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Diffusion PySONIC (old) (master) Graph

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CommitAuthorDetailsCommitted
7497a2150a6btlemaire
corrected computation of firing rate in detectSpikes function 
Jan 16 2018
c59a8267c97etlemaire
corrected LeechP implementation using dynamic Nernst potentials for Sodium and… 
Jan 9 2018
33ee63af70aatlemaire
Lots of corrections and improvements to the LeechP model implementation. E-STIM… 
Dec 12 2017
094fd25223f4tlemaire
added LeechPressure to channels init. added leechP variables to pltvars. tested… 
Dec 1 2017
a270608c8e8ctlemaire
implemented leechP intracellular pools evolution according to modelDB ref 
Nov 29 2017
ae51b3bafaectlemaire
Added sonophore diameter to ASTIM files naming, and changed DF to 2 decimals… 
Nov 29 2017
1bb50e8f0025tlemaire
validated effective method for LeechT neuron, added that neuron to test_values. 
Nov 27 2017
f1fbc6e5b9bbtlemaire
added LeechT lookup 
Nov 24 2017
e5364755a2a5tlemaire
added lookup files and template log files to tracking 
Nov 22 2017
69e2945beb69tlemaire
added latest dependencies to setup file 
Nov 22 2017
c9dad3d35684tlemaire
corrected code for LeechT neuron, and validated it on electrical stimuli 
Nov 22 2017
6249b5298f4ctlemaire
debugged double printing issue of logging statements 
Sep 12 2017
3cb02a5f8d12tlemaire
emphasized code in README 
Sep 12 2017
d67a94aa1050tlemaire
modified README file to include installation and usage info 
Sep 12 2017
6be1756dda64tlemaire
added biomech and biophys parameters directly as BilayerSonophore class… 
Sep 12 2017
c67c8c39a93btlemaire
added input pltvars checking to plot functions 
Sep 10 2017
189a078bf8d2tlemaire
added color to logging statements 
Sep 10 2017
6cd8d175ad7btlemaire
improved error handling 
Sep 10 2017
43647159e654tlemaire
replaced print statements with logging statements in internal modules 
Sep 10 2017
34e47b5286e0tlemaire
added ESTIM_run script. added plot command line option to ASTIM_run and… 
Sep 6 2017
ffed8b864bbftlemaire
replaced getopt with argparse in test scripts 
Sep 6 2017
15cf962d7fc7tlemaire
added ASTIM_run script to run single ASTIM simulation from command line 
Sep 6 2017
14d95d317eebtlemaire
replaced neurons object lists by neurons name list in batch functions input 
Sep 6 2017
151337217cabtlemaire
introduced default arguments in batch functions for bls_params and geom 
Sep 6 2017
7fff2117cd10tlemaire
replaced printPct by progressbar 
Sep 6 2017
63f20548155dtlemaire
separated checkBatchLog function into setBatchDir and checkBatchLog functions 
Sep 6 2017
8680bc7dccaftlemaire
added runEStim and runAStim functions. added locker to xlslog 
Sep 4 2017
6688904b2a82tlemaire
added smart loading of derived parameters from lookup file at BLS initiation 
Sep 3 2017
9015dddabee1tlemaire
test pre-commit hook 
Sep 3 2017
f51d67fdf64atlemaire
updated test_values 
Sep 3 2017
92e2cd326a4etlemaire
added profiling option for each method inside test_basic.py, using cProfile and… 
Sep 3 2017
f875411afd08tlemaire
separated test into test_basic (initiating solvers and running simple… 
Sep 2 2017
b0a231289d69tlemaire
added standardized plotEffCoeffs function to pltutils 
Sep 2 2017
08165e6a06f3tlemaire
replaced eval statements from plotGatingKinetics & plotRateConstants by getattr… 
Sep 1 2017
43f0618daa4atlemaire
removed old plot_RS_rate_constants script 
Sep 1 2017
4c66e98d971etlemaire
added standardized plotRateConstants method 
Sep 1 2017
3f5921510ae9tlemaire
added plotGatingKinetics method to plot the steady-sate and time constant… 
Sep 1 2017
32c77b1353fatlemaire
added temporary code to delay last pulse during PW stimuli in runEffective… 
Sep 1 2017
e2ff032a6759tlemaire
added option to specify labels in plotComp 
Sep 1 2017
cf8e6794b04ctlemaire
debugged and validated new runEffective method: interpolation datasets at… 
Aug 30 2017
7da392ae7e7atlemaire
added 2nd version of runEffective where 3D (f, A, Q) interpolation datasets are… 
Aug 29 2017
071e81993e19tlemaire
modified data validation on Adrive for MECH and ASTIM simulations (strictly… 
Aug 29 2017
0f69714e39ectlemaire
modified createLookup method to create, for each coefficient, a 3D array of… 
Aug 29 2017
c5cad185b222tlemaire
added getNeuronsDict function to utils 
Aug 29 2017
1ea422ad10ebtlemaire
optimized effective method: 2D (amp, charge) coefficients interpolators are… 
Aug 28 2017
a2f5d17c8bfftlemaire
corrected setup.py 
Aug 28 2017
90c71fb8d8e5tlemaire
updated run functions to deal with zero offset. updated test_graphs 
Aug 28 2017
3120330fdccdtlemaire
updated test_graphs.py 
Aug 28 2017
c61b8e3492f6tlemaire
renamed LoadParams to load_BLS_params 
Aug 28 2017
b50efb81b3cbtlemaire
updated test_basic.py with more thorough tests. Added more thorough input… 
Aug 28 2017
06127af4b669tlemaire
included default plotting scheme inside neuron classes definition. Modified… 
Aug 25 2017
c30d03edb7cctlemaire
adapted plotComp to deal with pulsed ESTIM outputs and MECH outputs. corrected… 
Aug 25 2017
0a89dde7f847tlemaire
implemented runMechBatch function. adapted plotBatch function to deal with MECH… 
Aug 25 2017
c9053e689690tlemaire
added titrateEStim and titrateEStimBatch functions 
Aug 25 2017
3c218a52595btlemaire
Added pulsed stimuli handling to SolverElec. Implemented moved titration… 
Aug 25 2017
788e6d1c95b2tlemaire
added smart labels to plotComp, smart title to plotBatch 
Aug 24 2017
b139db9e82d1tlemaire
added LeechT variables to workflow 
Aug 24 2017
3e6f232a2a2etlemaire
debugging of plot functions 
Aug 24 2017
2c7de2047898tlemaire
introduced standardized workflow for both E-STIM and A-STIM simulations and… 
Aug 24 2017
4f9a8fd2aed4tlemaire
moved some utils functions into simutils & pltutils modules 
Aug 23 2017
af10a48546b7tlemaire
created plotting module inside package, with plotComp and plotBatch functions 
Aug 23 2017
abfba2e921d7tlemaire
first commit to c4science 
Aug 23 2017
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