emphasized repo transfer in README

updated README

introduced unit_dim parameter in si_format

added pass-on of kwargs from simAndSave to simulate

fixed sampleEvery method

added sampleEvery method to timeseries object to have a common loadData

added full_output option to simAndSave function

replaced gamma indications by axvspans in FiberBenchmark.plotQm

corrected gamma indicators plotting in FiberBenchmark.plotQm

added divarea and convarea rendering modes to XYMap.render

updated transient divergence evaluation in passive benchmark

added XYMap.extrapolate method. modified XYMap.getOutput to return (nx, nz)…

added frac_format function. added inaxes check upon map clicking in XYMap

modified exponential build up assessment in passive benchmark

removed clip_on statements

added getTimeStr function (now used in Batch.run)

added minimize overlap argument on protocol array initialization

added functionalities to optimize protocol array (minimizing overlap)

removed print statement in ProtocolArray.plot

defined StimObjArray class, niherited by DriveArray and ProtocolArray classes

modified CustomProtocol string representation, enabled robut protocol summing…

added os_name as logbal variable in utils. now using it also to output LogBatch.

implemented addition between time protocols and multiplication by scalar

added workaround to coupled_nbls simAndSave method to handle long filepaths on…

worked on benchmark plotting modularity

corrected benchmarks plotting and evaluation methods

added special case handling for phi-key in DriveArray

corrected sundt spike height criterion for detection

modified sundt spike detection settings

added subset argument to FiberBenchmark.runSimsOverAmplitudeSpace in order to…

added benchmark nodecolors and periodicity line patterns

corrected XYMap.addInsets to work with out or range insets

updated pandas requirements (now >=1.2.4) to ensure TimeSeries object are…

added new passive lookups at 20kHz and 4MHz

corrected indent error in run_lookups

added pneuron.is_passive property and getDefaultPassiveNeuron function

adapted parser for passive lookups

added factor to Qnorm pltvar.

untracked sublime-project file

added special case handling to find lookups name

replaced computeDiffAreaUnderCurve by computeMeanNormDifference (more robust…

corrected nan values handling in XYMap.

improved FiberBenchmark

added new divmaps module.

added divergence computation methods to benchmarks

improved naming, access and iterating of DriveArray objects.

modified xscale in benchmark 2D plot

modified coupled_nbls.simAndSave to just simulate if no output directory is…

added plot utility functions

added option to initialize passive neuron from name code. added initFromMeta…

added resample and interpolate methods to spatiallyextendedtimeseries class

added workaround solution for passive generic lookup name

added dump and dumpOutputsOtherThan methods to TimeSeries classes

added half-cycle offset and interpolation in timeseries cycle averaging

fixed error in run_lookups (inconsistent redimensioning for test case)

clarified terms in gamma functions

started implementing gamma evaluation method

started working on coupled_nbls module

started working on coupled_nbls module

added test_Qovertones.py test script

added context to README

improved logging in nbls.computeEffVars

improved error logging in bls.balancedefQS.

improved lookup naming system (and renamed all lookups accordingly).

adapted nbls.computeEffVars method to accomodate for Fourier Fourier overtones…

added array-typed charge input (i.e. US-periodic profile) option to…

small corrections in demo notebook

updated setup file. corrected some imports in notebooks (AcousticSource ->…

corrected Cm lkp extension

added emphasis on git-lfs requirement in REAMDE.

added transition handling in computeTimeStep.

updated pandas requirements in setup.py

added stimProfile and plot methods to TimeProtocol class

new bls lookups

added getPulseTrainProtocol function

adjusted benchmark classes

added SonicBenchmark.phaseplotQnorm method

removed OldDriveDivergenceMap, added GammaDivergenceMap

resolved numerical errors on multicomp benchmark (npc = 100, atol = 1e-10)

added multicomp module

added multicomp_benchmark module (cleaned-up version).

corrected gamma map

added plot_Zprofiles.py script

latest changes for morphoSONIC paper

added Lookup.reduce method to compute bls gamma_lkp on-the-fly (removed…

added postpro.filtfilt function and plot_Cm_filtering script

added mirrorProp and mirrorAxis functions to pltutils.

corrected error in bls.logRelGap. Re-computed Cm_lkp

simplified bls.capacitance expresion

added FHnode fs lookup at 36 celsius.

replaced nbls NEURONS_LOOKUP_DIR by a more general LOOKUP_DIR defined in utils

added expandRange docstring

added nmin parameter to PeriodicSolver.solve and BilayerSonophore.simCycles.

added tau_pas plotting to plotGatingKinetics

cleaned up BilayerSonophore.getPltVars

removed call to unstable iax in pltvars['iax'] definition

corrected PointNeuron dQdt method (now calculating charge derviative by finite…

added symmetric colormaps and corrected ComparativePlot cbar levels for int…

specified logger handler stream to sys.stdout to avoid red background in…

added HH point neuron