def protocol_increasing_weights():
"""
Increases weights of synapse
"""
config_functions = {
single_hz_and_control: {
"hz": 5,
"control": False
},
config_synapses: {
"exc": 100,
"inh": 100
}
}
exc_weights = np.array([0.1, 1, 10])
exc_base_weight = 1
inh_weights = np.array([0.1, 1, 10])
inh_base_weight = 1
# set the actual weights to be as a multiple of the base weights
weights_dict = {
'exc_weights': (exc_weights * exc_base_weight).tolist(),
'inh_weights': (inh_weights * inh_base_weight).tolist()
}
run_protocol(
compare_weights,
root=protocol_increasing_weights.__name__,
timestamp=False,
filenames=["proximal", "proximal_KCC2", "distal", "distal_KCC2"],
param_list=[weights_dict],
config_functions=config_functions)
def protocol_increasing_synapses_numbers():
"""
Increases synapses numbers
"""
config_functions = {
single_hz_and_control: {
"hz": 5,
"control": False
},
nruns: dict(num_runs=1)
}
syn_nums_inh = np.append(
0,
np.round(np.logspace(1, np.log10(5000), num=10, base=10)).astype(int))
syn_nums_inh = np.append(
syn_nums_inh,
np.round(np.geomspace(5000, 10000, num=5)[1:]).astype(int))
skip = [10, 20, 40, 158]
for s_val in skip:
s_idx = np.argmin(np.abs(s_val - syn_nums_inh))
syn_nums_inh = np.delete(syn_nums_inh, s_idx)
syn_nums_exc = np.append(
0,
np.round(np.logspace(1, np.log10(5000), num=19, base=10)).astype(int))
syn_nums_dict = {
# 0: [0, 10, 20, 50, 100, 200, 500, 1000, 2000, 5000, 10000],
# 1: [0, 10, 20, 50, 100, 200, 500, 1000, 10000],
# 10: [0, 10, 20, 50, 100, 200, 500, 1000, 10000],
# 100: [0, 10, 20, 50, 100, 200, 500, 1000, 2000, 10000],
# 1000: [0, 100, 200, 500, 1000, 2000, 5000, 10000],
# 2000: [0, 100, 200, 500, 1000, 2000, 5000, 10000]
}
for i in np.append(
syn_nums_inh,
np.round(np.geomspace(5000, 10000, num=5)[1:]).astype(int)):
syn_nums_dict[i] = np.append(
syn_nums_exc,
np.round(np.geomspace(1000, 100000, num=15)).astype(int))
syn_nums = []
for i, e_list in syn_nums_dict.items():
for e in e_list:
syn_nums.append((e, i))
# syn_nums = [s for s in itertools.product(syn_nums_exc, syn_nums_inh)]
run_protocol(compare_synapses,
root="Increasing synapse numbers",
timestamp=False,
filenames=["distal", "distal_KCC2"],
param_list=(True, syn_nums),
config_functions=config_functions)
for i in np.round(np.geomspace(630, 2507, num=7)).astype(int):
syn_nums_dict[i] = np.append(
0,
np.round(np.geomspace(1000, 100000, num=15)).astype(int))
syn_nums = []
for i, e_list in syn_nums_dict.items():
for e in e_list:
syn_nums.append((e, i))
def protocol_balanced_synaptic_input(distal_balanced_synapses=None,
proximal_balanced_synapses=None):
"""
Runs protocol where synapses have been balanced at 5 Hz (from balanced heatmap).
For only running balanced frequencies (Inh == Exc), set index_synced: 1. To run multiple Exc Hz per Inh Hz,
set index_synced to 0.
"""
config_functions = {balanced_input: {'index_synced': 1}}
# these were found from balanced_heatmap
if distal_balanced_synapses is None:
distal_balanced_synapses = [
(200, 30),
(220, 90),
(230, 140),
(240, 200),
(250, 260),
(250, 300),
(260, 400),
(270, 500),
(280, 600),
(290, 700),
(300, 800),
]
if proximal_balanced_synapses is None:
proximal_balanced_synapses = [
(260, 30),
(290, 60),
(330, 90),
(370, 120),
(430, 150),
(490, 180),
(530, 210),
(600, 240),
(660, 270),
(720, 300),
(780, 330),
]
# not applicable
skip_if_exists = False
distal_path = run_protocol(compare_synapses,
root="balanced synaptic input distal",
timestamp=False,
filenames=["distal", "distal_KCC2"],
param_list=(skip_if_exists,
distal_balanced_synapses),
config_functions=config_functions)
prox_path = run_protocol(compare_synapses,
root="balanced synaptic input proximal",
timestamp=False,
filenames=["proximal", "proximal_KCC2"],
param_list=(skip_if_exists,
proximal_balanced_synapses),
config_functions=config_functions)
return distal_path, prox_path
def protocol_increasing_persistence_change_dynamic_K():
"""
Change duration of persistent synapse model
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_dynamic_K,
root="persistent_K",
timestamp=False,
filenames=["distal"],
param_list=[True, False],
config_functions=config_functions)
def protocol_increasing_persistence_change_pas():
"""
Change leak conductance (input resistance) of persistent synapse model
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_pas,
root="persistent_pas",
timestamp=False,
filenames=["distal", "distal_KCC2"],
param_list=None,
config_functions=config_functions)
def protocol_increasing_persistence_change_pkcc2_homo():
"""
Change homogeneity of KCC2 strength of persistent synapse model
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_pkcc2_homo,
root="persistent_pkcc2_homo",
timestamp=False,
filenames=["distal", "distal_KCC2"],
param_list=None,
config_functions=config_functions)
def protocol_increasing_persistence_change_pcl():
"""
Change base chloride of persistent synapse model
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_pCl,
root="persistent_pcl",
timestamp=False,
filenames=["distal", "distal_KCC2"],
param_list=None,
config_functions=config_functions)
def protocol_increasing_persistence_change_diam():
"""
Change diameter of persistent synapse model
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_diam,
root="persistent_diam",
timestamp=False,
filenames=["distal", "distal_KCC2"],
param_list=[0.5, 1.0, 1.5, 2.0],
config_functions=config_functions)
def protocol_increasing_persistence_change_cli():
"""
Change internal chloride of persistent synapse model
(only works for non-KCC2 files)
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_cli,
root="persistent_cli",
timestamp=False,
filenames=["distal", "proximal"],
param_list=None,
config_functions=config_functions)
def protocol_increasing_persistence_change_pkcc2():
"""
Change KCC2 strength of persistent synapse model
"""
base = 1.9297e-5
pkcc2_list = [base / 2, base, base * 2, base * 4]
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(compare_pkcc2,
root="persistent_pkcc2",
timestamp=False,
filenames=["distal_KCC2"],
param_list=[pkcc2_list[-1]],
config_functions=config_functions)
def protocol_increasing_persistence():
"""
Increase the conductance of persistent synapses.
`just_run` doesn't tak any parameters.
Values are configured in `config_stims.hoc`
"""
config_functions = {config_persistent_synapses: change_persist_numbers}
run_protocol(just_run,
root="persistent",
timestamp=False,
filenames=["proximal", "proximal_KCC2"],
param_list=None,
config_functions=config_functions)
run_protocol(just_run,
root="persistent",
timestamp=True,
filenames=["distal", "distal_KCC2"],
param_list=None,
config_functions=config_functions)