() (in module pyrates.backend.fortran.fortran_funcs) get_unique_label() (in module pyrates.backend.parser) get_var() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.computegraph.ComputeGraph method) (pyrates.backend.julia.julia_backend.JuliaBackend method) (pyrates.backend.tensorflow.tensorflow_backend.TensorflowBackend method) (pyrates.backend.torch.torch_backend.TorchBackend method) (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.ir.circuit.CircuitIR method) get_variable_positions() (pyrates.frontend.template.circuit.CircuitTemplate method) getitem_from_iterator() (pyrates.ir.abc.AbstractBaseIR method) (pyrates.ir.circuit.CircuitIR method) (pyrates.ir.circuit.NetworkGraph method) (pyrates.ir.node.NodeIR method) (pyrates.ir.node.VectorizedNodeIR method) (pyrates.ir.operator.OperatorIR method) (pyrates.ir.operator_graph.OperatorGraph method) (pyrates.ir.operator_graph.VectorizedOperatorGraph method) graph (pyrates.ir.circuit.CircuitIR attribute) grid_search() (in module pyrates.utility), [1]

I

identity() (in module pyrates.backend.base.base_funcs) index_1d() (in module pyrates.backend.base.base_funcs) index_2d() (in module pyrates.backend.base.base_funcs) index_axis() (in module pyrates.backend.base.base_funcs) index_range() (in module pyrates.backend.base.base_funcs) inputs (pyrates.ir.edge.EdgeIR property) (pyrates.ir.operator.OperatorIR property) integrate() (in module pyrates.utility), [1] Interactive2DParamPlot (class in pyrates.utility), [1]

intermediate_representation (pyrates.frontend.template.circuit.CircuitTemplate property) is_complex (pyrates.backend.computegraph.ComputeNode property) is_constant (pyrates.backend.computegraph.ComputeNode property) (pyrates.backend.computegraph.ComputeOp property) (pyrates.backend.computegraph.ComputeVar property) is_diff_eq() (in module pyrates.backend.parser) is_float (pyrates.backend.computegraph.ComputeNode property) is_integration_adaptive() (in module pyrates.frontend.template.circuit) items() (pyrates.ir.operator.ProtectedVariableDict method)

J

JuliaBackend (class in pyrates.backend.julia.julia_backend)

K

keys() (pyrates.ir.operator.ProtectedVariableDict method)

L

label (pyrates.ir.abc.AbstractBaseIR attribute) (pyrates.ir.circuit.CircuitIR attribute) (pyrates.ir.circuit.NetworkGraph attribute) length (pyrates.ir.edge.EdgeIR attribute) (pyrates.ir.node.VectorizedNodeIR attribute)

lhs (pyrates.backend.parser.ExpressionParser attribute) linearize_grid() (in module pyrates.utility), [1] linebreak_end (pyrates.backend.fortran.fortran_backend.FortranBackend attribute) linebreak_start (pyrates.backend.fortran.fortran_backend.FortranBackend attribute) load() (in module pyrates.frontend.fileio.pickle)

M

module pyrates.backend pyrates.backend.base pyrates.backend.base.base_backend pyrates.backend.base.base_funcs pyrates.backend.computegraph pyrates.backend.fortran pyrates.backend.fortran.fortran_backend pyrates.backend.fortran.fortran_funcs pyrates.backend.julia pyrates.backend.julia.julia_backend pyrates.backend.julia.julia_funcs pyrates.backend.parser pyrates.backend.tensorflow pyrates.backend.tensorflow.tensorflow_backend pyrates.backend.tensorflow.tensorflow_funcs pyrates.backend.torch pyrates.backend.torch.torch_backend pyrates.backend.torch.torch_funcs pyrates.frontend pyrates.frontend.dict pyrates.frontend.file pyrates.frontend.fileio pyrates.frontend.fileio.pickle pyrates.frontend.fileio.yaml pyrates.frontend.template pyrates.frontend.template.abc pyrates.frontend.template.circuit pyrates.frontend.template.edge pyrates.frontend.template.node pyrates.frontend.template.operator pyrates.frontend.template.operator_graph pyrates.ir pyrates.ir.abc pyrates.ir.circuit pyrates.ir.edge pyrates.ir.node pyrates.ir.operator pyrates.ir.operator_graph pyrates.utility, [1] tests.test_backend_parser tests.test_backend_simulations tests.test_implemented_models

N

n1 (pyrates.backend.fortran.fortran_backend.FortranBackend attribute) n2 (pyrates.backend.fortran.fortran_backend.FortranBackend attribute) n_inputs (pyrates.ir.edge.EdgeIR property) name (pyrates.backend.computegraph.ComputeNode attribute) (pyrates.backend.computegraph.ComputeOp attribute) (pyrates.backend.computegraph.ComputeVar attribute) network_to_computegraph() (pyrates.ir.circuit.CircuitIR method)

NetworkGraph (class in pyrates.ir.circuit) nmrse() (in module tests.test_backend_simulations) (in module tests.test_implemented_models) NodeIR (class in pyrates.ir.node) nodes (pyrates.frontend.template.circuit.CircuitTemplate attribute) (pyrates.ir.circuit.CircuitIR property) (pyrates.ir.circuit.NetworkGraph property) NodeTemplate (class in pyrates.frontend.template.node)

O

op_graph (pyrates.ir.edge.EdgeIR attribute) (pyrates.ir.node.NodeIR property) (pyrates.ir.node.VectorizedNodeIR attribute) OperatorGraph (class in pyrates.ir.operator_graph) OperatorGraphTemplate (class in pyrates.frontend.template.operator_graph) OperatorIR (class in pyrates.ir.operator)

operators (pyrates.ir.node.NodeIR property) (pyrates.ir.node.VectorizedNodeIR property) (pyrates.ir.operator_graph.VectorizedOperatorGraph property) operators() (pyrates.ir.operator_graph.OperatorGraph method) OperatorTemplate (class in pyrates.frontend.template.operator) output (pyrates.ir.edge.EdgeIR property) (pyrates.ir.operator.OperatorIR property)

P

parse_equations() (in module pyrates.backend.parser) parse_expr() (pyrates.backend.parser.ExpressionParser method) parse_func (pyrates.backend.parser.ExpressionParser attribute) parse_path() (in module pyrates.frontend.file) past() (in module pyrates.backend.base.base_funcs) ProtectedVariableDict (class in pyrates.ir.operator) pyrates.backend module pyrates.backend.base module pyrates.backend.base.base_backend module pyrates.backend.base.base_funcs module pyrates.backend.computegraph module pyrates.backend.fortran module pyrates.backend.fortran.fortran_backend module pyrates.backend.fortran.fortran_funcs module pyrates.backend.julia module pyrates.backend.julia.julia_backend module pyrates.backend.julia.julia_funcs module pyrates.backend.parser module pyrates.backend.tensorflow module pyrates.backend.tensorflow.tensorflow_backend module pyrates.backend.tensorflow.tensorflow_funcs module pyrates.backend.torch module pyrates.backend.torch.torch_backend module pyrates.backend.torch.torch_funcs module pyrates.frontend module

pyrates.frontend.dict module pyrates.frontend.file module pyrates.frontend.fileio module pyrates.frontend.fileio.pickle module pyrates.frontend.fileio.yaml module pyrates.frontend.template module pyrates.frontend.template.abc module pyrates.frontend.template.circuit module pyrates.frontend.template.edge module pyrates.frontend.template.node module pyrates.frontend.template.operator module pyrates.frontend.template.operator_graph module pyrates.ir module pyrates.ir.abc module pyrates.ir.circuit module pyrates.ir.edge module pyrates.ir.node module pyrates.ir.operator module pyrates.ir.operator_graph module pyrates.utility module, [1] PyRatesException PyRatesWarning

R

register_template_class() (in module pyrates.frontend.template) register_vars() (pyrates.backend.base.base_backend.BaseBackend static method) (pyrates.backend.fortran.fortran_backend.FortranBackend method) remove_indent() (pyrates.backend.base.base_backend.CodeGen method) remove_subgraph() (pyrates.backend.computegraph.ComputeGraph method) replace() (in module pyrates.backend.parser)

replace_in_expr() (in module pyrates.backend.parser) reshape() (pyrates.backend.computegraph.ComputeNode method) rhs (pyrates.backend.parser.ExpressionParser attribute) run() (pyrates.backend.base.base_backend.BaseBackend method) (pyrates.backend.computegraph.ComputeGraph method) (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.ir.circuit.CircuitIR method)

S

save() (in module pyrates.frontend.fileio) set_dtype() (pyrates.backend.computegraph.ComputeNode method) set_map_title() (pyrates.utility.Interactive2DParamPlot method), [1] set_map_xlabel() (pyrates.utility.Interactive2DParamPlot method), [1] set_map_ylabel() (pyrates.utility.Interactive2DParamPlot method), [1] set_num_axis_ticks() (in module pyrates.utility), [1] set_series_xlabel() (pyrates.utility.Interactive2DParamPlot method), [1] set_series_ylabel() (pyrates.utility.Interactive2DParamPlot method), [1] set_value() (pyrates.backend.computegraph.ComputeNode method) setup_module() (in module tests.test_backend_parser) (in module tests.test_backend_simulations) (in module tests.test_implemented_models) shape (pyrates.backend.computegraph.ComputeNode attribute) (pyrates.backend.computegraph.ComputeOp attribute) (pyrates.backend.computegraph.ComputeVar attribute) (pyrates.ir.operator.Variable attribute)

sigmoid() (in module pyrates.backend.fortran.fortran_funcs) (in module pyrates.backend.tensorflow.tensorflow_funcs) (in module pyrates.backend.torch.torch_funcs) sigmoid_func() (in module pyrates.backend.julia.julia_funcs) split_equation() (in module pyrates.backend.parser) squeeze() (pyrates.backend.computegraph.ComputeNode method) state_vars (pyrates.backend.computegraph.ComputeGraph property) symbol (pyrates.backend.computegraph.ComputeNode attribute) (pyrates.backend.computegraph.ComputeOp attribute) (pyrates.backend.computegraph.ComputeVar attribute)

T

target_ir (pyrates.frontend.template.abc.AbstractBaseTemplate attribute) (pyrates.frontend.template.circuit.CircuitTemplate attribute) (pyrates.frontend.template.operator.OperatorTemplate attribute) target_ir() (pyrates.frontend.template.edge.EdgeTemplate static method) (pyrates.frontend.template.node.NodeTemplate static method) (pyrates.frontend.template.operator_graph.OperatorGraphTemplate static method) template (pyrates.ir.abc.AbstractBaseIR property) TensorflowBackend (class in pyrates.backend.tensorflow.tensorflow_backend) test_1_1_expression_parser_init() (in module tests.test_backend_parser) test_1_2_expression_parser_parsing_exceptions() (in module tests.test_backend_parser) test_1_3_expression_parser_math_ops() (in module tests.test_backend_parser) test_1_4_expression_parser_funcs() (in module tests.test_backend_parser) test_1_5_expression_parser_indexing() (in module tests.test_backend_parser) test_1_7_equation_parsing() (in module tests.test_backend_parser) test_2_1_operator() (in module tests.test_backend_simulations) test_2_2_node() (in module tests.test_backend_simulations) test_2_3_edge() (in module tests.test_backend_simulations) test_2_4_solver() (in module tests.test_backend_simulations) test_2_5_inputs_outputs() (in module tests.test_backend_simulations)

test_2_6_vectorization() (in module tests.test_backend_simulations) test_2_7_backends() (in module tests.test_backend_simulations) test_3_1_jansenrit() (in module tests.test_implemented_models) test_3_2_qif_theta() (in module tests.test_implemented_models) test_3_3_wilson_cowan() (in module tests.test_implemented_models) test_3_4_kuramoto() (in module tests.test_implemented_models) tests.test_backend_parser module tests.test_backend_simulations module tests.test_implemented_models module to_dict() (pyrates.ir.operator.ProtectedVariableDict method) to_file() (pyrates.backend.base.base_backend.BaseBackend static method) (pyrates.ir.abc.AbstractBaseIR method) to_func() (pyrates.backend.computegraph.ComputeGraph method) to_yaml() (in module pyrates.frontend.template) (pyrates.frontend.template.abc.AbstractBaseTemplate method) (pyrates.frontend.template.circuit.CircuitTemplate method) TorchBackend (class in pyrates.backend.torch.torch_backend)

U

update_dict() (in module pyrates.frontend.template.circuit) update_edges() (in module pyrates.frontend.template.circuit) update_lineplot() (pyrates.utility.Interactive2DParamPlot method), [1] update_template() (pyrates.frontend.template.abc.AbstractBaseTemplate method) (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.frontend.template.operator.OperatorTemplate method) (pyrates.frontend.template.operator_graph.OperatorGraphTemplate method)

update_var() (pyrates.frontend.template.circuit.CircuitTemplate method) (pyrates.frontend.template.operator_graph.OperatorGraphTemplate method)

V

value (pyrates.backend.computegraph.ComputeNode property) values (pyrates.ir.node.NodeIR attribute) values() (pyrates.ir.operator.ProtectedVariableDict method) var_in_expression() (in module pyrates.backend.parser) var_lengths (pyrates.ir.operator_graph.VectorizedOperatorGraph property) Variable (class in pyrates.ir.operator)

variables (pyrates.ir.operator.OperatorIR property) vars (pyrates.backend.parser.ExpressionParser attribute) VectorizedNodeIR (class in pyrates.ir.node) VectorizedOperatorGraph (class in pyrates.ir.operator_graph) vtype (pyrates.backend.computegraph.ComputeVar attribute) (pyrates.ir.operator.Variable attribute)