History Graph
History Graph
| Commit | Author | Details | Committed | |||
|---|---|---|---|---|---|---|
| e54883c44689 | tlemaire | added Lookup.reduce method to compute bls gamma_lkp on-the-fly (removed… | Aug 8 2020 | |||
| aa8497513a7a | tlemaire | corrected error in bls.logRelGap. Re-computed Cm_lkp | Aug 5 2020 | |||
| e57b064d8f70 | tlemaire | simplified bls.capacitance expresion | Aug 5 2020 | |||
| ed71c4613b28 | tlemaire | replaced nbls NEURONS_LOOKUP_DIR by a more general LOOKUP_DIR defined in utils | Aug 4 2020 | |||
| 52e16ec74047 | tlemaire | added nmin parameter to PeriodicSolver.solve and BilayerSonophore.simCycles. | Aug 3 2020 | |||
| ac56c3baa94e | tlemaire | cleaned up BilayerSonophore.getPltVars | Jul 23 2020 | |||
| 81fe27f05196 | tlemaire | changed bls.inputs['a'] (factor 0, unit m). | Apr 29 2020 | |||
| a6e6abff99bc | tlemaire | added TC2 class | Apr 23 2020 | |||
| 69892d75c503 | tlemaire | improved solvers docstrings and clarified their use in model classes. | Apr 16 2020 | |||
| d03caf415e89 | tlemaire | removed ambiguity around initialConditions methods to allow correct lookups… | Apr 15 2020 | |||
| b77cd9e4eb12 | tlemaire | implemented better solvers (now inside solvers module), including an… | Apr 15 2020 | |||
| 18480eb7bebc | tlemaire | corrected ActMap class (now inheriting from LogBatch). | Apr 9 2020 | |||
| 7f8a3be5ceb4 | tlemaire | changed meta property of model classes to return solely model information. | Feb 20 2020 | |||
| 68961385d17e | tlemaire | added copy method to all model classes. added TI US notebook. updated… | Feb 11 2020 | |||
| 27d8aafffa88 | tlemaire | Created Drive objects inheritance scheme (now used in all model classes). | Feb 3 2020 | |||
| 9d0666784d2d | tlemaire | Created AcousticSource class to be used for US simulations. | Feb 3 2020 | |||
| c995e8999df7 | tlemaire | Modified Lookup class (new properties, corrected methods). | Jan 26 2020 | |||
| 38dc94d61fe7 | tlemaire | added DQ_LOOKUP constant (used in run_lookups.py) | Jan 26 2020 | |||
| 8478fde7a5d4 | tlemaire | Automated getModel using automatically generated dictionary of models with… | Jan 14 2020 | |||
| bac984960467 | tlemaire | corrected nbls fullDerivatives, simFull and simHybrid methods (removed phi… | Dec 4 2019 | |||
| 6deb0da8868d | tlemaire | added internal bls.simUntilConvergence method (without decorators) to enable… | Nov 26 2019 | |||
| de255e65bccc | tlemaire | Major update: | Nov 14 2019 | |||
| 89e117f6ffaa | tlemaire | add handling of positional and keyword arguments in Batch queues. added… | Sep 17 2019 | |||
| 8cf15b137151 | tlemaire | abstracted Model.simQueue method (now defined in children classes). changed… | Sep 17 2019 | |||
| d2ccd21d9889 | tlemaire | corrected crucial error in nbls.spatialAverage method. corrected Cm0 and Qm0… | Sep 2 2019 | |||
| 8226a9490c9b | tlemaire | adapted constants to enable sweeney lookups creation. | Aug 26 2019 | |||
| 2278e599a753 | tlemaire | added automatic solution prepending to all simulate methods (to treat initial… | Aug 14 2019 | |||
| ec01e1e58099 | tlemaire | fixed error in bls.filecodes | Jul 29 2019 | |||
| d1a3fbaefd83 | tlemaire | added option to provide simAndSave or simulate to batches. implemented addMeta… | Jul 1 2019 | |||
| 4937955d0214 | tlemaire | adapted methods of all classes into classmethods and staticmethods when… | Jun 29 2019 | |||
| 4997a9f88989 | tlemaire | transformed model inputs, checkInputs and simQueue into static methods | Jun 28 2019 | |||
| dffee6926b85 | tlemaire | added fs (spatially-averaged) as input to nbls model. defined SmartLookup class… | Jun 26 2019 | |||
| 3528fa81b6d1 | tlemaire | cleaned up model classes. defined mandatory derivatives method for model… | Jun 26 2019 | |||
| 83ff47370d86 | tlemaire | defined separate lookup decorator for bls.computePMparams method. updated… | Jun 24 2019 | |||
| 66eaf2f41fba | tlemaire | corrected y, t order error in nbls.fullDerivatives. added custom parsing in… | Jun 17 2019 | |||
| c14fa0da1fd7 | tlemaire | added simkey to meta dictionary. added automatic parsing and labeling of… | Jun 15 2019 | |||
| b0f51febd195 | tlemaire | updated constants | Jun 13 2019 | |||
| b42a0de93240 | tlemaire | updated all file headers | Jun 12 2019 | |||
| ed095e030274 | tlemaire | minor change to getCycleProfiles | Jun 10 2019 | |||
| 2f0254ea5b53 | tlemaire | added functionality to load data directly from sim results in TimeSeriesPlot… | Jun 10 2019 | |||
| c7f94b320ba7 | tlemaire | set t first in all derivatives function | Jun 9 2019 | |||
| b46a8cd85a73 | tlemaire | removed ng and Z explicit computation in runSONIC (replaced by nan arrays) | Jun 9 2019 | |||
| 5eed591ede6e | tlemaire | corrected errors in nbls interpEFFVariable and runSONIC methods | Jun 9 2019 | |||
| 863bdf8330f4 | tlemaire | added nbls isStableQSS and titrateQSS methods. finished plotQSSThresholdCurve | Jun 9 2019 | |||
| 1c9c63d4ba6a | tlemaire | added getModel and getPointNeuron functions. removed deprecated scripts. | Jun 6 2019 | |||
| f75ca2e6e294 | Theo Lemaire | added parsers module, now used in sim scripts for more consistency. | Jun 3 2019 | |||
| 88811f7a8aa5 | Theo Lemaire | major cleanup of all core classes. | Jun 2 2019 | |||
| c49110f6c3cf | Theo Lemaire | added isAsymptoticallyStable method to PeriodicSolver | Jun 1 2019 | |||
| 7c909ad7dbbd | Theo Lemaire | added convfunc attribute to PeriodicSimulator class | Jun 1 2019 | |||
| de01bc8b1676 | Theo Lemaire | moved batches to core module | May 31 2019 | |||
| 25d498c21187 | Theo Lemaire | implemented abstract Model class to be inherit by bls, pneuron and nbls | May 31 2019 | |||
| 42ef7cb1063a | Theo Lemaire | added "meta" method to core classes | May 31 2019 | |||
| af6f9a02ed42 | Theo Lemaire | reformatted simulate methods of bls, pneuron and nbls classes to return output… | May 31 2019 | |||
| 4ba3212edf92 | Theo Lemaire | added simulators classes to take care of simulations | May 29 2019 | |||
| 1391db99409d | Theo Lemaire | added intermediate "run" method that return output data and metadata | May 27 2019 | |||
| c23526a0ca16 | Theo Lemaire | added logNSpikes function to pneuron class. | May 27 2019 | |||
| 13e29c29bbb1 | Theo Lemaire | haromized amplitude and plot_scheme parsing across simulation scripts | May 27 2019 | |||
| 71a2cddb684e | Theo Lemaire | replaced filecode functions by class methods | May 27 2019 | |||
| a2726a130bec | tlemaire | implemented new QSS plot module with generic plotVarDynamics, plotVarsQSS and… | Mar 26 2019 | |||
| 8a71066a647c | tlemaire | replaced lookups list by lookups dict in all derStatesEff methods. added get… | Mar 26 2019 | |||
| ad0a33b92c3c | tlemaire | adapted plotComp to new plot variables scheme. | Mar 15 2019 | |||
| 453f896987ce | tlemaire | generalized the use of getPltVars and getPltScheme with inheritance scheme… | Mar 14 2019 | |||
| 9d1a2fc5cd08 | tlemaire | major reformatting of plotBatch function | Mar 14 2019 | |||
| c72b7b319ed0 | tlemaire | implemented getLookupsOff function to retrieve US-OFF lookups. adapted… | Mar 5 2019 | |||
| cf20bd8f6516 | tlemaire | added lookups for FH membrane mechanism (tested) | Jan 11 2019 | |||
| 65c1d8649331 | tlemaire | implemented Frankenhaeuser-Huxley membrane mechanism (validated against data… | Jan 9 2019 | |||
| 2f63e4926c36 | tlemaire | improved plotRheobaseAmps function. improved arguments parsing in command line… | Nov 22 2018 | |||
| da009206a90e | tlemaire | modified runSONIC method to use odeint solver with interpolated lookups for… | Nov 19 2018 | |||
| 73851d6ac128 | tlemaire | updated package documentation | Sep 28 2018 | |||
| 4a67049acd76 | tlemaire | added actmap to plt module, with command line script. | Sep 26 2018 | |||
| 610dc8472dcf | tlemaire | cleaned up utils module. removed log templates (now generated on the fly with… | Sep 25 2018 | |||
| 954e545fa6ac | tlemaire | turned intermolecular pressure test script into notebook. removed Input error… | Sep 24 2018 | |||
| 1951d49ccd25 | tlemaire | moved lookups into neurons folder | Sep 24 2018 | |||
| 2dc56eb8b91e | tlemaire | removed InputError references in core modules | Sep 23 2018 | |||
| 2a334b211bff | tlemaire | major changes to the package (PointNeuron, SonicNeuron, ...) | Sep 23 2018 |
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