Diffusion PySONIC (old) (master) History

cortical.py
master82b931897c27b0aa6d6d6ec…

Jul 21 2020

introduced default celsius (36°C) as a PointNeuron property shared by all…
42a3be29b47b
·tlemaire on Jul 21 2020, 16:18.
added celsius parameter (36.0) to cortical and thalamic neurons.
133be2f739dd
·tlemaire on Jul 21 2020, 15:41.

Mar 31 2020

added ASTIM_REL_CONV_THR to constants file.
9239911c1f35
·tlemaire on Mar 31 2020, 18:41.

Feb 3 2020

Created AcousticSource class to be used for US simulations.
9d0666784d2d
·tlemaire on Feb 3 2020, 14:26.

Jan 22 2020

added membrane area attributes to IB and STN neurons
5e77509ee19d
·tlemaire on Jan 22 2020, 15:37.

Jan 14 2020

Automated getModel using automatically generated dictionary of models with…
8478fde7a5d4
·tlemaire on Jan 14 2020, 17:18.

Sep 18 2019

corrected tirations log file
6fb96a1716d1
·tlemaire on Sep 18 2019, 18:05.

Sep 13 2019

added vsteprange to VlcampParser. changed timeseries default onset from…
0c9e09419d16
·tlemaire on Sep 13 2019, 14:27.

Jun 29 2019

adapted methods of all classes into classmethods and staticmethods when…
4937955d0214
·tlemaire on Jun 29 2019, 20:27.

Jun 25 2019

added automatic effRates function definition in pneuron.parse method. removed…
db8cc8e2b5ff
·tlemaire on Jun 25 2019, 17:57.
finished implementing pneuron.buildDerEffStates method to automatically create…
4742d6a43494
·tlemaire on Jun 25 2019, 14:59.

Jun 20 2019

define dLookUp class to perform lookup projections and interpolations
a96a900ad4b4
·tlemaire on Jun 20 2019, 17:35.
added default output directory ("dump"). cleaned up neuron classes.
6c10d4162d71
·tlemaire on Jun 20 2019, 10:09.

Jun 19 2019

refefined derEffstates construction to return a dictionary of function.
fdebb58e8442
·tlemaire on Jun 19 2019, 19:12.
redefined derStates and steadyStates as dictionary of lambda functions
98942bac6b56
·tlemaire on Jun 19 2019, 15:16.
cleaned up neuron classes. redefined currents to return functions instead of…
26fe1e08a408
·tlemaire on Jun 19 2019, 11:05.

Jun 18 2019

replaced obscur states list by explicit dictionary in all currents methods
7b2aee9851af
·tlemaire on Jun 18 2019, 18:21.
replaced obscur states list by explicit states dictionary in derStates and…
00f57af96cfb
·tlemaire on Jun 18 2019, 16:04.

Jun 12 2019

updated all file headers
b42a0de93240
·tlemaire on Jun 12 2019, 23:15.
adapted README recipe to cleaned up neuron classes
0ab79b08684a
·tlemaire on Jun 12 2019, 17:16.
cleaned-up all neuron classes
cc309fa78cd9
·tlemaire on Jun 12 2019, 16:35.

Jun 2 2019

major cleanup of all core classes.
88811f7a8aa5
·Theo Lemaire on Jun 2 2019, 14:22.

May 16 2019

added np.nan bounding to all np.interp uses in the code. implemented…
3f4135902bdc
·Theo Lemaire on May 16 2019, 15:30.

May 15 2019

simplified nbls.quasiSteadyStates method, now calling explicit quasiSeadyStates…
ee9cf8652b7e
·Theo Lemaire on May 15 2019, 13:53.

May 14 2019

changed PointNeuron getEffrates, steadyStates, derStates and derEffStates…
62c6723c6e71
·Theo Lemaire on May 14 2019, 19:21.

May 6 2019

added ref mode to QSSvar with phase plot arrows.
536de29806e2
·Theo Lemaire on May 6 2019, 19:15.

Mar 26 2019

implemented new QSS plot module with generic plotVarDynamics, plotVarsQSS and…
a2726a130bec
·tlemaire on Mar 26 2019, 19:35.
replaced lookups list by lookups dict in all derStatesEff methods. added get…
8a71066a647c
·tlemaire on Mar 26 2019, 11:52.

Mar 18 2019

Implemented NmodlGenerator core class to automatically generate NEURON MOD file…
07d55c08e109
·tlemaire on Mar 18 2019, 21:21.

Mar 15 2019

cleaned up neurons docstring. added getDesc method to PointNeurons class.
8623752f128f
·tlemaire on Mar 15 2019, 02:20.
created plt.pltutils module and moved relevant plotting functions into it.
a812d7d527af
·tlemaire on Mar 15 2019, 00:20.

Mar 14 2019

removed states0 attribute from neuron classes (now calling steadyStates method…
81554e5d4d67
·tlemaire on Mar 14 2019, 23:52.
generalized the use of getPltVars and getPltScheme with inheritance scheme…
453f896987ce
·tlemaire on Mar 14 2019, 23:35.

Mar 13 2019

major reformatting of neuron classes.
d744944eba53
·tlemaire on Mar 13 2019, 18:35.
added Qbounds as a PointNeuron class method. cleaned up use of Cai in TC class.
ce5a9df84ba1
·tlemaire on Mar 13 2019, 15:44.
removed all combined gating variables from pltvars schemes.
33c52c6b04a5
·tlemaire on Mar 13 2019, 15:14.
implemented PointNeuron.getCurrentPltVars method to genrate a dictionary plot…
817387c89edd
·tlemaire on Mar 13 2019, 15:00.
replaced iNet method by currents method in all neuron classes (iNet now defined…
09ec0decb4bd
·tlemaire on Mar 13 2019, 10:17.

Mar 10 2019

added currents methods to Cortical, Thalamic and STN classes, that returns a…
c5433b2c448c
·tlemaire on Mar 10 2019, 19:36.

Mar 6 2019

renamed currents for more clarity
da8e0bbde997
·tlemaire on Mar 6 2019, 17:56.

Mar 5 2019

changed nomenclature of current methods from "curr..." to "i..."
2e64aa90c325
·tlemaire on Mar 5 2019, 12:18.

Jan 11 2019

modified Qbounds to account for capacitance value in all neuron types.
69f20e7c2a18
·tlemaire on Jan 11 2019, 08:50.

Jan 9 2019

implemented Frankenhaeuser-Huxley membrane mechanism (validated against data…
65c1d8649331
·tlemaire on Jan 9 2019, 17:59.

Nov 30 2018

replaced 'L' by 'Leak' in neurons nomenclature. implemented STN neuron with…
0ebd7ae3b932
·tlemaire on Nov 30 2018, 10:37.

Sep 28 2018

updated package documentation
73851d6ac128
·tlemaire on Sep 28 2018, 14:23.

Sep 26 2018

removed pltutils file
7075d3ab7f91
·tlemaire on Sep 26 2018, 17:26.

Sep 23 2018

major changes to the package (PointNeuron, SonicNeuron, ...)
2a334b211bff
·tlemaire on Sep 23 2018, 14:28.

Sep 19 2018

added vtrap function to compute rate constants. added selectDirDialog function…
b115baec5ab3
·tlemaire on Sep 19 2018, 16:13.

Aug 21 2018

changed package name to PySONIC.
043172721a44
·tlemaire on Aug 21 2018, 16:19.

R4670/PySONIC/neurons/cortical.pymaster82b931897c27b0aa6d6d6ec…

Jul 21 2020

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Jan 11 2019

Jan 9 2019

Nov 30 2018

Sep 28 2018

Sep 26 2018

Sep 23 2018

Sep 19 2018

Aug 21 2018

R4670/PySONIC/neurons/cortical.py
master82b931897c27b0aa6d6d6ec…