Description Format

Arbor provides readers and writers for describing label dictionaries, decoration objects, morphologies and cable cells, referred to here as arbor-components.

A detailed description of the s-expression format used to describe each of these components can be found here.

The arbor-components and meta-data

class arbor.meta_data
string version

Stores the version of the format being used.

class arbor.cable_cell_component
meta_data meta

Stores meta-data pertaining to the description of a cable cell component.

component

Stores one of decor, label_dict, morphology or cable_cell.

Reading and writing arbor-components

arbor.load_component(filename)

Load cable_cell_component (decor, morphology, label_dict, cable_cell) from file.

Parameters:

filename (str) – the name of the file containing the component description.

Return type:

cable_cell_component

arbor.write_component(comp, filename)

Write the cable_cell_component to file.

Parameters:

  • comp (cable_cell_component) – the component to be written to file.

  • filename (str) – the name of the file.

arbor.write_component(dec, filename)

Write the decor to file. Use the most recent version of the cable cell format to construct the metadata.

Parameters:

  • dec (decor) – the decor to be written to file.

  • filename (str) – the name of the file.

arbor.write_component(dict, filename)

Write the label_dict to file. Use the most recent version of the cable cell format to construct the metadata.

Parameters:

  • dict (label_dict) – the label dictionary to be written to file.

  • filename (str) – the name of the file.

arbor.write_component(morpho, filename)

Write the morphology to file. Use the most recent version of the cable cell format to construct the metadata.

Parameters:

  • morpho (morphology) – the morphology to be written to file.

  • filename (str) – the name of the file.

arbor.write_component(cell, filename)

Write the cable_cell to file. Use the most recent version of the cable cell format to construct the metadata.

Parameters:

  • cell (cable_cell) – the cable_cell to be written to file.

  • filename (str) – the name of the file.