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@pgleeson
pgleeson committed May 31, 2024
1 parent aae1543 commit 0236f67
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Showing 23 changed files with 19 additions and 56 deletions.
4 changes: 0 additions & 4 deletions NetPyNE/ACnet/Ca_pyr.mod
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Expand Up @@ -243,10 +243,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/ACnet/Kahp_pyr.mod
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Expand Up @@ -204,10 +204,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/ACnet/Kdr_bask.mod
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Expand Up @@ -187,10 +187,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/ACnet/Kdr_pyr.mod
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Expand Up @@ -187,10 +187,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/ACnet/Na_bask.mod
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Expand Up @@ -249,10 +249,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/ACnet/Na_pyr.mod
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Expand Up @@ -247,10 +247,6 @@ PROCEDURE rates() {










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2 changes: 2 additions & 0 deletions NetPyNE/HybridTut/HybridTut.py
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Expand Up @@ -116,3 +116,5 @@
simConfig.analysis['plotTraces'] = {'include': [1,51]} # plot recorded traces for this list of cells
simConfig.analysis['plotRatePSD'] = {'include': ['allCells', 'PYR_HH', 'PYR_Izhi'], 'Fs': 200, 'smooth': 10} # plot recorded traces for this list of cells


simConfig.validateNetParams=True
4 changes: 0 additions & 4 deletions NetPyNE/TwoCells/Ca_pyr.mod
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Expand Up @@ -243,10 +243,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/TwoCells/Kahp_pyr.mod
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Expand Up @@ -204,10 +204,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/TwoCells/Kdr_bask.mod
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Expand Up @@ -187,10 +187,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/TwoCells/Kdr_pyr.mod
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Expand Up @@ -187,10 +187,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/TwoCells/Na_bask.mod
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Expand Up @@ -249,10 +249,6 @@ PROCEDURE rates() {










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4 changes: 0 additions & 4 deletions NetPyNE/TwoCells/Na_pyr.mod
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Expand Up @@ -247,10 +247,6 @@ PROCEDURE rates() {










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8 changes: 8 additions & 0 deletions NetPyNE/TwoCells/loadNML.py
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from LEMS_TwoCell_netpyne import NetPyNESimulation

n = NetPyNESimulation()
n.generate_json_only()

print("Validating: %s"%n.simConfig.validateNetParams)

cfg = n.simConfig
1 change: 1 addition & 0 deletions NetPyNE/TwoCells/reload2.py
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Expand Up @@ -31,6 +31,7 @@

cfg = SimConfig(simConfig_dict)
cfg.validateNetParams = True
cfg.verbose = True

for cell in netParams_dict['cellParams']:
for sec in netParams_dict['cellParams'][cell]['secs']:
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2 changes: 1 addition & 1 deletion NeuroML2/HHSmall.net.nml
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<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.xsd" id="HHSmall">
<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.1.xsd" id="HHSmall">
<notes>NeuroML 2 file exported from NetPyNE v1.0.6</notes>
<ionChannelHH id="leak_hh" type="ionChannelPassive" conductance="10pS">
<notes>Single ion channel in NeuroML2 format: passive channel providing a leak conductance </notes>
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2 changes: 1 addition & 1 deletion NeuroML2/HybridSmall.net.nml
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<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.xsd" id="HybridSmall">
<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.1.xsd" id="HybridSmall">
<notes>NeuroML 2 file exported from NetPyNE v1.0.6</notes>
<ionChannelHH id="leak_hh" type="ionChannelPassive" conductance="10pS">
<notes>Single ion channel in NeuroML2 format: passive channel providing a leak conductance </notes>
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2 changes: 1 addition & 1 deletion NeuroML2/HybridTut.net.nml
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<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.xsd" id="HybridTut">
<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.1.xsd" id="HybridTut">
<notes>NeuroML 2 file exported from NetPyNE v1.0.6</notes>
<ionChannelHH id="leak_hh" type="ionChannelPassive" conductance="10pS">
<notes>Single ion channel in NeuroML2 format: passive channel providing a leak conductance </notes>
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2 changes: 1 addition & 1 deletion NeuroML2/LEMS_HHSmall.xml
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<!--
This LEMS file has been automatically generated using PyNeuroML v1.2.13 (libNeuroML v0.5.9)
This LEMS file has been automatically generated using PyNeuroML v1.2.15 (libNeuroML v0.6.0)
-->

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2 changes: 1 addition & 1 deletion NeuroML2/LEMS_HybridSmall.xml
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<!--
This LEMS file has been automatically generated using PyNeuroML v1.2.13 (libNeuroML v0.5.9)
This LEMS file has been automatically generated using PyNeuroML v1.2.15 (libNeuroML v0.6.0)
-->

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2 changes: 1 addition & 1 deletion NeuroML2/LEMS_HybridTut.xml
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Expand Up @@ -2,7 +2,7 @@

<!--
This LEMS file has been automatically generated using PyNeuroML v1.2.13 (libNeuroML v0.5.9)
This LEMS file has been automatically generated using PyNeuroML v1.2.15 (libNeuroML v0.6.0)
-->

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2 changes: 1 addition & 1 deletion NeuroML2/LEMS_M1.xml
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Expand Up @@ -2,7 +2,7 @@

<!--
This LEMS file has been automatically generated using PyNeuroML v1.2.13 (libNeuroML v0.5.9)
This LEMS file has been automatically generated using PyNeuroML v1.2.15 (libNeuroML v0.6.0)
-->

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2 changes: 1 addition & 1 deletion NeuroML2/M1.net.nml
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<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.xsd" id="M1">
<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.1.xsd" id="M1">
<notes>NeuroML 2 file exported from NetPyNE v1.0.6</notes>
<expTwoSynapse id="AMPA" gbase="1uS" erev="0mV" tauDecay="5.3ms" tauRise="0.05ms"/>
<expTwoSynapse id="NMDA" gbase="1uS" erev="0mV" tauDecay="15ms" tauRise="0.15ms"/>
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