History Graph
History Graph
Commit | Author | Details | Committed | |||
---|---|---|---|---|---|---|
81fe27f05196 | tlemaire | changed bls.inputs['a'] (factor 0, unit m). | Apr 29 2020 | |||
fcb5a387a33e | tlemaire | added input-ouput match pre-check in LogBatch.run method to avoid unnecessary… | Apr 28 2020 | |||
2eb3a3768e1e | tlemaire | modified BurstProtocol default BRF such that BRI is twice burst time. | Apr 26 2020 | |||
fab05bc88fea | tlemaire | corrected simobj.check methods (incorrect paramStr call). added BRF pre-check… | Apr 26 2020 | |||
6dedc53ccbc8 | tlemaire | added optional tstart argument to PusledProtocol classes. corrected… | Apr 24 2020 | |||
a6e6abff99bc | tlemaire | added TC2 class | Apr 23 2020 | |||
9342c4bfcbda | tlemaire | additional bls lookups | Apr 22 2020 | |||
67531a20cdce | tlemaire | placed StimObject class in a separate stimobj module. added boltons dependency… | Apr 21 2020 | |||
159f140dcfb0 | tlemaire | added BalancedPulsedProtocol class. | Apr 19 2020 | |||
108548aa8cc8 | tlemaire | added max_nsamples parameter to effective solver to avoid memory allocation… | Apr 18 2020 | |||
00f6aa560a10 | tlemaire | defined protocols copy methods. | Apr 18 2020 | |||
0d1777407add | tlemaire | corrected drives and protocols inputs. | Apr 18 2020 | |||
241946f34fa2 | tlemaire | simplified drives and protocols | Apr 17 2020 | |||
5e4003f785f9 | tlemaire | updated inputs precision in protocols | Apr 17 2020 | |||
6895a19a147f | tlemaire | implemented simQueueBurst method in pneuron and nbls classes. | Apr 17 2020 | |||
e3ca275ebe0f | tlemaire | harmonized repr, desc and filecodes methods across protocols. | Apr 17 2020 | |||
e62423f9469d | tlemaire | added update interval argument to HybridSolve.solve method. | Apr 17 2020 | |||
447a9236fa20 | tlemaire | corrected error in computeFRProfile when no spikes are detected. | Apr 17 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 | |||
f8511250c9b8 | tlemaire | corrected LogBatch class to enable correct use with mpi. | Apr 13 2020 | |||
10270ea94712 | tlemaire | added better fs handling in actmap | Apr 13 2020 | |||
a8ffc4cf6311 | tlemaire | removed useless error instance catch in utils | Apr 10 2020 | |||
3af9c9df32cc | tlemaire | added multiprocessing functionality to LogBatch class. | Apr 9 2020 | |||
18480eb7bebc | tlemaire | corrected ActMap class (now inheriting from LogBatch). | Apr 9 2020 | |||
63ef9868bbd2 | tlemaire | added TimeProtocol.stimEvents method (used in NEURON simulations). | Apr 5 2020 | |||
06f8250793a6 | tlemaire | added eventsON and eventsOFF methods to Protocol classes. | Apr 5 2020 | |||
cc5348bc40ca | tlemaire | added __eq__ methods to pneuron and nbls classes | Apr 3 2020 | |||
9239911c1f35 | tlemaire | added ASTIM_REL_CONV_THR to constants file. | Mar 31 2020 | |||
9dcd3884ae33 | tlemaire | added TC fs lookup. | Mar 30 2020 | |||
8f0bbde630a7 | tlemaire | renamed fibers point-neuron models for better interpretability. completed fiber… | Mar 27 2020 | |||
a43249c6ecf1 | tlemaire | tested MRG lookups generation | Mar 26 2020 | |||
066e8e416305 | tlemaire | added polyfit amd extrapolate capabilities to Lookup class. | Mar 19 2020 | |||
8f4b9911c0d3 | tlemaire | Merge branch 'master' of https://c4science.ch/diffusion/4670/pysonic | Feb 28 2020 | |||
c8a9ea2beb92 | tlemaire | added extra functionalities to Lookup class. continued fiber nodes notebook. | Feb 28 2020 | |||
7d61ef15bd3b | vicari | Merge solved | Feb 28 2020 | |||
be6c868e4e5f | vicari | Correction in drives | Feb 28 2020 | |||
165caa8bf488 | tlemaire | moved getMeta to utils | Feb 20 2020 | |||
7f8a3be5ceb4 | tlemaire | changed meta property of model classes to return solely model information. | Feb 20 2020 | |||
b7d520b9ed42 | tlemaire | added LogBatch class | Feb 18 2020 | |||
31cc2d15993a | tlemaire | updated README (added instructions for git-lfs install) | Feb 14 2020 | |||
68961385d17e | tlemaire | added copy method to all model classes. added TI US notebook. updated… | Feb 11 2020 | |||
96d3c580ee81 | tlemaire | replaced erroneous "return NotImplementedError" statements by "raise… | Feb 5 2020 | |||
8907f78b742a | tlemaire | correctd mismatch in ElectricDrive | Feb 5 2020 | |||
892f924d6e9e | tlemaire | renamed ElectricDrive A to I | Feb 5 2020 | |||
31ef6228207a | tlemaire | introduced properties in classes of drives and protocols modules. | Feb 5 2020 | |||
073e28b388f6 | tlemaire | added xkey property to XDrive class and Arange property to pneuron and nbls… | Feb 3 2020 | |||
27d8aafffa88 | tlemaire | Created Drive objects inheritance scheme (now used in all model classes). | Feb 3 2020 | |||
dba63f835a31 | tlemaire | corrected docstring errors in pneuron Cm0 and Qm0 | Feb 3 2020 | |||
062e541857dc | tlemaire | added lookups files in separate lookups folder using LFS. | Feb 3 2020 | |||
9d0666784d2d | tlemaire | Created AcousticSource class to be used for US simulations. | Feb 3 2020 | |||
eec847e65a7a | tlemaire | added sundt fs lookups. adapted RS fs lookups. adapted nbls.getLookup2D method… | Jan 26 2020 | |||
6846298198d4 | tlemaire | added interp_method Lookup attribute to enable choice of lookup interpolation… | Jan 26 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 | |||
1919e3105ee4 | tlemaire | added toDict, toJson, fromDict and fromJson methods to Lookup class. | Jan 23 2020 | |||
f4ea3f48765e | vicari | Merge completed | Jan 22 2020 | |||
e4f4732ffbab | vicari | Extra entry in bls lookup | Jan 22 2020 | |||
8478fde7a5d4 | tlemaire | Automated getModel using automatically generated dictionary of models with… | Jan 14 2020 | |||
a0b6724a45a5 | tlemaire | removed plotVarQSSDynamics function from QSS and plot_QSS | Dec 14 2019 | |||
d0b57c5e137d | tlemaire | re-ran and completed STN notebook | Dec 6 2019 | |||
bac984960467 | tlemaire | corrected nbls fullDerivatives, simFull and simHybrid methods (removed phi… | Dec 4 2019 | |||
a29eea02e330 | tlemaire | changed Lookup repr method. added test_lkp test file. | Dec 4 2019 | |||
f8107574d0a8 | tlemaire | added threshold module with isolated threshold function (now used for all… | Dec 2 2019 | |||
6deb0da8868d | tlemaire | added internal bls.simUntilConvergence method (without decorators) to enable… | Nov 26 2019 | |||
b46ab57b16d3 | tlemaire | corrected borg-graham formalism methods | Nov 22 2019 | |||
6197f85f0709 | tlemaire | corrected Astim factor error in pneuron desc. added extra parsing methods | Nov 20 2019 | |||
456fa71d226b | tlemaire | added qss_vars and pulse-avg run options to nbls simSonic method. | Nov 20 2019 | |||
681033068b15 | tlemaire | updated titrations log | Nov 15 2019 | |||
5da540f0f401 | tlemaire | moved model.simAndSave to utils to facilitate use in ExSONIC | Nov 14 2019 | |||
36119dd01aec | tlemaire | moved filecode function to utils | Nov 14 2019 | |||
de255e65bccc | tlemaire | Major update: | Nov 14 2019 | |||
a26469ca67dc | tlemaire | added equality operators to TimeProtocol and PulsedProtocol classes. | Nov 14 2019 | |||
4a5626da478c | tlemaire | improved filecodes generation from meta dictionary in Model.filecode | Nov 13 2019 | |||
bc1800471252 | tlemaire | created Timeprotocol and PulsedProtocol classes, now used in pneuron, nbls and… | Nov 13 2019 | |||
f1d2ab4cfb4b | tlemaire | added PointNeuron alphaBorgGaham and betaBorgGraham methods, now used for sundt… | Nov 7 2019 | |||
a2c1e3e2eb02 | tlemaire | modified nbls.QSSderivatives and nbls.__simQSS to work with any specified… | Nov 6 2019 | |||
aee2c4e6cb21 | tlemaire | added Lookup.tile and modified SmartLookup.projectDC. modified nbls. | Oct 10 2019 | |||
20f96c135bce | tlemaire | defined Lookup algorihtmic operators. defined OnOffSimulator class. defined… | Oct 7 2019 | |||
d992992a3693 | tlemaire | commented out numdifftools import. updated README.md | Oct 2 2019 | |||
06580e30545f | tlemaire | corrected addThresholdCurve. updated astim_titrations.log with latest batch | Oct 1 2019 | |||
21401e741886 | tlemaire | updated ActivationMap (removed correctAmp method). corrected TimeSeriesPlot. | Sep 30 2019 | |||
dd102470b272 | tlemaire | added method type in nbls.simulate logging | Sep 18 2019 | |||
6fb96a1716d1 | tlemaire | corrected tirations log file | Sep 18 2019 | |||
69faba51e2c1 | tlemaire | in PWSimulator.compute: added division of offset interval in several slices if… | Sep 17 2019 | |||
133c0ab1ac73 | tlemaire | changed outputdir to keyword argument in queue items in Model.checkOutputDir… | Sep 17 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 | |||
83cf10bbf6e7 | tlemaire | replaced hypersampling error by warning message PWSimulator.downsample | Sep 17 2019 | |||
6d8b2b3d4804 | tlemaire | updated titrations log | Sep 16 2019 | |||
d65e74f5c30c | tlemaire | implemmented inheritance scheme for PointNeuron.chooseTimeStep method | Sep 11 2019 | |||
bd840351d13f | tlemaire | corrected SweeneyNode alpham equation according to Basser and Roth, 1991. | Sep 10 2019 | |||
c4d24a293f93 | tlemaire | renamed Simulator.resample method to downsample in order to avoid confusion… | Sep 6 2019 | |||
107df2b92970 | tlemaire | corrected minor issues in spike detection functions (dt bounding for resampling… | Sep 6 2019 | |||
614c56792d61 | tlemaire | expanded charge range for pneuron.getLookup | Sep 4 2019 | |||
fd4639a4c602 | tlemaire | parametrised Qm plot range to be neuron-specific. Solved issue with pbar update. | Sep 2 2019 | |||
d2ccd21d9889 | tlemaire | corrected crucial error in nbls.spatialAverage method. corrected Cm0 and Qm0… | Sep 2 2019 | |||
1b3cffe95e7a | tlemaire | added sweeney lookups (ASTIM not working yet). added fixLookup to remove single… | Aug 29 2019 | |||
8226a9490c9b | tlemaire | adapted constants to enable sweeney lookups creation. | Aug 26 2019 |
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