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tlemaire (Théo Lemaire)

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User Details

User Since
Aug 21 2017, 12:19 (161 w, 1 h)
Availability
Available
Organization
epfl.ch (university)

Recent Activity

Tue, Sep 15

tlemaire committed R4670:bb9f2c79c74a: latest changes for morphoSONIC paper (authored by tlemaire).
latest changes for morphoSONIC paper
Tue, Sep 15, 12:24

Aug 8 2020

tlemaire committed R4670:e54883c44689: added Lookup.reduce method to compute bls gamma_lkp on-the-fly (removed… (authored by tlemaire).
added Lookup.reduce method to compute bls gamma_lkp on-the-fly (removed…
Aug 8 2020, 16:38
tlemaire committed R4670:a3951dd16d9c: added postpro.filtfilt function and plot_Cm_filtering script (authored by tlemaire).
added postpro.filtfilt function and plot_Cm_filtering script
Aug 8 2020, 15:49

Aug 6 2020

tlemaire committed R4670:0526b07ebff9: added mirrorProp and mirrorAxis functions to pltutils. (authored by tlemaire).
added mirrorProp and mirrorAxis functions to pltutils.
Aug 6 2020, 17:56

Aug 5 2020

tlemaire committed R4670:aa8497513a7a: corrected error in bls.logRelGap. Re-computed Cm_lkp (authored by tlemaire).
corrected error in bls.logRelGap. Re-computed Cm_lkp
Aug 5 2020, 21:25
tlemaire committed R4670:e57b064d8f70: simplified bls.capacitance expresion (authored by tlemaire).
simplified bls.capacitance expresion
Aug 5 2020, 20:43
tlemaire committed R4670:bf832e749cbd: added FHnode fs lookup at 36 celsius. (authored by tlemaire).
added FHnode fs lookup at 36 celsius.
Aug 5 2020, 11:23

Aug 4 2020

tlemaire committed R4670:ed71c4613b28: replaced nbls NEURONS_LOOKUP_DIR by a more general LOOKUP_DIR defined in utils (authored by tlemaire).
replaced nbls NEURONS_LOOKUP_DIR by a more general LOOKUP_DIR defined in utils
Aug 4 2020, 17:57
tlemaire committed R4670:d5c62320c0e3: added expandRange docstring (authored by tlemaire).
added expandRange docstring
Aug 4 2020, 17:57

Aug 3 2020

tlemaire committed R4670:52e16ec74047: added nmin parameter to PeriodicSolver.solve and BilayerSonophore.simCycles. (authored by tlemaire).
added nmin parameter to PeriodicSolver.solve and BilayerSonophore.simCycles.
Aug 3 2020, 23:14
tlemaire committed R4670:1c0831f723b0: added tau_pas plotting to plotGatingKinetics (authored by tlemaire).
added tau_pas plotting to plotGatingKinetics
Aug 3 2020, 23:14

Jul 23 2020

tlemaire committed R4670:ac56c3baa94e: cleaned up BilayerSonophore.getPltVars (authored by tlemaire).
cleaned up BilayerSonophore.getPltVars
Jul 23 2020, 11:17

Jul 22 2020

tlemaire committed R4670:aaeaaeac3732: removed call to unstable iax in pltvars['iax'] definition (authored by tlemaire).
removed call to unstable iax in pltvars['iax'] definition
Jul 22 2020, 16:45
tlemaire committed R4670:0d4af61c20f7: corrected PointNeuron dQdt method (now calculating charge derviative by finite… (authored by tlemaire).
corrected PointNeuron dQdt method (now calculating charge derviative by finite…
Jul 22 2020, 11:02

Jul 21 2020

tlemaire committed R4670:d4364da996c8: added symmetric colormaps and corrected ComparativePlot cbar levels for int… (authored by tlemaire).
added symmetric colormaps and corrected ComparativePlot cbar levels for int…
Jul 21 2020, 22:13
tlemaire committed R4670:fd4b6531e872: specified logger handler stream to sys.stdout to avoid red background in… (authored by tlemaire).
specified logger handler stream to sys.stdout to avoid red background in…
Jul 21 2020, 20:04
tlemaire committed R4670:4884f5695b3e: added HH point neuron (authored by tlemaire).
added HH point neuron
Jul 21 2020, 16:19
tlemaire committed R4670:42a3be29b47b: introduced default celsius (36°C) as a PointNeuron property shared by all… (authored by tlemaire).
introduced default celsius (36°C) as a PointNeuron property shared by all…
Jul 21 2020, 16:19
tlemaire committed R4670:133be2f739dd: added celsius parameter (36.0) to cortical and thalamic neurons. (authored by tlemaire).
added celsius parameter (36.0) to cortical and thalamic neurons.
Jul 21 2020, 16:19
tlemaire committed R4670:de400ab21db3: corrected gaussian formula so that sigma matches definition of standard… (authored by tlemaire).
corrected gaussian formula so that sigma matches definition of standard…
Jul 21 2020, 16:19

Jul 15 2020

tlemaire committed R4670:c9894bdbd61c: removed SilentMRGNode class (now generated on-the-fly in analysis notebook) (authored by tlemaire).
removed SilentMRGNode class (now generated on-the-fly in analysis notebook)
Jul 15 2020, 21:24
tlemaire committed R4670:a8ba89d095f5: implemented passiveNeuron wrapper function to generate PassiveNeuron class… (authored by tlemaire).
implemented passiveNeuron wrapper function to generate PassiveNeuron class…
Jul 15 2020, 12:18
tlemaire committed R4670:095a41517e86: added pneuron.tau_pas property (authored by tlemaire).
added pneuron.tau_pas property
Jul 15 2020, 10:42
tlemaire committed R4670:3998f71a5a6f: added LogBatch getSerlializedOutput and getEntryOutput methods. (authored by tlemaire).
added LogBatch getSerlializedOutput and getEntryOutput methods.
Jul 15 2020, 10:42

Jun 26 2020

tlemaire committed R4670:66f49d8e6545: added log scale option for tau axis in plotGatingStates (authored by tlemaire).
added log scale option for tau axis in plotGatingStates
Jun 26 2020, 17:39

Jun 24 2020

tlemaire committed R4670:4b2fc8c0eea5: added pairwise utils function. added GroupedTimeSeries.shareX static method. (authored by tlemaire).
added pairwise utils function. added GroupedTimeSeries.shareX static method.
Jun 24 2020, 11:05

Jun 4 2020

tlemaire committed R4670:64ec46ae1392: corrected Lookup and TimeSeries division operators. (authored by tlemaire).
corrected Lookup and TimeSeries division operators.
Jun 4 2020, 22:07
tlemaire committed R4670:bebce73d9405: updated MANIFEST file. (authored by tlemaire).
updated MANIFEST file.
Jun 4 2020, 22:07

May 18 2020

tlemaire committed R4670:ef08cb208ad1: updated README. (authored by tlemaire).
updated README.
May 18 2020, 15:23

May 7 2020

tlemaire committed R4670:0c7bff925bd5: corrected index offset error in GenericPlot.addCmap (authored by tlemaire).
corrected index offset error in GenericPlot.addCmap
May 7 2020, 16:20
tlemaire committed R4670:bbb3a4445235: added strictbounds plotting options (authored by tlemaire).
added strictbounds plotting options
May 7 2020, 16:20

May 4 2020

tlemaire committed R4670:2c0253a46427: added extractCommonPrefix utils function. (authored by tlemaire).
added extractCommonPrefix utils function.
May 4 2020, 12:35

May 2 2020

tlemaire committed R4670:9b03fd5152c2: corrected DrivenNeuronalBilayerSonophore.inputs (authored by tlemaire).
corrected DrivenNeuronalBilayerSonophore.inputs
May 2 2020, 17:17
tlemaire committed R4670:e1f537dcc076: corrected error in solve_ivp call. (authored by tlemaire).
corrected error in solve_ivp call.
May 2 2020, 17:11
tlemaire committed R4670:db1a0c16e84b: added actmap NaN data post-processing to prevent numpy warning when using log z… (authored by tlemaire).
added actmap NaN data post-processing to prevent numpy warning when using log z…
May 2 2020, 14:52
tlemaire committed R4670:430d7c8131f0: new astim titrations for figure 8 (authored by tlemaire).
new astim titrations for figure 8
May 2 2020, 12:08

May 1 2020

tlemaire committed R4670:6d2bc897725d: Merge branch 'master' of https://c4science.ch/diffusion/4670/pysonic (authored by tlemaire).
Merge branch 'master' of https://c4science.ch/diffusion/4670/pysonic
May 1 2020, 22:48
tlemaire committed R4670:c8cdcf5deefc: added new titrations (authored by tlemaire).
added new titrations
May 1 2020, 22:48
tlemaire committed R4670:bd7a6ec5a477: corrected ComparativePlot and CompTimeSeries to enable taking generators as… (authored by tlemaire).
corrected ComparativePlot and CompTimeSeries to enable taking generators as…
May 1 2020, 22:45
tlemaire committed R4670:5742df202a16: new figure 7 titrations for high PRF low DC (authored by tlemaire).
new figure 7 titrations for high PRF low DC
May 1 2020, 20:25
tlemaire committed R4670:fa9c541d7842: applied correction to ODESolver.getNsamples to make sure there are at least 2… (authored by tlemaire).
applied correction to ODESolver.getNsamples to make sure there are at least 2…
May 1 2020, 19:28
tlemaire committed R4670:28d338972b7c: new figure 7 titrations (authored by tlemaire).
new figure 7 titrations
May 1 2020, 18:37

Apr 30 2020

tlemaire committed R4670:74c7618b792a: added new astim titrations (authored by tlemaire).
added new astim titrations
Apr 30 2020, 16:46
tlemaire committed R4670:835803fa8d6b: added progress bar logging to nbls.simFull at INFO level. (authored by tlemaire).
added progress bar logging to nbls.simFull at INFO level.
Apr 30 2020, 13:27

Apr 29 2020

tlemaire committed R4670:4e922dc3531c: corrected scaling factor in actmap.addThresholdCurve (authored by tlemaire).
corrected scaling factor in actmap.addThresholdCurve
Apr 29 2020, 22:56
tlemaire committed R4670:524072855745: defined Thresholder class for a clearer threshold search implementation. (authored by tlemaire).
defined Thresholder class for a clearer threshold search implementation.
Apr 29 2020, 22:56
tlemaire committed R4670:1dd1b969d0e2: added RS 10Hz titrations. (authored by tlemaire).
added RS 10Hz titrations.
Apr 29 2020, 17:58
tlemaire committed R4670:efb7e6effc92: corrected queue error in actmap.addTresholdCurve (authored by tlemaire).
corrected queue error in actmap.addTresholdCurve
Apr 29 2020, 17:09
tlemaire committed R4670:0a9b43830b05: corrected DC scaling in actmap.addThresholdCurve (authored by tlemaire).
corrected DC scaling in actmap.addThresholdCurve
Apr 29 2020, 16:23
tlemaire committed R4670:d4087b3210f3: added mpi feature to actmap threshold curve. (authored by tlemaire).
added mpi feature to actmap threshold curve.
Apr 29 2020, 16:18
tlemaire committed R4670:81fe27f05196: changed bls.inputs['a'] (factor 0, unit m). (authored by tlemaire).
changed bls.inputs['a'] (factor 0, unit m).
Apr 29 2020, 12:36

Apr 28 2020

tlemaire committed R4670:fcb5a387a33e: added input-ouput match pre-check in LogBatch.run method to avoid unnecessary… (authored by tlemaire).
added input-ouput match pre-check in LogBatch.run method to avoid unnecessary…
Apr 28 2020, 21:21

Apr 26 2020

tlemaire committed R4670:2eb3a3768e1e: modified BurstProtocol default BRF such that BRI is twice burst time. (authored by tlemaire).
modified BurstProtocol default BRF such that BRI is twice burst time.
Apr 26 2020, 19:22
tlemaire committed R4670:fab05bc88fea: corrected simobj.check methods (incorrect paramStr call). added BRF pre-check… (authored by tlemaire).
corrected simobj.check methods (incorrect paramStr call). added BRF pre-check…
Apr 26 2020, 19:10

Apr 24 2020

tlemaire committed R4670:20183f45302e: added baseline_modulation example script (authored by tlemaire).
added baseline_modulation example script
Apr 24 2020, 11:23
tlemaire committed R4670:6dedc53ccbc8: added optional tstart argument to PusledProtocol classes. corrected… (authored by tlemaire).
added optional tstart argument to PusledProtocol classes. corrected…
Apr 24 2020, 11:04

Apr 23 2020

tlemaire committed R4670:5b268a756bc5: added TCtweak70 and TCtweak50 cases. (authored by tlemaire).
added TCtweak70 and TCtweak50 cases.
Apr 23 2020, 12:43
tlemaire committed R4670:a6e6abff99bc: added TC2 class (authored by tlemaire).
added TC2 class
Apr 23 2020, 12:43
tlemaire committed R4670:93d5100bbbce: introduced lambda function for test.execute calls (authored by tlemaire).
introduced lambda function for test.execute calls
Apr 23 2020, 12:43

Apr 22 2020

tlemaire committed R4670:9342c4bfcbda: additional bls lookups (authored by tlemaire).
additional bls lookups
Apr 22 2020, 12:57

Apr 21 2020

tlemaire committed R4670:7f1709df1d92: defined friendlyLogspace function (authored by tlemaire).
defined friendlyLogspace function
Apr 21 2020, 21:02
tlemaire committed R4670:67531a20cdce: placed StimObject class in a separate stimobj module. added boltons dependency… (authored by tlemaire).
placed StimObject class in a separate stimobj module. added boltons dependency…
Apr 21 2020, 21:02

Apr 19 2020

tlemaire committed R4670:2a0fec5672f0: added TC lookup 80 nm 590 kHz (authored by tlemaire).
added TC lookup 80 nm 590 kHz
Apr 19 2020, 16:41
tlemaire committed R4670:b7a48187478a: added few utils functions (authored by tlemaire).
added few utils functions
Apr 19 2020, 16:38
tlemaire committed R4670:159f140dcfb0: added BalancedPulsedProtocol class. (authored by tlemaire).
added BalancedPulsedProtocol class.
Apr 19 2020, 16:38
tlemaire committed R4670:7fdbe8544e52: added 48 nm TC lookups (authored by tlemaire).
added 48 nm TC lookups
Apr 19 2020, 11:54

Apr 18 2020

tlemaire committed R4670:108548aa8cc8: added max_nsamples parameter to effective solver to avoid memory allocation… (authored by tlemaire).
added max_nsamples parameter to effective solver to avoid memory allocation…
Apr 18 2020, 21:26
tlemaire committed R4670:a72a071b87d0: added more TC lookups. (authored by tlemaire).
added more TC lookups.
Apr 18 2020, 21:04
tlemaire committed R4670:72c8577885a8: corrected units discrepancy in actmap.py (authored by tlemaire).
corrected units discrepancy in actmap.py
Apr 18 2020, 21:01
tlemaire committed R4670:a3ca81f69d0a: corrected TimSeries.getStimPulses function (no patches for zero states). (authored by tlemaire).
corrected TimSeries.getStimPulses function (no patches for zero states).
Apr 18 2020, 16:15
tlemaire committed R4670:83d7d8df16fa: updated README (authored by tlemaire).
updated README
Apr 18 2020, 15:52
tlemaire committed R4670:00f6aa560a10: defined protocols copy methods. (authored by tlemaire).
defined protocols copy methods.
Apr 18 2020, 15:11
tlemaire committed R4670:0d1777407add: corrected drives and protocols inputs. (authored by tlemaire).
corrected drives and protocols inputs.
Apr 18 2020, 13:23

Apr 17 2020

tlemaire committed R4670:241946f34fa2: simplified drives and protocols (authored by tlemaire).
simplified drives and protocols
Apr 17 2020, 23:28
tlemaire committed R4670:5e4003f785f9: updated inputs precision in protocols (authored by tlemaire).
updated inputs precision in protocols
Apr 17 2020, 20:49
tlemaire committed R4670:b80a24a22518: updated README (authored by tlemaire).
updated README
Apr 17 2020, 20:46
tlemaire committed R4670:5fe7fba7ad8c: cleand-up run_astim.py (authored by tlemaire).
cleand-up run_astim.py
Apr 17 2020, 20:25
tlemaire committed R4670:420b1c0ceb3e: added 64nm 590 kHz fs-dependent TC lookup (authored by tlemaire).
added 64nm 590 kHz fs-dependent TC lookup
Apr 17 2020, 20:19
tlemaire committed R4670:e3ca275ebe0f: harmonized repr, desc and filecodes methods across protocols. (authored by tlemaire).
harmonized repr, desc and filecodes methods across protocols.
Apr 17 2020, 20:16
tlemaire committed R4670:6895a19a147f: implemented simQueueBurst method in pneuron and nbls classes. (authored by tlemaire).
implemented simQueueBurst method in pneuron and nbls classes.
Apr 17 2020, 20:16
tlemaire committed R4670:e62423f9469d: added update interval argument to HybridSolve.solve method. (authored by tlemaire).
added update interval argument to HybridSolve.solve method.
Apr 17 2020, 15:27
tlemaire committed R4670:e775528e1afc: cleaned-up find_tpeaks function (authored by tlemaire).
cleaned-up find_tpeaks function
Apr 17 2020, 15:27
tlemaire committed R4670:447a9236fa20: corrected error in computeFRProfile when no spikes are detected. (authored by tlemaire).
corrected error in computeFRProfile when no spikes are detected.
Apr 17 2020, 14:53

Apr 16 2020

tlemaire committed R4670:69892d75c503: improved solvers docstrings and clarified their use in model classes. (authored by tlemaire).
improved solvers docstrings and clarified their use in model classes.
Apr 16 2020, 13:31

Apr 15 2020

tlemaire committed R4670:81c3d55cddff: added 2 MHz 32nm TC lookup. (authored by tlemaire).
added 2 MHz 32nm TC lookup.
Apr 15 2020, 21:10
tlemaire committed R4670:b77cd9e4eb12: implemented better solvers (now inside solvers module), including an… (authored by tlemaire).
implemented better solvers (now inside solvers module), including an…
Apr 15 2020, 21:04
tlemaire committed R4670:d03caf415e89: removed ambiguity around initialConditions methods to allow correct lookups… (authored by tlemaire).
removed ambiguity around initialConditions methods to allow correct lookups…
Apr 15 2020, 21:04

Apr 13 2020

tlemaire committed R4670:7ae0b7961ae4: added TC fs lookup at 1 MHz. (authored by tlemaire).
added TC fs lookup at 1 MHz.
Apr 13 2020, 18:32
tlemaire committed R4670:b44cc93c9915: replaced "Ascale" parsing options by "yscale" for more clarity. (authored by tlemaire).
replaced "Ascale" parsing options by "yscale" for more clarity.
Apr 13 2020, 18:18
tlemaire committed R4670:f8511250c9b8: corrected LogBatch class to enable correct use with mpi. (authored by tlemaire).
corrected LogBatch class to enable correct use with mpi.
Apr 13 2020, 18:00
tlemaire committed R4670:10270ea94712: added better fs handling in actmap (authored by tlemaire).
added better fs handling in actmap
Apr 13 2020, 12:37

Apr 10 2020

tlemaire committed R4670:a8ffc4cf6311: removed useless error instance catch in utils (authored by tlemaire).
removed useless error instance catch in utils
Apr 10 2020, 18:36

Apr 9 2020

tlemaire committed R4670:077023563760: added example actmap script (authored by tlemaire).
added example actmap script
Apr 9 2020, 16:19
tlemaire committed R4670:4907be82d296: changed default actmap tstim from 1s to 200 ms (authored by tlemaire).
changed default actmap tstim from 1s to 200 ms
Apr 9 2020, 16:13
tlemaire committed R4670:3af9c9df32cc: added multiprocessing functionality to LogBatch class. (authored by tlemaire).
added multiprocessing functionality to LogBatch class.
Apr 9 2020, 15:53
tlemaire committed R4670:18480eb7bebc: corrected ActMap class (now inheriting from LogBatch). (authored by tlemaire).
corrected ActMap class (now inheriting from LogBatch).
Apr 9 2020, 14:07

Apr 5 2020

tlemaire committed R4670:63ef9868bbd2: added TimeProtocol.stimEvents method (used in NEURON simulations). (authored by tlemaire).
added TimeProtocol.stimEvents method (used in NEURON simulations).
Apr 5 2020, 17:59
tlemaire committed R4670:06f8250793a6: added eventsON and eventsOFF methods to Protocol classes. (authored by tlemaire).
added eventsON and eventsOFF methods to Protocol classes.
Apr 5 2020, 15:23

Apr 4 2020

tlemaire committed R4670:afdde67646ea: moved example scripts to examples folder and defined README.mdpp markdown… (authored by tlemaire).
moved example scripts to examples folder and defined README.mdpp markdown…
Apr 4 2020, 16:40

Apr 3 2020

tlemaire committed R4670:cc5348bc40ca: added __eq__ methods to pneuron and nbls classes (authored by tlemaire).
added __eq__ methods to pneuron and nbls classes
Apr 3 2020, 15:34