e_model_packager.circuit.synapse_extractor

For the retrieval of synapses using bluecellulab.

Classes

SynapseExtractor(blueconfig, gid)

Extracts synapses of a cell from the circuit.
class SynapseExtractor(blueconfig, gid)

Bases: object

Extracts synapses of a cell from the circuit.

Constructor, inits bluecellulab CircuitSimulation object.

Parameters:

  • blueconfig (obj) – blueconfig object or path to bloeconfig object

  • gid ([type]) – [description]

static convert_sec_name(sec_name)

Convert section name into sectionlist_id and section_list_index.

static generate_synconf_content(synconf_dict, synconf_ordering)

Generate content for synconf.txt.

static get_Nrrp(hsynapse)

Get Nrrp from hsynapse.

get_pre_mtype_id(mtype_map, pre_gid)

Assign pre-cell mtype to an id.

static get_tau_d(synapse_dict)

Return tau_d given synapse type.

load_synapses(add_stimuli=False, intersect_pre_gids=None)

Loads synapses information.

write_synapses_to_files(synapse_tsv_path, mtype_map_path, synconf_path)

Write the synapses information to files.

Parameters:

  • synapse_tsv_path (Path or string) – output filepath for synapses

  • mtype_map_path (Path or string) – output filepath for mtype_map

  • synconf_path (Path or string) – output filepath for synconf