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August 16, 2010
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Destroying 1 pre-existing parallel job(s) created by matlabpool that were in the
finished or failed state.
Starting matlabpool using the 'local' configuration ... connected to 4 labs.
>> pwd
ans =
/home/cengiz/work/pandora
>> cd ~/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data/
>> ls
brute_1.save data1_0_pAcip.bin data20_0_pAcip.bin
brute_20.save data1_100_pAcip.bin data20_100_pAcip.bin
>> t = trace('data1_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data1_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t)
ans =
1
>> res = getResults(t)
{??? Input argument "a_spikes" is undefined.
Error in ==> trace.getResults at 33
results = mergeStructs(getRateResults(a_trace, a_spikes), ...
}
>> s = spikes(t)
spikes, id=GP sim1
ans =
times: [1329 3357 5392 7433 9479 11530 13586 15645 17708]
num_samples: 19001
dt: 1.0000e-04
id: 'GP sim1'
>> res = getResults(t, s)
res =
ISICV: 0.0059
SpikeRate: 4.7368
SpikeRateISI: 4.8843
avg: -64.1681
max: 38.5472
min: -70.0721
>> plot(s)
ans =
2
>> a_prof = getPro
{??? Undefined function or variable 'getPro'.
}
>> methods trace
Methods for class trace:
analyzeSpikesInPeriod getSpike set
avgTraces lowpassfilt setProp
binary_op medianfilt spike_shape
calcAvg minus spikes
calcMax mtimes sqrt
calcMin periodWhole subsasgn
display plot subsref
findFilteredSpikes plotData times
get plot_abstract trace
getDy plus uminus
getPotResults power unary_op
getProfileAllSpikes rdivide withinPeriod
getRateResults runAvg
getResults saveAsNeuronVecAscii
>> a_prof = getProfileAllSpikes(t)
{Warning: Error in GP sim1 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{??? Reference to non-existent field 'id'.
Error in ==> getfield at 38
f = s.(deblank(strField)); % deblank field name
Error in ==> results_profile.get at 12
b = getfield(struct(a), attr);
Error in ==> results_profile.display at 12
disp(sprintf('%s, %s', class(t), get(t, 'id')));
}
>> help trace/getProfileAllSpikes
getProfileAllSpikes - Creates a trace_allspikes_profile object by collecting test results of a trace, analyzing each individual spike.
Usage:
profile_obj = getProfileAllSpikes(a_trace)
Parameters:
a_trace: A trace object.
Returns:
profile_obj: A trace_allspikes_profile object.
Description:
Analyzes the spontaneous (periodIniSpont), pulse (periodPulse) and the
recovery (periodRecSpont) periods separately and produces spike shape
distribution results. Rate and CIP measurements are added to these.
See also: trace, trace_allspikes_profile
$Id: getProfileAllSpikes.m 896 2007-12-17 18:48:55Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2005/04/26
>> size(a_prof)
ans =
1 1
>> a_prof
{??? Reference to non-existent field 'id'.
Error in ==> getfield at 38
f = s.(deblank(strField)); % deblank field name
Error in ==> results_profile.get at 12
b = getfield(struct(a), attr);
Error in ==> trace_allspikes_profile.display at 12
disp(sprintf('%s, %s', class(t), get(t, 'id')));
}
>> a_prof
trace_allspikes_profile, GP sim1
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, GP sim1
ans =
results: [1x1 struct]
id: 'GP sim1'
props: [0x0 struct]
ISICV: 0.0059
SpikeRate: 4.7368
SpikeRateISI: 4.8843
avg: -64.1681
max: 38.5472
min: -70.0721
SpikeAmplitudeMean: 88.7882
SpikeAmplitudeMode: 88.5418
SpikeAmplitudeSTD: 0.6131
SpikeBaseWidthMean: 2.1973
SpikeBaseWidthMode: 2.1194
SpikeBaseWidthSTD: 0.1450
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.7333
SpikeFallTimeMode: 1.7010
SpikeFallTimeSTD: 0.0707
SpikeFixVWidthMean: 1.1370
SpikeFixVWidthMode: 1.1325
SpikeFixVWidthSTD: 0.0037
plot SpikeHalfVmMean: -6.0533
SpikeHalfVmMode: -5.9603
SpikeHalfVmSTD: 0.3675
SpikeHalfWidthMean: 1.0712
SpikeHalfWidthMode: 1.0644
SpikeHalfWidthSTD: 0.0062
SpikeInitTimeMean: 6.6382
SpikeInitTimeMode: 6.6986
SpikeInitTimeSTD: 0.0955
SpikeInitVmBySlopeMean: -50.2910
SpikeInitVmBySlopeMode: -50.8911
SpikeInitVmBySlopeSTD: 0.3699
SpikeInitVmMean: -50.4473
SpikeInitVmMode: -51.8002
SpikeInitVmSTD: 0.6665
SpikeMaxAHPMean: 19.6204
SpikeMaxAHPMode: 19.7919
SpikeMaxAHPSTD: 0.6646
SpikeMaxVmSlopeMean: 362.9439
SpikeMaxVmSlopeMode: 338.2374
SpikeMaxVmSlopeSTD: 19.5736
SpikeMinTimeMean: 35.6889
SpikeMinTimeMode: 35.6995
SpikeMinTimeSTD: 0.0333
SpikeMinVmMean: -70.0678
SpikeMinVmMode: -70.0719
SpikeMinVmSTD: 0.0028
SpikePeakVmMean: 38.3408
SpikePeakVmMode: 38.2260
SpikePeakVmSTD: 0.1176
SpikeRiseTimeMean: 0.4640
SpikeRiseTimeMode: 0.4197
SpikeRiseTimeSTD: 0.0758
Spikes: 9
>> plot(a_prof)
{??? Cell contents reference from a non-cell array object.
Error in ==> results_profile.subsref at 24
b = a{index.subs{:}};
Error in ==> plot_abstract.plot at 81
ph = feval(a_plot.command, a_plot.data{:});
Error in ==> plot_abstract.plotFigure at 99
plot(a_plot);
Error in ==> results_profile.plot at 34
h = plotFigure(plot_abstract(a_tests_db, title_str));
}
>> plot(a_prof.a_spikes_db)
{??? Reference to non-existent field 'a_spikes_db'.
Error in ==> getfield at 38
f = s.(deblank(strField)); % deblank field name
Error in ==> results_profile.get at 12
b = getfield(struct(a), attr);
Error in ==> trace_allspikes_profile.get at 17
b = get(a.results_profile, attr);
Error in ==> results_profile.subsref at 21
b = get(a, index.subs);
}
>> plot(a_prof.spikes_db)
ans =
3
>> a_prof = getProfileAllSpikes(t)
{Warning: Error in GP sim1 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, GP sim1
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, GP sim1
ans =
results: [1x1 struct]
id: 'GP sim1'
props: [0x0 struct]
ISICV: 0.0059
SpikeRate: 4.7368
SpikeRateISI: 4.8843
avg: -64.1681
max: 38.5472
min: -70.0721
SpikeAmplitudeMean: 88.7882
SpikeAmplitudeMode: 88.5418
SpikeAmplitudeSTD: 0.6131
SpikeBaseWidthMean: 2.1973
SpikeBaseWidthMode: 2.1194
SpikeBaseWidthSTD: 0.1450
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.7333
SpikeFallTimeMode: 1.7010
SpikeFallTimeSTD: 0.0707
SpikeFixVWidthMean: 1.1370
SpikeFixVWidthMode: 1.1325
SpikeFixVWidthSTD: 0.0037
SpikeHalfVmMean: -6.0533
SpikeHalfVmMode: -5.9603
SpikeHalfVmSTD: 0.3675
SpikeHalfWidthMean: 1.0712
SpikeHalfWidthMode: 1.0644
SpikeHalfWidthSTD: 0.0062
SpikeInitTimeMean: 6.6382
SpikeInitTimeMode: 6.6986
SpikeInitTimeSTD: 0.0955
SpikeInitVmBySlopeMean: -50.2910
SpikeInitVmBySlopeMode: -50.8911
SpikeInitVmBySlopeSTD: 0.3699
SpikeInitVmMean: -50.4473
SpikeInitVmMode: -51.8002
SpikeInitVmSTD: 0.6665
SpikeMaxAHPMean: 19.6204
SpikeMaxAHPMode: 19.7919
SpikeMaxAHPSTD: 0.6646
SpikeMaxVmSlopeMean: 362.9439
SpikeMaxVmSlopeMode: 338.2374
SpikeMaxVmSlopeSTD: 19.5736
SpikeMinTimeMean: 35.6889
SpikeMinTimeMode: 35.6995
SpikeMinTimeSTD: 0.0333
SpikeMinVmMean: -70.0678
SpikeMinVmMode: -70.0719
SpikeMinVmSTD: 0.0028
SpikePeakVmMean: 38.3408
SpikePeakVmMode: 38.2260
SpikePeakVmSTD: 0.1176
SpikeRiseTimeMean: 0.4640
SpikeRiseTimeMode: 0.4197
SpikeRiseTimeSTD: 0.0758
Spikes: 9
>> help classes
DJLAB General Purpose Matlab Classes
The following classes are designed as generic templates that can be
subclassed to take specific tasks. They should not be modified for
more specialized tasks.
Basic data wrapper classes that define the measurements:
trace - A voltage/current trace.
spikes - Spike times of a trace.
spike_shape - Averaged spike shape from a trace.
period - Defines time periods to operate on trace or spikes objects.
Classes specialized for CIP experiments tests:
cip_trace - A voltage trace with a CIP applied.
Profile classes that hold test results:
result_profile - Base class that holds a results structure.
trace_profile - Generic example class for holding a trace profile.
cip_trace_profile - Holds cip_trace results. Template class designed
only for subclassing.
cip_trace_allspikes_profile
- Created by cip_trace/getProfileAllSpikes, contains statistics
of spike shape measures from individual spikes.
params_tests_profile- Collects both intermediate and result data structures
from analysis of a params_tests_db.
Dataset classes that point to or hold raw data:
params_tests_dataset - Base class for datasets.
params_tests_fileset - Holds a list of filenames and associated information,
capable of creating a params_tests_db.
params_cip_trace_fileset - Fileset from which cip_trace objects can be created.
physiol_cip_traceset - Dataset of a traceset from a single file.
physiol_cip_traceset_fileset - Dataset of a tracesets from many files.
Database classes created from datasets:
tests_db - Base class for databases. Contains many utilities.
params_tests_db - DB extended to hold parameter values
associated with results.
spikes_db - Holds measures from each individual spike in a trace.
test_3D_db - 3D database of tests that vary with a third variable.
corrcoefs_db - Holds correlation coefficients.
histogram_db - Holds histogram bins.
stats_db - Holds statistical measurements.
ranked_db - Database ranked for a criterion, holds error values or distances.
Bundle classes that bridge the gap between database and it's ancestral dataset:
dataset_db_bundle - Base class of bundles. Puts a processed and raw DBs with datasets.
model_ct_bundle - Bundle for model databases.
physiol_bundle - Bundle for physiology databases.
Plotting classes:
plot_abstract - Base class that holds information sufficient to generate any plot.
plot_simple - Simple extension that works for most simple plots.
plot_stack - Holds horizontal or vertical stack of plot_abstract objects.
plot_inset - Places multiple plots at absolute locations in a figure. Good for insets, etc.
plot_superpose - Allows superposing different plot_abstract's in the same axis.
plot_bars - Multi-axis bar plot with extended errorbars.
plot_errorbar - Errorbar plot.
plot_errorbars - Multi-axis errorbar plot.
Classes for generating formatted printable or presentable documents:
doc_generate - Base class for all document classes.
doc_plot - Holds a plot_abstract and captions, etc.
doc_multi - Combines multiple doc_generate objects.
Script control classes for cluster computing:
script_factory - Generates a set of scripts based on a recipe.
script_array - Designed to execute an array job serially on a computer.
script_array_for_cluster - Executes an array job on a cluster computer.
Notes:
See also: subclasses under classes/cengiz
$Id: Contents.m 806 2007-08-02 18:18:16Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2004/09/14
>> help params_cip_trace_fileset
params_cip_trace_fileset -
Description of a raw dataset consisting of cip_trace files varying
with parameter values.
Usage:
obj = params_cip_trace_fileset(file_pattern, dt, dy,
pulse_time_start, pulse_time_width, id, props)
Description:
This is a subclass of params_tests_fileset.
Parameters:
file_pattern: File pattern mathing all files to be loaded.
dt: Time resolution [s]
dy: y-axis resolution [ISI (V, A, etc.)]
pulse_time_start, pulse_time_width:
Start and width of the pulse [dt]
id: An identification string
props: A structure with any optional properties.
profile_method_name: Use this profile method that takes a
cip_trace object and returns a results_profile class. It
can be 'cip_trace_profile' (default, but outdated) or
'getProfileAllSpikes' (more current).
(All other props are passed to cip_trace objects)
Returns a structure object with the following fields:
params_tests_fileset,
pulse_time_start, pulse_time_width.
General operations on params_cip_trace_fileset objects:
params_cip_trace_fileset - Construct a new object.
display - Returns and displays the identification string.
get - Gets attributes of this object and parents.
subsref - Allows usage of . operator.
loadItemProfile - Builds a cip_trace_profile for a file in the set.
cip_trace - Load a cip_trace corresponding to fileset entry.
cip_trace_profile - Load a cip_trace_profile corresponding to fileset entry.
Example:
>> fileset = params_cip_trace_fileset('/home/abc/data/*.bin', 1e-4, 1e-3, 20001, 10000, 'sim dataset gpsc0501', struct('trace_time_start', 10001, 'type', 'sim', 'scale_y', 1e3))
Additional methods:
See methods('params_cip_trace_fileset'), and
methods('params_tests_fileset').
See also: params_tests_fileset, params_tests_db
$Id: params_cip_trace_fileset.m 1316 2012-02-14 01:00:14Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2004/09/14
>> help params_tests_fileset
params_tests_fileset - Description of a set of data files of raw data varying with parameter values.
Usage:
obj = params_tests_fileset(file_pattern, dt, dy, id, props)
Description:
This is a subclass of params_tests_dataset. This class is used to generate
params_tests_db objects and keep
a connection to the raw data files. This class only keeps names of
files and loads raw data files whenever it's requested. A database
object can easily be generated using the convertion methods.
Most methods defined here can
be used as-is, however some should be overloaded in subclasses.
The specific methods are loadItemProfile.
Parameters:
file_pattern: File pattern, or cell array of patterns, matching all
files to be loaded.
dt: Time resolution [s]
dy: y-axis resolution [ISI (V, A, etc.)]
id: An identification string
props: A structure with any optional properties.
num_params: Number of parameters that appear in filenames.
param_trial_name: Use this name on the filename as the 'trial' parameter.
param_row_filename: If given, the 'trial' parameter will be used
to address rows from this file and acquire parameters.
param_desc_filename: Contains the parameter range descriptions one per
each row. The parameter names are acquired from this file.
param_names: Cell array of parameter names corresponding to the
param_row_filename columns can be specified as an alternative to
specifying param_desc_filename. These names are not for the
parameters present in the data filename.
profile_method_name: It can be one of the profile-creating methods in this
class. E.g., 'trace_profile', 'srp_trace_profile', etc.
(See parent classes and cip_trace object for more props)
Returns a structure object with the following fields:
params_tests_dataset,
path: The pathname to files.
General operations on params_tests_fileset objects:
params_tests_fileset - Construct a new object.
loadItemProfile - Implements the specific way to load raw data
traces for this fileset.
testNames - Returns test names for this fileset. Uses
loadItemProfile to load the raw data.
paramNames - Returns parameter names for this fileset.
itemResultsRow - Uses loadItemProfile to load raw data and
queries it to get parameters and results.
trace - Load a trace corresponding to fileset entry.
trace_profile - Load a trace_profile corresponding to fileset entry.
display - Returns and displays the identification string.
get - Gets attributes of this object and parents.
subsref - Allows usage of . operator.
Additional methods:
See methods('params_tests_fileset')
See also: params_tests_db, tests_db, test_variable_db (N/I)
$Id: params_tests_fileset.m 1317 2012-02-14 01:02:19Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2004/09/09
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> ls
brute_1.save data1_0_pAcip.bin data20_0_pAcip.bin
brute_20.save data1_100_pAcip.bin data20_100_pAcip.bin
>> 4^2*3^7*5
ans =
174960
>> 100602*5
ans =
503010
>> methods tests_db
Methods for class tests_db:
addColumns plot
addLastRow plotBox
addRow plotCovar
allocateRows plotImage
anyRows plotScatter
approxMappingLIBSVM plotScatter3D
approxMappingNNet plotTestsHistsMatrix
approxMappingSVM plotUniquesStats2D
assignRowsTests plotUniquesStatsBars
checkConsistentCols plotUniquesStatsStacked3D
compareRows plotXRows
corrcoef plotYTests
cov plot_abstract
crossProd plot_bars
dbsize plotrow
delColumns plotrows
diff plus
display princomp
displayRows processDimNonNaNInf
displayRowsCSV rankMatching
displayRowsTeX rdivide
end renameColumns
enumerateColumns rop
eq rows2Struct
factoran set
fillMissingColumns setProp
ge setRows
get shufflerows
getColNames sortrows
groupBy sqrt
gt statsAll
hist3 statsBounds
histogram statsMeanSE
invarValues statsMeanStd
isinf std
isnan subsasgn
isnanrows subsref
joinRows sum
kmeansCluster swapRowsPages
le tests2cols
lt tests2idx
matchingRow tests2log
max testsHists
mean tests_db
meanDuplicateRows times
minus transpose
mtimes uminus
ne unique
noNaNRows uop
onlyRowsTests vertcat
physiol_bundle
>> t_100pA = trace('data1_100_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data1_100_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t_100pA)
ans =
4
>> whos
Name Size Bytes Class Attributes
a_plot 1x1 305904 plot_abstract
a_prof 1x1 326716 trace_allspikes_profile
ans 1x1 8 double
res 1x1 1104 struct
s 1x1 806 spikes
t 1x1 153476 trace
t_100pA 1x1 153476 trace
>> methods params_tests_db
Methods for class params_tests_db:
addParams joinRows rankVsAllDB
crossProd makeGenesisParFile rankVsDB
delColumns matchingRow reIndexNeurons
display meanDuplicateParams scaleParamsOneRow
displayRankingsTeX mergeMultipleCIPsInOne scanParamAllRows
fillMissingParams onlyRowsTests set
get paramsCoefs subsref
getDualCIPdb paramsHists testsHists
getParamNames paramsParamsCoefs unionCat
getParamRowIndices paramsTestsCoefsHists unionCatTwo
getProfile params_tests_db
invarParam plotParamsHists
invarParams plotVarBoxMatrix
>> help makeGenesisParFile
--- help for params_tests_db/makeGenesisParFile ---
makeGenesisParFile - Creates a Genesis parameter file with all the parameter values in a_db.
Usage:
makeGenesisParFile(a_db, filename, props)
Description:
For each a_db row, print the parameter names in a
file formatted for Genesis.
Parameters:
a_db: A params_tests_db object.
filename: Genesis parameter file to be created.
props: A structure with any optional properties.
trialStart: If given, adds/replaces the trial parameter and counts forward.
makeParamDesc: If 1, put the parameter names in a parameter description file with
with a .txt extension.
Returns:
nothing.
Example:
>> blocked_rows_db = makeModifiedParamDB(ranked_for_gps0501a_db, 1, [1, 2], 10, [-100 100]);
>> makeGenesisParFile(blocked_rows_db, 'blocked_gps0501-03.par')
See also: makeModifiedParamDB, scanParamAllRows, scaleParamsOneRow
$Id: makeGenesisParFile.m 1174 2009-03-31 03:14:21Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2005/03/13
>> help makeModifiedParamDB
makeModifiedParamDB not found.
Use the Help browser search field to search the documentation, or
type "help help" for help command options, such as help for methods.
>> help scaleParamsOneRow
--- help for params_tests_db/scaleParamsOneRow ---
scaleParamsOneRow - Scales chosen parameters in a row by multiplying with levels to create a new parameter db with as many rows as values in levels.
Usage:
a_params_db = scaleParamsOneRow(a_db, params, levels)
Description:
Produces rows by multiplying desired params, in the first row of DB,
with each value in levels. Then, makeGenesisParFile can be used to generate
a parameter file from this DB to drive new simulations.
Parameters:
a_db: A params_tests_db object whose first row is subject to modifications.
params: Parameters to be varied (see tests2cols for param description).
levels: Column vector of parameter value multipliers (1=unity).
Returns:
a_params_db: A db only with params.
Example:
Blocks NaF from 0%-100% with 10% increments.
>> naf_rows_db = scanOneParam(a_db(desired_row, :), 'NaF', 0:0.1:1);
See also: ranked_db/blockedDistances, getParamRowIndices, makeGenesisParFile
$Id: scaleParamsOneRow.m 896 2007-12-17 18:48:55Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2006/02/16
>> help params_tests_db
params_tests_db - A generic database of test results varying with parameter values, organized in a matrix format.
Usage 1:
obj = params_tests_db(params, param_names, a_test_results,
test_names, id, props)
Parameters:
params, a_test_results: Matrices that contain columns associated with
values and rows for separate observations.
param_names, test_names: Cell arrays of column names of params,
and a_test_results, respectively.
id: An identifying string.
props: A structure with any optional properties.
Usage 2:
obj = params_tests_db(num_params, a_tests_db, props)
Parameters:
num_params: Number of parameters.
a_tests_db: A tests_db upon which to build the params_tests_db.
props: A structure with any optional properties.
Description:
This is a subclass of tests_db. Defines all operations on this
structure so that subclasses can use them.
Returns a structure object with the following fields:
tests_db
num_params: Number of variable parameters in simulations.
General operations on params_tests_db objects:
params_tests_db - Construct a new params_tests_db object.
display - Returns and displays the identification string.
get - Gets attributes of this object and parents.
subsref - Allows usage of . operator.
Additional methods:
See methods('params_tests_db') and methods('tests_db')
See also: tests_db, test_variable_db (N/I)
$Id: params_tests_db.m 1174 2009-03-31 03:14:21Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2004/09/08
Overloaded methods:
current_clamp/params_tests_db
params_tests_dataset/params_tests_db
>> a_db = params_tests_db([125 1 .1 10 10 .08 2 .3 1 3 1], {'NaF', 'NaP', 'Kv2', 'Kv3', 'Kv4', 'KCNQ', 'SK', 'CaHVA', 'HCN', 'morp', 'trial'}, [], {}, 'Doublet param row');
>>
>> displayRows(a_db)
ans =
'NaF' [ 125]
'NaP' [ 1]
'Kv2' [0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [0.0800]
'SK' [ 2]
'CaHVA' [0.3000]
'HCN' [ 1]
'morp' [ 3]
'trial' [ 1]
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> ls
brute_1.save data1_0_pAcip.bin data2_0_pAcip.bin
brute_2.save data1_100_pAcip.bin data2_100_pAcip.bin
>> t_100pA = trace('data1_100_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data1_100_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t_100pA)
ans =
5
>> t_0pA = trace('data1_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data1_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t_0pA)
ans =
5
>> t2_0pA = trace('data2_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data2_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t2_0pA)
ans =
6
>> t3_0pA = trace('data3_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data3_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t3_0pA)
ans =
7
>> help scanParamAllRows
--- help for params_tests_db/scanParamAllRows ---
scanParamAllRows - Scans given parameter range for each row in DB.
Usage:
a_params_db = scanParamAllRows(a_db, param, min_val, max_val, num_levels, props)
Description:
Produces rows by replacing the desired parameter value, in all rows of DB,
with num_levels values between the given boundaries, min_val and max_val.
This results in a DB with num_levels times more rows than the original DB.
Then, makeGenesisParFile can be used to generate a parameter file from
this DB to drive new simulations.
Parameters:
a_db: A params_tests_db object whose first row is subject to modifications.
param: The parameter to be varied (see tests2cols for param description).
min_val, max_val: The low and high boundaries for the parameter value.
num_levels: Number of levels to produce, including the boundaries.
props: A structure with any optional properties.
renameTrial: If given, the 'trial' column is renamed to this name.
levelFunc: Use this function to get the parameter range with
feval(levelFunc, min_val, max_val, num_levels). Example: 'logLevels'
Returns:
a_params_db: A db only with params.
Example:
Sets NaF to given range with 100 levels:
>> naf_rows_db = scanParamAllRows(a_db(desired_rows, :), 'NaF', 0, 1000, 100);
See also: makeGenesisParFile, scaleParamsOneRow, ranked_db/blockedDistances, getParamRowIndices, logLevels
$Id: scanParamAllRows.m 1174 2009-03-31 03:14:21Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2006/02/16
>> a_NaF_db = scaleParamsOneRow(a_db, 'NaF', 1:0.1:2)
size of a_test_results: 0 0
size of test_names: 0 0
size of params: 1 11
size of param_names: 1 1
{??? Error using ==> params_tests_db.params_tests_db at 94
Number of columns in params or a_test_results and items in param_names or
test_names must match. And there should be some data to create the db.
Error in ==> params_tests_db.scaleParamsOneRow at 43
a_params_db = params_tests_db(levels * get(a_params_db, 'data'), ...
}
>> displayRows(a_db)
ans =
'NaF' [ 125]
'NaP' [ 1]
'Kv2' [0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [0.0800]
'SK' [ 2]
'CaHVA' [0.3000]
'HCN' [ 1]
'morp' [ 3]
'trial' [ 1]
>> a_db
params_tests_db, Doublet param row
ans =
num_params: 11
tests_db: [1x1 tests_db]
tests_db, Doublet param row
1 rows in database with 11 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morp'
[11] 'trial'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>> a_NaF_db = scaleParamsOneRow(a_db, 'NaF', 1:0.1:2)
params_tests_db, Doublet param row
ans =
num_params: 11
tests_db: [1x1 tests_db]
tests_db, Doublet param row
11 rows in database with 11 columns, and 1 pages.
Column names:
[ 1] 'NaP'
[ 2] 'Kv2'
[ 3] 'Kv3'
[ 4] 'Kv4'
[ 5] 'KCNQ'
[ 6] 'SK'
[ 7] 'CaHVA'
[ 8] 'HCN'
[ 9] 'morp'
[10] 'trial'
[11] 'NaF'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>> displayRows(a_NaF_db)
ans =
Columns 1 through 6
'NaP' [ 1] [ 1] [ 1] [ 1] [ 1]
'Kv2' [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
'Kv3' [ 10] [ 10] [ 10] [ 10] [ 10]
'Kv4' [ 10] [ 10] [ 10] [ 10] [ 10]
'KCNQ' [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
'SK' [ 2] [ 2] [ 2] [ 2] [ 2]
'CaHVA' [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
'HCN' [ 1] [ 1] [ 1] [ 1] [ 1]
'morp' [ 3] [ 3] [ 3] [ 3] [ 3]
'trial' [ 1] [ 1] [ 1] [ 1] [ 1]
'NaF' [ 125] [137.5000] [ 150] [162.5000] [ 175]
Columns 7 through 12
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 0.1000] [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 0.0800] [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
[ 2] [ 2] [ 2] [ 2] [ 2] [ 2]
[ 0.3000] [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 3] [ 3] [ 3] [ 3] [ 3] [ 3]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[187.5000] [ 200] [212.5000] [ 225] [237.5000] [ 250]
>> help makeGenesisParFile
--- help for params_tests_db/makeGenesisParFile ---
makeGenesisParFile - Creates a Genesis parameter file with all the parameter values in a_db.
Usage:
makeGenesisParFile(a_db, filename, props)
Description:
For each a_db row, print the parameter names in a
file formatted for Genesis.
Parameters:
a_db: A params_tests_db object.
filename: Genesis parameter file to be created.
props: A structure with any optional properties.
trialStart: If given, adds/replaces the trial parameter and counts forward.
makeParamDesc: If 1, put the parameter names in a parameter description file with
with a .txt extension.
Returns:
nothing.
Example:
>> naf_rows_db = scanParamAllRows(a_db(desired_rows, :), 'NaF', 0, 1000, 100);
>> makeGenesisParFile(naf_rows_db, 'naf.par')
See also: scanParamAllRows, scaleParamsOneRow
$Id: makeGenesisParFile.m 1174 2009-03-31 03:14:21Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2005/03/13
>> makeGenesisParFile(a_NaF_db, '../naf_doublet.par', struct('trialStart', 1, 'makeParamDesc', 1))
>> help scaleParamsOneRow
--- help for params_tests_db/scaleParamsOneRow ---
scaleParamsOneRow - Scales chosen parameters in a row by multiplying with levels to create a new parameter db with as many rows as values in levels.
Usage:
a_params_db = scaleParamsOneRow(a_db, params, levels)
Description:
Produces rows by multiplying desired params, in the first row of DB,
with each value in levels. Then, makeGenesisParFile can be used to generate
a parameter file from this DB to drive new simulations.
Parameters:
a_db: A params_tests_db object whose first row is subject to modifications.
params: Parameters to be varied (see tests2cols for param description).
levels: Column vector of parameter value multipliers (1=unity).
Returns:
a_params_db: A db only with params.
Example:
Blocks NaF from 0%-100% with 10% increments.
>> naf_rows_db = scaleParamsOneRow(a_db(desired_row, :), 'NaF', 0:0.1:1);
See also: scanParamAllRows, makeGenesisParFile, ranked_db/blockedDistances, getParamRowIndices
$Id: scaleParamsOneRow.m 896 2007-12-17 18:48:55Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2006/02/16
>> help scanParamAllRows
--- help for params_tests_db/scanParamAllRows ---
scanParamAllRows - Scans given parameter range for each row in DB.
Usage:
a_params_db = scanParamAllRows(a_db, param, min_val, max_val, num_levels, props)
Description:
Produces rows by replacing the desired parameter value, in all rows of DB,
with num_levels values between the given boundaries, min_val and max_val.
This results in a DB with num_levels times more rows than the original DB.
Then, makeGenesisParFile can be used to generate a parameter file from
this DB to drive new simulations.
Parameters:
a_db: A params_tests_db object whose first row is subject to modifications.
param: The parameter to be varied (see tests2cols for param description).
min_val, max_val: The low and high boundaries for the parameter value.
num_levels: Number of levels to produce, including the boundaries.
props: A structure with any optional properties.
renameTrial: If given, the 'trial' column is renamed to this name.
levelFunc: Use this function to get the parameter range with
feval(levelFunc, min_val, max_val, num_levels). Example: 'logLevels'
Returns:
a_params_db: A db only with params.
Example:
Sets NaF to given range with 100 levels:
>> naf_rows_db = scanParamAllRows(a_db(desired_rows, :), 'NaF', 0, 1000, 100);
See also: makeGenesisParFile, scaleParamsOneRow, ranked_db/blockedDistances, getParamRowIndices, logLevels
$Id: scanParamAllRows.m 1174 2009-03-31 03:14:21Z cengiz $
Author: Cengiz Gunay <cgunay@emory.edu>, 2006/02/16
>> a_db = params_tests_db([125 1 .1 10 10 .08 2 .3 1 3], {'NaF', 'NaP', 'Kv2', 'Kv3', 'Kv4', 'KCNQ', 'SK', 'CaHVA', 'HCN', 'morp'}, [], {}, 'Doublet param row');
>>
>> a_NaF_db = scaleParamsOneRow(a_db, 'NaF', 1:0.1:2)
params_tests_db, Doublet param row
ans =
num_params: 10
tests_db: [1x1 tests_db]
tests_db, Doublet param row
11 rows in database with 10 columns, and 1 pages.
Column names:
[ 1] 'NaP'
[ 2] 'Kv2'
[ 3] 'Kv3'
[ 4] 'Kv4'
[ 5] 'KCNQ'
[ 6] 'SK'
[ 7] 'CaHVA'
[ 8] 'HCN'
[ 9] 'morp'
[10] 'NaF'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>>
>> displayRows(a_NaF_db)
ans =
Columns 1 through 6
'NaP' [ 1] [ 1] [ 1] [ 1] [ 1]
'Kv2' [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
'Kv3' [ 10] [ 10] [ 10] [ 10] [ 10]
'Kv4' [ 10] [ 10] [ 10] [ 10] [ 10]
'KCNQ' [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
'SK' [ 2] [ 2] [ 2] [ 2] [ 2]
'CaHVA' [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
'HCN' [ 1] [ 1] [ 1] [ 1] [ 1]
'morp' [ 3] [ 3] [ 3] [ 3] [ 3]
'NaF' [ 125] [137.5000] [ 150] [162.5000] [ 175]
Columns 7 through 12
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 0.1000] [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 0.0800] [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
[ 2] [ 2] [ 2] [ 2] [ 2] [ 2]
[ 0.3000] [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 3] [ 3] [ 3] [ 3] [ 3] [ 3]
[187.5000] [ 200] [212.5000] [ 225] [237.5000] [ 250]
>> a_NaF_db = a_NaF_db(:, [10 1:9])
params_tests_db, Doublet param row
ans =
num_params: 10
tests_db: [1x1 tests_db]
tests_db, Doublet param row
11 rows in database with 10 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morp'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>>
>> displayRows(a_NaF_db)
ans =
Columns 1 through 6
'NaF' [ 125] [137.5000] [ 150] [162.5000] [ 175]
'NaP' [ 1] [ 1] [ 1] [ 1] [ 1]
'Kv2' [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
'Kv3' [ 10] [ 10] [ 10] [ 10] [ 10]
'Kv4' [ 10] [ 10] [ 10] [ 10] [ 10]
'KCNQ' [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
'SK' [ 2] [ 2] [ 2] [ 2] [ 2]
'CaHVA' [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
'HCN' [ 1] [ 1] [ 1] [ 1] [ 1]
'morp' [ 3] [ 3] [ 3] [ 3] [ 3]
Columns 7 through 12
[187.5000] [ 200] [212.5000] [ 225] [237.5000] [ 250]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 0.1000] [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 0.0800] [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
[ 2] [ 2] [ 2] [ 2] [ 2] [ 2]
[ 0.3000] [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 3] [ 3] [ 3] [ 3] [ 3] [ 3]
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> makeGenesisParFile(a_NaF_db, '../naf_doublet.par', struct('trialStart', 1, 'makeParamDesc', 1))
{??? Error using ==> tests_db.addColumns at 47
Number of rows in column (0) does not match rows in DB (11).
Error in ==> tests_db.addColumns at 47
error(['Number of rows in column (' num2str(size(test_columns, 1)) ') ', ...
Error in ==> params_tests_db.addParams at 55
obj = addColumns(a_param_db, fieldnames(get(a_test_db, 'col_idx')), ...
Error in ==> params_tests_db.makeGenesisParFile at 50
a_db = addParams(a_db, {'trial'}, trial_col);
}
>> dbstop if error
>> makeGenesisParFile(a_NaF_db, '../naf_doublet.par', struct('trialStart', 1, 'makeParamDesc', 1))
{??? Error using ==> tests_db.addColumns at 47
Number of rows in column (0) does not match rows in DB (11).
Error in ==> tests_db.addColumns at 47
error(['Number of rows in column (' num2str(size(test_columns, 1)) ') ', ...
Error in ==> params_tests_db.addParams at 55
obj = addColumns(a_param_db, fieldnames(get(a_test_db, 'col_idx')), ...
Error in ==> params_tests_db.makeGenesisParFile at 50
a_db = addParams(a_db, {'trial'}, trial_col);
}
57 rethrow(lerr);
K>> opentoline('/home/cengiz/work/pandora/classes/@params_tests_db/makeGenesisParFile.m',57,1)
K>> a_db
params_tests_db, Doublet param row
ans =
num_params: 10
tests_db: [1x1 tests_db]
tests_db, Doublet param row
11 rows in database with 10 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morp'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
K>> a_db = addParams(a_db, {'trial'}, trial_col)
{??? Error using ==> tests_db.addColumns at 47
Number of rows in column (0) does not match rows in DB (11).
Error in ==> params_tests_db.addParams at 55
obj = addColumns(a_param_db, fieldnames(get(a_test_db, 'col_idx')), ...
}
47 error(['Number of rows in column (' num2str(size(test_columns, 1)) ') ', ...
K>> opentoline('/home/cengiz/work/pandora/classes/@tests_db/addColumns.m',47,1)
K>> dbsize(obj)
ans =
11 11
K>> dbsize(obj, 1)
ans =
11
K>> dbup
In workspace belonging to params_tests_db.addParams at 55
K>> dbquit
K>> a_db = addParams(a_db, {'trial'}, trial_col)
params_tests_db, Doublet param row
ans =
num_params: 11
tests_db: [1x1 tests_db]
tests_db, Doublet param row
11 rows in database with 11 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morp'
[11] 'trial'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
K>> displayRows(a_db)
ans =
Columns 1 through 6
'NaF' [ 125] [137.5000] [ 150] [162.5000] [ 175]
'NaP' [ 1] [ 1] [ 1] [ 1] [ 1]
'Kv2' [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
'Kv3' [ 10] [ 10] [ 10] [ 10] [ 10]
'Kv4' [ 10] [ 10] [ 10] [ 10] [ 10]
'KCNQ' [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
'SK' [ 2] [ 2] [ 2] [ 2] [ 2]
'CaHVA' [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
'HCN' [ 1] [ 1] [ 1] [ 1] [ 1]
'morp' [ 3] [ 3] [ 3] [ 3] [ 3]
'trial' [ 1] [ 2] [ 3] [ 4] [ 5]
Columns 7 through 12
[187.5000] [ 200] [212.5000] [ 225] [237.5000] [ 250]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 0.1000] [0.1000] [ 0.1000] [0.1000] [ 0.1000] [0.1000]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 10] [ 10] [ 10] [ 10] [ 10] [ 10]
[ 0.0800] [0.0800] [ 0.0800] [0.0800] [ 0.0800] [0.0800]
[ 2] [ 2] [ 2] [ 2] [ 2] [ 2]
[ 0.3000] [0.3000] [ 0.3000] [0.3000] [ 0.3000] [0.3000]
[ 1] [ 1] [ 1] [ 1] [ 1] [ 1]
[ 3] [ 3] [ 3] [ 3] [ 3] [ 3]
[ 6] [ 7] [ 8] [ 9] [ 10] [ 11]
K>> dbquit
>> dbclear all
>> makeGenesisParFile(a_NaF_db, '../naf_doublet.par', struct('trialStart', 1, 'makeParamDesc', 1))
>> a_db = params_tests_db([125 1 .1 10 10 .08 2 .3 1 3], {'NaF', 'NaP', 'Kv2', 'Kv3', 'Kv4', 'KCNQ', 'SK', 'CaHVA', 'HCN', 'morph'}, [], {}, 'Doublet param row')
params_tests_db, Doublet param row
ans =
num_params: 10
tests_db: [1x1 tests_db]
tests_db, Doublet param row
1 rows in database with 10 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morph'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>>
>> a_NaF_db = scaleParamsOneRow(a_db, 'NaF', 1:0.2:2)
params_tests_db, Doublet param row
ans =
num_params: 10
tests_db: [1x1 tests_db]
tests_db, Doublet param row
6 rows in database with 10 columns, and 1 pages.
Column names:
[ 1] 'NaP'
[ 2] 'Kv2'
[ 3] 'Kv3'
[ 4] 'Kv4'
[ 5] 'KCNQ'
[ 6] 'SK'
[ 7] 'CaHVA'
[ 8] 'HCN'
[ 9] 'morph'
[10] 'NaF'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>>
>> a_NaF_db = a_NaF_db(:, [10 1:9])
params_tests_db, Doublet param row
ans =
num_params: 10
tests_db: [1x1 tests_db]
tests_db, Doublet param row
6 rows in database with 10 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morph'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>>
>> makeGenesisParFile(a_NaF_db, '../naf_doublet.par', struct('trialStart', 1, 'makeParamDesc', 1))
>>
>> a_fs = params_tests_fileset(*_0_pAcip.bin', 1e-4, 1e-3, 'NaF doublet', struct('trace_time_start', 1000, 'scale_y', 1e3, 'param_row_filename', '../naf_doublet.par', 'param_desc_filename', '../naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
??? a_fs = params_tests_fileset(*_0_pAcip.bin', 1e-4, 1e-3, 'NaF doublet', struct('trace_time_start', 1000, 'scale_y', 1e3, 'param_row_filename', '../naf_doublet.par', 'param_desc_filename', '../naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
|
{Error: Unexpected MATLAB operator.
}
>> a_fs = params_tests_fileset('*_0_pAcip.bin', 1e-4, 1e-3, 'NaF doublet', struct('trace_time_start', 1000, 'scale_y', 1e3, 'param_row_filename', '../naf_doublet.par', 'param_desc_filename', '../naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
params_tests_fileset, NaF doublet
ans =
path: ''
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, NaF doublet
ans =
list: {'data2_0_pAcip.bin' 'data3_0_pAcip.bin' 'data5_0_pAcip.bin'}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'NaF doublet'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 1000
scale_y: 1000
param_row_filename: '../naf_doublet.par'
param_desc_filename: '../naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs)
{Warning: Error caught during database creation, before starting to read items:
Error using ==> params_tests_fileset.trace at 46
Parameter lookup from rows is requested, but cannot find the "trial" parameter
in the data filename data2_0_pAcip.bin. Returning empty database.}
> In params_tests_dataset.readDBItems at 50
In params_tests_dataset.params_tests_db at 60
Stack trace:
/home/cengiz/work/pandora/classes/@params_tests_fileset/trace.m at 46 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/loadItemProfile.m at 35 (loadItemProfile).
/home/cengiz/work/pandora/classes/@params_tests_dataset/testNames.m at 40 (testNames).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 41 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Error in ==> params_tests_dataset.readDBItems at 35
if ~ exist('items', 'var')
{??? Output argument "docs" (and maybe others) not assigned during call to
"/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m>readDBItems".
Error in ==> params_tests_dataset.params_tests_db at 60
[params, param_names, tests, test_names, a_doc] = readDBItems(args{:});
}
>> help readGenesisPars
readGenesisPars not found.
Use the Help browser search field to search the documentation, or
type "help help" for help command options, such as help for methods.
>> help parseGenesisFilename
parseGenesisFilename - Parses the GENESIS filename to get names and values of simulation parameters.
Usage:
names_vals = parseGenesisFilename(filename)
Description:
Parameters:
filename: GENESIS filename (no need to exist)
Returns:
names_vals: A two-column cell array with names and values.
Available methods:
See methods('cip_profile_brute')
See also: cip_profile
Author: Cengiz Gunay <cgunay@emory.edu>, 2004/03/10
>>
Process MATLAB hangup
< M A T L A B (R) >
Copyright 1984-2010 The MathWorks, Inc.
Version 7.11.0.584 (R2010b) 64-bit (glnxa64)
August 16, 2010
To get started, type one of these: helpwin, helpdesk, or demo.
For product information, visit www.mathworks.com.
Destroying 1 pre-existing parallel job(s) created by matlabpool that were in the
finished or failed state.
Starting matlabpool using the 'local' configuration ... connected to 4 labs.
>> help fileio
fileio not found.
Use the Help browser search field to search the documentation, or
type "help help" for help command options, such as help for methods.
>> help
HELP topics:
analysis-scripts/doc - (No table of contents file)
pyloric-sensordb/analysis-scripts - (No table of contents file)
work/libsvm-mat-2.88-1-local - (No table of contents file)
drosophila/voltage-clamp - (No table of contents file)
drosophila/param_fitter - (No table of contents file)
work/plotautobd - (No table of contents file)
drosophila/XPP-Matlab - (No table of contents file)
pandora/functions - (No table of contents file)
pandora/classes - DJLAB General Purpose Matlab Classes
matlab_xunit/xunit - MATLAB xUnit Test Framework
work/cen_matlab - Cengiz's tools for automatic analysis
matlab/simEngine - SIMATRA simEngine
matlab/file-exchange - (No table of contents file)
matlab/fred-scripts - (No table of contents file)
Documents/MATLAB - (No table of contents file)
cengiz/matlab - (No table of contents file)
matlab/general - General purpose commands.
matlab/ops - Operators and special characters.
matlab/lang - Programming language constructs.
matlab/elmat - Elementary matrices and matrix manipulation.
matlab/randfun - Random matrices and random streams.
matlab/elfun - Elementary math functions.
matlab/specfun - Specialized math functions.
matlab/matfun - Matrix functions - numerical linear algebra.
matlab/datafun - Data analysis and Fourier transforms.
matlab/polyfun - Interpolation and polynomials.
matlab/funfun - Function functions and ODE solvers.
matlab/sparfun - Sparse matrices.
matlab/scribe - Annotation and Plot Editing.
matlab/graph2d - Two dimensional graphs.
matlab/graph3d - Three dimensional graphs.
matlab/specgraph - Specialized graphs.
matlab/graphics - Handle Graphics.
matlab/uitools - Graphical User Interface Tools.
matlab/strfun - Character strings.
matlab/imagesci - Image and scientific data input/output.
matlab/iofun - File input and output.
matlab/audiovideo - Audio and Video support.
matlab/timefun - Time and dates.
matlab/datatypes - Data types and structures.
matlab/verctrl - Version control.
matlab/codetools - Commands for creating and debugging code
matlab/helptools - Help commands.
matlab/demos - Examples and demonstrations.
matlab/timeseries - Time series data visualization and exploration.
matlab/hds - (No table of contents file)
matlab/guide - Graphical User Interface Tools.
matlab/plottools - Graphical User Interface Tools.
toolbox/local - General preferences and configuration information.
matlab/datamanager - (No table of contents file)
shared/instrument - (No table of contents file)
toolbox/nnet - Neural Network Toolbox
nnet/nncontrol - Neural Network Toolbox Control System Functions.
nnet/nndemos - Neural Network Demonstrations and Applications
nndemos/nndatasets - Neural Network Datasets
nnet/nnadapt - Neural Network Toolbox Adapt Functions.
nnet/nndatafun - Neural Network Toolbox Data Functions.
nnet/nnderivative - Neural Network Toolbox Derivative Functions.
nnet/nndistance - Neural Network Toolbox Distance Functions.
nnet/nndivision - Neural Network Toolbox Division Functions.
nnet/nninitlayer - Neural Network Toolbox Layer Initialization Functions.
nnet/nninitnetwork - Neural Network Toolbox Network Initialization Functions.
nnet/nninitweight - Neural Network Toolbox Weight Initialization Functions.
nnet/nnlearn - Neural Network Toolbox Learning Functions.
nnet/nnnetfun - Neural Network Toolbox Network Functions.
nnet/nnnetinput - Neural Network Toolbox Net Input Functions.
nnet/nnnetwork - Neural Network Toolbox Network Creation Functions.
nnet/nnperformance - Neural Network Toolbox Performance Functions.
nnet/nnplot - Neural Network Toolbox Plot Functions.
nnet/nnprocess - Neural Network Toolbox Processing Functions.
nnet/nnsearch - Neural Network Toolbox Line Search Functions.
nnet/nntopology - Neural Network Toolbox Topology Functions.
nnet/nntrain - Neural Network Toolbox Training Functions.
nnet/nntransfer - Neural Network Toolbox Transfer Functions.
nnet/nnweight - Neural Network Toolbox Weight Functions.
nnet/nnguis - Neural Network Toolbox GUI Functions.
nnet/nnobsolete - Neural Network Toolbox Obsolete Functions
nnet/nnutils - Neural Network Toolbox Utility Functions
shared/rptgen - (No table of contents file)
database/database - Database Toolbox
database/dbdemos - Database Toolbox Demonstration Functions.
database/vqb - Visual Query Builder functions.
shared/dastudio - (No table of contents file)
optim/optim - Optimization Toolbox
optim/optimdemos - Demonstrations of large-scale methods.
shared/optimlib - Optimization Toolbox Library
toolbox/compiler - MATLAB Compiler
curvefit/curvefit - Curve Fitting Toolbox
curvefit/splines - Curve Fitting Toolbox -- Spline Functions
curvefit/cftoolgui - Curve Fitting Toolbox -- Curve Fitting Tool
curvefit/sftoolgui - Curve Fitting Toolbox -- Surface Fitting Tool
curvefit/curvefitdemos - Curve Fitting Toolbox -- Demos
signal/signal - Signal Processing Toolbox
signal/sigtools - (No table of contents file)
signal/sptoolgui - (No table of contents file)
signal/sigdemos - (No table of contents file)
shared/spcuilib - (No table of contents file)
shared/siglib - (No table of contents file)
shared/filterdesignlib - (No table of contents file)
controllib/general - Control Library - General Utilities.
images/colorspaces - Image Processing Toolbox --- colorspaces
images/images - Image Processing Toolbox
images/imdemos - Image Processing Toolbox --- demos and sample images
images/imuitools - Image Processing Toolbox --- imuitools
images/iptformats - Image Processing Toolbox --- File Formats
images/iptutils - Image Processing Toolbox --- utilities
shared/imageslib - Image Processing Toolbox Library
wavelet/wavelet - Wavelet Toolbox
wavelet/wmultisig1d - (No table of contents file)
wavelet/wavedemo - (No table of contents file)
wavelet/compression - (No table of contents file)
stats/stats - Statistics Toolbox
stats/statsdemos - Statistics Toolbox
shared/statslib - Statistics Toolbox Library
globaloptim/globaloptim - Global Optimization Toolbox
globaloptim/globaloptimdemos - Global Optimization Toolbox Demos
symbolic/symbolic - Symbolic Math Toolbox
symbolic/symbolicdemos - (No table of contents file)
shared/comparisons - (No table of contents file)
controllib/graphics - Control Library - Graphics.
toolbox/distcomp - Parallel Computing Toolbox
distcomp/distcomp - (No table of contents file)
distcomp/user - (No table of contents file)
distcomp/mpi - (No table of contents file)
distcomp/pctdemos - (No table of contents file)
distcomp/parallel - Parallel Algorithms
parallel/lapack - (No table of contents file)
parallel/util - (No table of contents file)
distcomp/lang - Parallel computing programming language constructs.
distcomp/gpu - Parallel Computing Toolbox
>> help general
General purpose commands.
MATLAB Version 7.11 (R2010b) 03-Aug-2010
General information.
syntax - Help on MATLAB command syntax.
demo - Run demonstrations.
ver - MATLAB, Simulink and toolbox version information.
version - MATLAB version information.
verLessThan - Compare version of toolbox to specified version string.
logo - Plot the L-shaped membrane logo with MATLAB lighting.
membrane - Generates the MATLAB logo.
bench - MATLAB Benchmark.
Managing the workspace.
who - List current variables.
whos - List current variables, long form.
clear - Clear variables and functions from memory.
onCleanup - Specify cleanup work to be done on function completion.
pack - Consolidate workspace memory.
load - Load workspace variables from disk.
save - Save workspace variables to disk.
saveas - Save Figure or model to desired output format.
memory - Help for memory limitations.
recycle - Set option to move deleted files to recycle folder.
quit - Quit MATLAB session.
exit - Exit from MATLAB.
Managing commands and functions.
what - List MATLAB-specific files in directory.
type - List M-file.
open - Open files by extension.
which - Locate functions and files.
pcode - Create pre-parsed pseudo-code file (P-file).
mex - Compile MEX-function.
inmem - List functions in memory.
namelengthmax - Maximum length of MATLAB function or variable name.
Managing the search path.
path - Get/set search path.
addpath - Add directory to search path.
rmpath - Remove directory from search path.
rehash - Refresh function and file system caches.
import - Import packages into the current scope.
finfo - Identify file type against standard file handlers on path.
genpath - Generate recursive toolbox path.
savepath - Save the current MATLAB path in the pathdef.m file.
Managing the java search path.
javaaddpath - Add directories to the dynamic java path.
javaclasspath - Get and set java path.
javarmpath - Remove directory from dynamic java path.
Controlling the command window.
echo - Echo commands in M-files.
more - Control paged output in command window.
diary - Save text of MATLAB session.
format - Set output format.
beep - Produce beep sound.
desktop - Start and query the MATLAB Desktop.
preferences - Bring up MATLAB user settable preferences dialog.
Operating system commands.
cd - Change current working directory.
copyfile - Copy file or directory.
movefile - Move file or directory.
delete - Delete file or graphics object.
pwd - Show (print) current working directory.
dir - List directory.
ls - List directory.
fileattrib - Set or get attributes of files and directories.
isdir - True if argument is a directory.
mkdir - Make new directory.
rmdir - Remove directory.
getenv - Get environment variable.
! - Execute operating system command (see PUNCT).
dos - Execute DOS command and return result.
unix - Execute UNIX command and return result.
system - Execute system command and return result.
perl - Execute Perl command and return the result.
computer - Computer type.
isunix - True for the UNIX version of MATLAB.
ispc - True for the PC (Windows) version of MATLAB.
Debugging.
debug - List debugging commands.
Tools to locate dependent functions of an M-file.
depfun - Locate dependent functions of an M-file or P-file.
depdir - Locate dependent directories of an M-file or P-file.
Loading and calling shared libraries.
calllib - Call a function in an external library.
libpointer - Creates a pointer object for use with external libraries.
libstruct - Creates a structure pointer for use with external libraries.
libisloaded - True if the specified shared library is loaded.
loadlibrary - Load a shared library into MATLAB.
libfunctions - Return information on functions in an external library.
libfunctionsview - View the functions in an external library.
unloadlibrary - Unload a shared library loaded with LOADLIBRARY.
java - Using Java from within MATLAB.
usejava - True if the specified Java feature is supported in MATLAB.
See also lang, datatypes, iofun, graphics, ops, strfun, timefun,
matfun, demos, graphics, datafun, uitools, doc, punct, arith.
Control Library - General Utilities.
Version 9.0 03-Aug-2010
>> computer
ans =
GLNXA64
>> help fopen
FOPEN Open file.
FID = FOPEN(FILENAME) opens the file FILENAME for read access.
FILENAME is a string containing the name of the file to be opened.
(On PC systems, FOPEN opens files for binary read access.)
FILENAME can be a MATLABPATH relative partial pathname. If the
file is not found in the current working directory, FOPEN searches for
it on the MATLAB search path. On UNIX systems, FILENAME may also start
with a "~/" or a "~username/", which FOPEN expands to the current
user's home directory or the specified user's home directory,
respectively.
FID is a scalar MATLAB integer valued double, called a file identifier.
You use FID as the first argument to other file input/output
routines, such as FREAD and FCLOSE. If FOPEN cannot open the file, it
returns -1.
FID = FOPEN(FILENAME,PERMISSION) opens the file FILENAME in the
mode specified by PERMISSION:
'r' open file for reading
'w' open file for writing; discard existing contents
'a' open or create file for writing; append data to end of file
'r+' open (do not create) file for reading and writing
'w+' open or create file for reading and writing; discard
existing contents
'a+' open or create file for reading and writing; append data
to end of file
'W' open file for writing without automatic flushing
'A' open file for appending without automatic flushing
FILENAME can be a MATLABPATH relative partial pathname only if the file
is opened for reading.
You can open files in binary mode (the default) or in text mode.
In binary mode, no characters get singled out for special treatment.
In text mode on the PC, the carriage return character preceding
a newline character is deleted on input and added before the newline
character on output. To open a file in text mode, append 't' to the
permission string, for example 'rt' and 'w+t'. (On Unix, text and
binary mode are the same, so this has no effect. On PC systems
this is critical.)
If the file is opened in update mode ('+'), you must use an FSEEK or
FREWIND between an input command like FREAD, FSCANF, FGETS, or FGETL
and an output command like FWRITE or FPRINTF. You must also use an
FSEEK or FREWIND between an output command and an input command.
Two file identifiers are automatically available and need not be
opened. They are FID=1 (standard output) and FID=2 (standard error).
[FID, MESSAGE] = FOPEN(FILENAME,...) returns a system dependent error
message if the open is not successful.
[FID, MESSAGE] = FOPEN(FILENAME,PERMISSION,MACHINEFORMAT) opens the
specified file with the specified PERMISSION and treats data read
using FREAD or data written using FWRITE as having a format given
by MACHINEFORMAT. MACHINEFORMAT is one of the following strings:
'native' or 'n' - local machine format - the default
'ieee-le' or 'l' - IEEE floating point with little-endian
byte ordering
'ieee-be' or 'b' - IEEE floating point with big-endian
byte ordering
'ieee-le.l64' or 'a' - IEEE floating point with little-endian
byte ordering and 64 bit long data type
'ieee-be.l64' or 's' - IEEE floating point with big-endian byte
ordering and 64 bit long data type.
[FID, MESSAGE] = FOPEN(FILENAME,PERMISSION,MACHINEFORMAT,ENCODING)
opens the specified file using the specified PERMISSION and
MACHINEFORMAT. ENCODING is a string that specifies the character
encoding scheme associated with the file. It must be the empty
string ('') or a name or alias for an encoding scheme. Some examples
are 'UTF-8', 'latin1', 'US-ASCII', and 'Shift_JIS'. For common names
and aliases, see the Web site
http://www.iana.org/assignments/character-sets. If ENCODING is
unspecified or is the empty string (''), MATLAB's default encoding
scheme is used.
[FILENAME,PERMISSION,MACHINEFORMAT,ENCODING] = FOPEN(FID) returns the
filename, permission, machine format, and character encoding values
used by MATLAB when it opened the file associated with identifier FID.
MATLAB does not determine these output values by reading information
from the opened file. For any of these parameters that were not
specified when the file was opened, MATLAB returns its default value.
The ENCODING string is a standard character encoding scheme name that
may not be the same as the ENCODING argument used in the call to FOPEN
that opened the file. An invalid FID returns empty strings for all
output arguments.
FIDS = FOPEN('all') returns a row vector containing the file
identifiers for all the files currently opened by the user
(but not 1 or 2).
The 'W' and 'A' permissions do not automatically perform a flush
of the current output buffer after output operations.
See also fclose, ferror, fgetl, fgets, fprintf, fread, fscanf, fseek,
ftell, fwrite.
Overloaded methods:
serial/fopen
icinterface/fopen
Reference page in Help browser
doc fopen
>> dat = readgenbin('~/Documents/writings/brute-force/database-analysis-lecture/'
??? dat = readgenbin('~/Documents/writings/brute-force/database-analysis-lecture/'
|
{Error: Expression or statement is incorrect--possibly unbalanced (, {, or [.
}
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000)
dat =
1.0e+38 *
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0.0000 -0.0000 -0.0000 -0.0000 -0.0000 0.0000 -0.0000
Columns 19601 through 19607
-0.0000 0.0000 0.0000 -0.0000 0.0000 -0.0000 -0.0000
Columns 19608 through 19614
-0.0000 -0.0000 -0.0000 -0.0000 -0.0000 -0.0000 -0.0000
Columns 19615 through 19621
-0.0000 -0.0000 0.0000 0.0000 -0.0000 0.0728 0.0002
Columns 19622 through 19628
0.0000 -0.0000 0.0000 -0.0000 0.0000 -0.0000 0.0000
Columns 19629 through 19635
0.0000 0.0000 -0.0000 0.0000 0.0000 -0.0000 0.0000
Columns 19636 through 19642
0.0000 -0.0000 -0.0000 0.0113 0.0000 -0.0000 -0.0000
Columns 19643 through 19649
0.0000 -0.0000 -0.0000 -0.0000 0.0000 0.0000 -0.0000
Columns 19650 through 19656
-0.0000 0.0000 0.0000 -0.0000 -0.0000 0.0000 -0.0000
Columns 19657 through 19663
-0.0000 0.0000 0.0000 0.0000 -0.0000 -0.0000 -0.0000
Columns 19664 through 19670
0.0000 -0.0000 0.0000 -0.0000 0.0000 0.0001 -0.0000
Columns 19671 through 19677
0.0000 -0.0000 0.0000 0.0000 -0.3513 0.0000 0.0022
Columns 19678 through 19684
0.0000 -0.0000 -0.0044 0.0000 0.0000 0.0000 -0.0000
Columns 19685 through 19691
-0.0000 -0.0000 -0.0000 -0.0000 0.0000 0.0000 -0.0000
Columns 19692 through 19698
-0.0000 0.0000 0.0000 -0.0000 -0.0000 0.0000 -0.0000
Columns 19699 through 19705
0.0000 -0.0000 -0.0000 0.0000 0.0000 0.0000 -0.0000
Columns 19706 through 19712
-0.0000 0.0000 -0.0000 -0.0000 0.0033 -0.0000 -0.0000
Columns 19713 through 19719
-0.0000 0.0000 0.0000 0.0000 -0.0000 0.0000 0.0000
Columns 19720 through 19726
-0.0000 0.9665 -0.0000 -0.0000 -0.0000 0.0000 0.0000
Columns 19727 through 19733
0.0000 0.0000 -0.0000 0.0000 0.0000 0.0000 0.0000
Columns 19734 through 19740
-0.0000 -0.0003 0.0000 -0.0970 -0.0000 0.0000 -0.0000
Columns 19741 through 19747
-0.0000 -0.0000 -0.0000 0.0000 -0.0000 0.0000 0.0000
Columns 19748 through 19754
0.0000 -0.0000 -0.0000 -0.0000 0.0000 0.0300 0.0000
Columns 19755 through 19761
0.0000 -0.0101 0.0000 -0.0000 0.0000 0.0000 0.0000
Columns 19762 through 19768
-0.2716 -0.0000 0.0000 -0.0000 -0.0000 -0.0000 -0.0000
Columns 19769 through 19775
-0.0000 0.0000 -0.5697 -0.0000 -0.0000 0.0000 0.0000
Columns 19776 through 19782
0.0000 -0.0000 -0.0000 0.0000 -0.0000 0.0000 0.0000
Columns 19783 through 19789
0.0000 0.0000 0.0000 -0.0000 -0.0000 0.0000 -0.0000
Columns 19790 through 19796
-0.0000 -0.0000 0.0000 0.0000 -0.0000 -0.0000 0.0000
Columns 19797 through 19803
-0.0000 0.0000 -0.0000 -0.0000 -0.0000 0.0000 -0.0000
Columns 19804 through 19810
-0.0000 0.0000 -0.0000 0.0000 -0.0000 0.0000 0.0000
Columns 19811 through 19817
0.0000 0.0000 0.0000 -0.0000 -0.0000 0.0000 -0.0000
Columns 19818 through 19824
0.0000 0.0000 0.0000 -0.0000 -0.0000 -0.0000 0.0000
Columns 19825 through 19831
0.0000 -0.0000 0.0000 -0.0000 0.0000 0.0000 0.0000
Columns 19832 through 19838
0.0000 0.0000 0.0000 -0.0001 -0.0000 0.0000 -0.0000
Columns 19839 through 19845
0.0000 0.0000 -0.0000 -0.0000 -0.0000 -0.0000 -0.0000
Columns 19846 through 19852
0.0000 -0.0000 0.0000 0.0000 -0.0000 -0.0000 0.0000
Columns 19853 through 19859
0.0000 0.0000 0.0000 -0.0000 -0.0000 -0.0000 0.0000
Columns 19860 through 19866
-0.0000 0.0000 -0.0000 -0.0000 -0.0000 -0.0000 -0.0000
Columns 19867 through 19873
-0.0000 -0.0000 -0.0000 0.0000 -0.0000 0.0000 -0.0000
Columns 19874 through 19880
-0.0000 -0.0014 0.0000 -0.0057 -0.0000 -0.0000 -0.0000
Columns 19881 through 19887
-0.0000 0.0000 -0.0000 0.0000 -0.0000 -0.0000 0.0000
Columns 19888 through 19894
0.0000 0.0000 -0.0000 -0.0000 0.0000 -0.0000 -0.0000
Columns 19895 through 19901
0.0000 0.5099 -0.0000 0.0000 -0.0000 -0.0000 -0.0000
Columns 19902 through 19908
-0.0000 -0.0000 0.0000 0.0000 -0.0000 0.0000 0.0023
Columns 19909 through 19915
-0.0000 -0.0000 0.0000 0.0000 0.0000 -0.0000 -0.0000
Columns 19916 through 19922
0.0000 -0.0000 0.0000 -0.0000 0.0000 -0.0000 -0.0000
Columns 19923 through 19929
-0.0000 -0.0000 -0.0000 -0.0000 0.0000 0.0000 -0.0000
Columns 19930 through 19936
0.0000 0.0383 -0.0000 0.0000 0.0000 0.0000 0.0000
Columns 19937 through 19943
0.0000 0.0000 -0.0000 0.0000 -0.0000 0.0000 -0.0000
Columns 19944 through 19950
0.0000 0.1391 -0.0000 -0.0000 -0.0000 -0.0000 0.0000
Columns 19951 through 19957
-0.0000 0.0000 0.4967 -0.0000 -0.0005 0.0000 0.0000
Columns 19958 through 19964
0.0000 0.0000 0.0000 0.0000 -0.0000 0.0000 0.0000
Columns 19965 through 19971
0.0001 -0.0000 -0.0000 -0.0000 -0.0000 -0.0000 0.0000
Columns 19972 through 19978
0.0000 -0.0000 0.0000 -0.0000 0.0000 -0.0000 -0.0000
Columns 19979 through 19985
-0.0000 -0.0000 0.0000 0.0000 -0.0000 0.0000 -0.0000
Columns 19986 through 19992
0.0000 -0.0000 -0.0000 -0.0000 3.2759 0.0000 0.0000
Columns 19993 through 19999
-0.0000 -0.0000 -0.0000 0.0000 0.0000 0.0000 0.0000
Columns 20000 through 20005
0.0000 0.0000 -0.0000 0.0000 -0.0000 0.0000
>>
>> figure; plot(dat)
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000);
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000);
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000);
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{??? Error using ==> readgenbin at 49
Frequency outside bounds 1 - 1,000,000 Hz. Are you sure about the endian
parameter?
}
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000);
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{??? Error using ==> readgenbin at 49
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!
}
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000);
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{??? Error using ==> readgenbin at 49
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!
}
>> dat = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
>> figure; plot(dat)
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
>> size(t)
ans =
1 10000
>> figure; plot(t, dat)
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 0, 1000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Data length: 20001 points, up to 2000.0999 ms
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', NaN, 1000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
>> figure; plot(t, dat)
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', NaN, NaN, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
>> figure; plot(t, dat)
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', NaN, NaN, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 200, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
Reading 1000 points, or 100 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 0, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
Reading -1000 points, or -100 ms of data.
{??? Error using ==> fread
Invalid size.
Error in ==> readgenbin at 86
A = fread(fil, [num_cols read_length], 'float32');
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 0, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
{??? Error using ==> readgenbin at 81
Must choose end_time > start_time!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 200, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
Reading 1000 points, or 100 ms of data.
>> t
t =
Columns 1 through 7
100.0000 100.1000 100.2000 100.3000 100.4000 100.5000 100.6000
Columns 8 through 14
100.7000 100.8000 100.9000 101.0000 101.1000 101.2000 101.3000
Columns 15 through 21
101.4000 101.5000 101.6000 101.7000 101.8000 101.9000 102.0000
Columns 22 through 28
102.1000 102.2000 102.3000 102.4000 102.5000 102.6000 102.7000
Columns 29 through 35
102.8000 102.9000 103.0000 103.1000 103.2000 103.3000 103.4000
Columns 36 through 42
103.5000 103.6000 103.7000 103.8000 103.9000 104.0000 104.1000
Columns 43 through 49
104.2000 104.3000 104.4000 104.5000 104.6000 104.7000 104.8000
Columns 50 through 56
104.9000 105.0000 105.1000 105.2000 105.3000 105.4000 105.5000
Columns 57 through 63
105.6000 105.7000 105.8000 105.9000 106.0000 106.1000 106.2000
Columns 64 through 70
106.3000 106.4000 106.5000 106.6000 106.7000 106.8000 106.9000
Columns 71 through 77
107.0000 107.1000 107.2000 107.3000 107.4000 107.5000 107.6000
Columns 78 through 84
107.7000 107.8000 107.9000 108.0000 108.1000 108.2000 108.3000
Columns 85 through 91
108.4000 108.5000 108.6000 108.7000 108.8000 108.9000 109.0000
Columns 92 through 98
109.1000 109.2000 109.3000 109.4000 109.5000 109.6000 109.7000
Columns 99 through 105
109.8000 109.9000 110.0000 110.1000 110.2000 110.3000 110.4000
Columns 106 through 112
110.5000 110.6000 110.7000 110.8000 110.9000 111.0000 111.1000
Columns 113 through 119
111.2000 111.3000 111.4000 111.5000 111.6000 111.7000 111.8000
Columns 120 through 126
111.9000 112.0000 112.1000 112.2000 112.3000 112.4000 112.5000
Columns 127 through 133
112.6000 112.7000 112.8000 112.9000 113.0000 113.1000 113.2000
Columns 134 through 140
113.3000 113.4000 113.5000 113.6000 113.7000 113.8000 113.9000
Columns 141 through 147
114.0000 114.1000 114.2000 114.3000 114.4000 114.5000 114.6000
Columns 148 through 154
114.7000 114.8000 114.9000 115.0000 115.1000 115.2000 115.3000
Columns 155 through 161
115.4000 115.5000 115.6000 115.7000 115.8000 115.9000 116.0000
Columns 162 through 168
116.1000 116.2000 116.3000 116.4000 116.5000 116.6000 116.7000
Columns 169 through 175
116.8000 116.9000 117.0000 117.1000 117.2000 117.3000 117.4000
Columns 176 through 182
117.5000 117.6000 117.7000 117.8000 117.9000 118.0000 118.1000
Columns 183 through 189
118.2000 118.3000 118.4000 118.5000 118.6000 118.7000 118.8000
Columns 190 through 196
118.9000 119.0000 119.1000 119.2000 119.3000 119.4000 119.5000
Columns 197 through 203
119.6000 119.7000 119.8000 119.9000 120.0000 120.1000 120.2000
Columns 204 through 210
120.3000 120.4000 120.5000 120.6000 120.7000 120.8000 120.9000
Columns 211 through 217
121.0000 121.1000 121.2000 121.3000 121.4000 121.5000 121.6000
Columns 218 through 224
121.7000 121.8000 121.9000 122.0000 122.1000 122.2000 122.3000
Columns 225 through 231
122.4000 122.5000 122.6000 122.7000 122.8000 122.9000 123.0000
Columns 232 through 238
123.1000 123.2000 123.3000 123.4000 123.5000 123.6000 123.7000
Columns 239 through 245
123.8000 123.9000 124.0000 124.1000 124.2000 124.3000 124.4000
Columns 246 through 252
124.5000 124.6000 124.7000 124.8000 124.9000 125.0000 125.1000
Columns 253 through 259
125.2000 125.3000 125.4000 125.5000 125.6000 125.7000 125.8000
Columns 260 through 266
125.9000 126.0000 126.1000 126.2000 126.3000 126.4000 126.5000
Columns 267 through 273
126.6000 126.7000 126.8000 126.9000 127.0000 127.1000 127.2000
Columns 274 through 280
127.3000 127.4000 127.5000 127.6000 127.7000 127.8000 127.9000
Columns 281 through 287
128.0000 128.1000 128.2000 128.3000 128.4000 128.5000 128.6000
Columns 288 through 294
128.7000 128.8000 128.9000 129.0000 129.1000 129.2000 129.3000
Columns 295 through 301
129.4000 129.5000 129.6000 129.7000 129.8000 129.9000 130.0000
Columns 302 through 308
130.1000 130.2000 130.3000 130.4000 130.5000 130.6000 130.7000
Columns 309 through 315
130.8000 130.9000 131.0000 131.1000 131.2000 131.3000 131.4000
Columns 316 through 322
131.5000 131.6000 131.7000 131.8000 131.9000 132.0000 132.1000
Columns 323 through 329
132.2000 132.3000 132.4000 132.5000 132.6000 132.7000 132.8000
Columns 330 through 336
132.9000 133.0000 133.1000 133.2000 133.3000 133.4000 133.5000
Columns 337 through 343
133.6000 133.7000 133.8000 133.9000 134.0000 134.1000 134.2000
Columns 344 through 350
134.3000 134.4000 134.5000 134.6000 134.7000 134.8000 134.9000
Columns 351 through 357
135.0000 135.1000 135.2000 135.3000 135.4000 135.5000 135.6000
Columns 358 through 364
135.7000 135.8000 135.9000 136.0000 136.1000 136.2000 136.3000
Columns 365 through 371
136.4000 136.5000 136.6000 136.7000 136.8000 136.9000 137.0000
Columns 372 through 378
137.1000 137.2000 137.3000 137.4000 137.5000 137.6000 137.7000
Columns 379 through 385
137.8000 137.9000 138.0000 138.1000 138.2000 138.3000 138.4000
Columns 386 through 392
138.5000 138.6000 138.7000 138.8000 138.9000 139.0000 139.1000
Columns 393 through 399
139.2000 139.3000 139.4000 139.5000 139.6000 139.7000 139.8000
Columns 400 through 406
139.9000 140.0000 140.1000 140.2000 140.3000 140.4000 140.5000
Columns 407 through 413
140.6000 140.7000 140.8000 140.9000 141.0000 141.1000 141.2000
Columns 414 through 420
141.3000 141.4000 141.5000 141.6000 141.7000 141.8000 141.9000
Columns 421 through 427
142.0000 142.1000 142.2000 142.3000 142.4000 142.5000 142.6000
Columns 428 through 434
142.7000 142.8000 142.9000 143.0000 143.1000 143.2000 143.3000
Columns 435 through 441
143.4000 143.5000 143.6000 143.7000 143.8000 143.9000 144.0000
Columns 442 through 448
144.1000 144.2000 144.3000 144.4000 144.5000 144.6000 144.7000
Columns 449 through 455
144.8000 144.9000 145.0000 145.1000 145.2000 145.3000 145.4000
Columns 456 through 462
145.5000 145.6000 145.7000 145.8000 145.9000 146.0000 146.1000
Columns 463 through 469
146.2000 146.3000 146.4000 146.5000 146.6000 146.7000 146.8000
Columns 470 through 476
146.9000 147.0000 147.1000 147.2000 147.3000 147.4000 147.5000
Columns 477 through 483
147.6000 147.7000 147.8000 147.9000 148.0000 148.1000 148.2000
Columns 484 through 490
148.3000 148.4000 148.5000 148.6000 148.7000 148.8000 148.9000
Columns 491 through 497
149.0000 149.1000 149.2000 149.3000 149.4000 149.5000 149.6000
Columns 498 through 504
149.7000 149.8000 149.9000 150.0000 150.1000 150.2000 150.3000
Columns 505 through 511
150.4000 150.5000 150.6000 150.7000 150.8000 150.9000 151.0000
Columns 512 through 518
151.1000 151.2000 151.3000 151.4000 151.5000 151.6000 151.7000
Columns 519 through 525
151.8000 151.9000 152.0000 152.1000 152.2000 152.3000 152.4000
Columns 526 through 532
152.5000 152.6000 152.7000 152.8000 152.9000 153.0000 153.1000
Columns 533 through 539
153.2000 153.3000 153.4000 153.5000 153.6000 153.7000 153.8000
Columns 540 through 546
153.9000 154.0000 154.1000 154.2000 154.3000 154.4000 154.5000
Columns 547 through 553
154.6000 154.7000 154.8000 154.9000 155.0000 155.1000 155.2000
Columns 554 through 560
155.3000 155.4000 155.5000 155.6000 155.7000 155.8000 155.9000
Columns 561 through 567
156.0000 156.1000 156.2000 156.3000 156.4000 156.5000 156.6000
Columns 568 through 574
156.7000 156.8000 156.9000 157.0000 157.1000 157.2000 157.3000
Columns 575 through 581
157.4000 157.5000 157.6000 157.7000 157.8000 157.9000 158.0000
Columns 582 through 588
158.1000 158.2000 158.3000 158.4000 158.5000 158.6000 158.7000
Columns 589 through 595
158.8000 158.9000 159.0000 159.1000 159.2000 159.3000 159.4000
Columns 596 through 602
159.5000 159.6000 159.7000 159.8000 159.9000 160.0000 160.1000
Columns 603 through 609
160.2000 160.3000 160.4000 160.5000 160.6000 160.7000 160.8000
Columns 610 through 616
160.9000 161.0000 161.1000 161.2000 161.3000 161.4000 161.5000
Columns 617 through 623
161.6000 161.7000 161.8000 161.9000 162.0000 162.1000 162.2000
Columns 624 through 630
162.3000 162.4000 162.5000 162.6000 162.7000 162.8000 162.9000
Columns 631 through 637
163.0000 163.1000 163.2000 163.3000 163.4000 163.5000 163.6000
Columns 638 through 644
163.7000 163.8000 163.9000 164.0000 164.1000 164.2000 164.3000
Columns 645 through 651
164.4000 164.5000 164.6000 164.7000 164.8000 164.9000 165.0000
Columns 652 through 658
165.1000 165.2000 165.3000 165.4000 165.5000 165.6000 165.7000
Columns 659 through 665
165.8000 165.9000 166.0000 166.1000 166.2000 166.3000 166.4000
Columns 666 through 672
166.5000 166.6000 166.7000 166.8000 166.9000 167.0000 167.1000
Columns 673 through 679
167.2000 167.3000 167.4000 167.5000 167.6000 167.7000 167.8000
Columns 680 through 686
167.9000 168.0000 168.1000 168.2000 168.3000 168.4000 168.5000
Columns 687 through 693
168.6000 168.7000 168.8000 168.9000 169.0000 169.1000 169.2000
Columns 694 through 700
169.3000 169.4000 169.5000 169.6000 169.7000 169.8000 169.9000
Columns 701 through 707
170.0000 170.1000 170.2000 170.3000 170.4000 170.5000 170.6000
Columns 708 through 714
170.7000 170.8000 170.9000 171.0000 171.1000 171.2000 171.3000
Columns 715 through 721
171.4000 171.5000 171.6000 171.7000 171.8000 171.9000 172.0000
Columns 722 through 728
172.1000 172.2000 172.3000 172.4000 172.5000 172.6000 172.7000
Columns 729 through 735
172.8000 172.9000 173.0000 173.1000 173.2000 173.3000 173.4000
Columns 736 through 742
173.5000 173.6000 173.7000 173.8000 173.9000 174.0000 174.1000
Columns 743 through 749
174.2000 174.3000 174.4000 174.5000 174.6000 174.7000 174.8000
Columns 750 through 756
174.9000 175.0000 175.1000 175.2000 175.3000 175.4000 175.5000
Columns 757 through 763
175.6000 175.7000 175.8000 175.9000 176.0000 176.1000 176.2000
Columns 764 through 770
176.3000 176.4000 176.5000 176.6000 176.7000 176.8000 176.9000
Columns 771 through 777
177.0000 177.1000 177.2000 177.3000 177.4000 177.5000 177.6000
Columns 778 through 784
177.7000 177.8000 177.9000 178.0000 178.1000 178.2000 178.3000
Columns 785 through 791
178.4000 178.5000 178.6000 178.7000 178.8000 178.9000 179.0000
Columns 792 through 798
179.1000 179.2000 179.3000 179.4000 179.5000 179.6000 179.7000
Columns 799 through 805
179.8000 179.9000 180.0000 180.1000 180.2000 180.3000 180.4000
Columns 806 through 812
180.5000 180.6000 180.7000 180.8000 180.9000 181.0000 181.1000
Columns 813 through 819
181.2000 181.3000 181.4000 181.5000 181.6000 181.7000 181.8000
Columns 820 through 826
181.9000 182.0000 182.1000 182.2000 182.3000 182.4000 182.5000
Columns 827 through 833
182.6000 182.7000 182.8000 182.9000 183.0000 183.1000 183.2000
Columns 834 through 840
183.3000 183.4000 183.5000 183.6000 183.7000 183.8000 183.9000
Columns 841 through 847
184.0000 184.1000 184.2000 184.3000 184.4000 184.5000 184.6000
Columns 848 through 854
184.7000 184.8000 184.9000 185.0000 185.1000 185.2000 185.3000
Columns 855 through 861
185.4000 185.5000 185.6000 185.7000 185.8000 185.9000 186.0000
Columns 862 through 868
186.1000 186.2000 186.3000 186.4000 186.5000 186.6000 186.7000
Columns 869 through 875
186.8000 186.9000 187.0000 187.1000 187.2000 187.3000 187.4000
Columns 876 through 882
187.5000 187.6000 187.7000 187.8000 187.9000 188.0000 188.1000
Columns 883 through 889
188.2000 188.3000 188.4000 188.5000 188.6000 188.7000 188.8000
Columns 890 through 896
188.9000 189.0000 189.1000 189.2000 189.3000 189.4000 189.5000
Columns 897 through 903
189.6000 189.7000 189.8000 189.9000 190.0000 190.1000 190.2000
Columns 904 through 910
190.3000 190.4000 190.5000 190.6000 190.7000 190.8000 190.9000
Columns 911 through 917
191.0000 191.1000 191.2000 191.3000 191.4000 191.5000 191.6000
Columns 918 through 924
191.7000 191.8000 191.9000 192.0000 192.1000 192.2000 192.3000
Columns 925 through 931
192.4000 192.5000 192.6000 192.7000 192.8000 192.9000 193.0000
Columns 932 through 938
193.1000 193.2000 193.3000 193.4000 193.5000 193.6000 193.7000
Columns 939 through 945
193.8000 193.9000 194.0000 194.1000 194.2000 194.3000 194.4000
Columns 946 through 952
194.5000 194.6000 194.7000 194.8000 194.9000 195.0000 195.1000
Columns 953 through 959
195.2000 195.3000 195.4000 195.5000 195.6000 195.7000 195.8000
Columns 960 through 966
195.9000 196.0000 196.1000 196.2000 196.3000 196.4000 196.5000
Columns 967 through 973
196.6000 196.7000 196.8000 196.9000 197.0000 197.1000 197.2000
Columns 974 through 980
197.3000 197.4000 197.5000 197.6000 197.7000 197.8000 197.9000
Columns 981 through 987
198.0000 198.1000 198.2000 198.3000 198.4000 198.5000 198.6000
Columns 988 through 994
198.7000 198.8000 198.9000 199.0000 199.1000 199.2000 199.3000
Columns 995 through 1000
199.4000 199.5000 199.6000 199.7000 199.8000 199.9000
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2001, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
Reading 19010 points, or 1901 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2002, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
Reading 19020 points, or 1902 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 3002, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 1900.0999 ms
Reading 29020 points, or 2901.9999 ms of data.
>> size(dat)
ans =
19001 1
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 3002, 'b');
{??? Error: File: /home/cengiz/work/cen_matlab/readgenbin.m Line: 88 Column: 75
Unbalanced or unexpected parenthesis or bracket.
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 3002, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
{??? Error using ==> readgenbin at 88
end_time is past end of file!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2001, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19010 points, or 1901 ms of data.
>> size(dat)
ans =
19001 1
>> size(t)
ans =
1 19010
>> help fread
FREAD Read binary data from file.
A = FREAD(FID) reads binary data from the specified file
and writes it into matrix A. FID is an integer file
identifier obtained from FOPEN. MATLAB reads the entire
file and positions the file pointer at the end of the file
(see FEOF for details).
A = FREAD(FID,SIZE) reads the number of elements specified
by SIZE. Valid entries for SIZE are:
N read N elements into a column vector.
inf read to the end of the file.
[M,N] read elements to fill an M-by-N matrix, in column order.
N can be inf, but M can't.
A = FREAD(FID,SIZE,PRECISION) reads the file according to
the data format specified by the string PRECISION. The
PRECISION input commonly contains a datatype specifier like
'int' or 'float', followed by an integer giving the size in
bits. The SIZE argument is optional when using this syntax.
Any of the following strings, either the MATLAB version, or
their C or Fortran equivalent, may be used. If not specified,
the default precision is 'uint8'.
MATLAB C or Fortran Description
'uchar' 'unsigned char' unsigned integer, 8 bits.
'schar' 'signed char' signed integer, 8 bits.
'int8' 'integer*1' integer, 8 bits.
'int16' 'integer*2' integer, 16 bits.
'int32' 'integer*4' integer, 32 bits.
'int64' 'integer*8' integer, 64 bits.
'uint8' 'integer*1' unsigned integer, 8 bits.
'uint16' 'integer*2' unsigned integer, 16 bits.
'uint32' 'integer*4' unsigned integer, 32 bits.
'uint64' 'integer*8' unsigned integer, 64 bits.
'single' 'real*4' floating point, 32 bits.
'float32' 'real*4' floating point, 32 bits.
'double' 'real*8' floating point, 64 bits.
'float64' 'real*8' floating point, 64 bits.
The following platform dependent formats are also supported but
they are not guaranteed to be the same size on all platforms.
MATLAB C or Fortran Description
'char' 'char*1' character.
'short' 'short' integer, 16 bits.
'int' 'int' integer, 32 bits.
'long' 'long' integer, 32 or 64 bits.
'ushort' 'unsigned short' unsigned integer, 16 bits.
'uint' 'unsigned int' unsigned integer, 32 bits.
'ulong' 'unsigned long' unsigned integer, 32 bits or 64 bits.
'float' 'float' floating point, 32 bits.
If the precision is 'char' or 'char*1', MATLAB reads characters
using the encoding scheme associated with the file. See FOPEN
for more information.
The following formats map to an input stream of bits rather than
bytes.
'bitN' signed integer, N bits (1<=N<=64).
'ubitN' unsigned integer, N bits (1<=N<=64).
If the input stream is bytes and FREAD reaches the end of file
(see FEOF) in the middle of reading the number of bytes required
for an element, the partial result is ignored. However, if the
input stream is bits, then the partial result is returned as the
last value. If an error occurs before reaching the end of file,
only full elements read up to that point are used.
By default, numeric and character values are returned in class
'double' arrays. To return these values stored in classes other
than double, create your PRECISION argument by first specifying
your source format, then following it by '=>', and finally
specifying your destination format. If the source and destination
formats are the same then the following shorthand notation may be
used:
*source
which means:
source=>source
For example,
uint8=>uint8 read in unsigned 8-bit integers and
save them in an unsigned 8-bit integer
array
*uint8 shorthand version of previous example
bit4=>int8 read in signed 4-bit integers packed
in bytes and save them in a signed
8-bit integer array (each 4-bit
integer becomes one 8-bit integer)
double=>real*4 read in doubles, convert and save
as a 32-bit floating point array
A = FREAD(FID,SIZE,PRECISION,SKIP) includes a SKIP argument that
specifies the number of bytes to skip after each PRECISION value
is read. If PRECISION specifies a bit source format, like 'bitN' or
'ubitN', the SKIP argument is interpreted as the number of bits to
skip. The SIZE argument is optional when using this syntax.
When SKIP is used, the PRECISION string may contain a positive
integer repetition factor of the form 'N*' which prepends the source
format of the PRECISION argument, like '40*uchar'. Note that 40*uchar
for the PRECISION alone is equivalent to '40*uchar=>double', not
'40*uchar=>uchar'. With SKIP specified, FREAD reads in, at most, a
repetition factor number of values (default of 1), does a skip of
input specified by the SKIP argument, reads in another block of values
and does a skip of input, etc. until SIZE number of values have been
read. If a SKIP argument is not specified, the repetition factor is
ignored. Repetition with skip is useful for extracting data in
noncontiguous fields from fixed length records.
For example,
s = fread(fid,120,'40*uchar=>uchar',8);
reads in 120 characters in blocks of 40 each separated by 8
characters.
A = FREAD(FID,SIZE,PRECISION,SKIP,MACHINEFORMAT) treats the data
read as having a format given by the string MACHINEFORMAT. You
can obtain the MACHINEFORMAT argument from the output of the
FOPEN function. See FOPEN for possible values for MACHINEFORMAT.
The SIZE and SKIP arguments are optional when using this syntax.
[A, COUNT] = FREAD(...) Optional output argument COUNT returns
the number of elements successfully read.
Examples:
The file alphabet.txt contains the 26 letters of the English
alphabet, all capitalized. Open the file for read access with
fopen, and read the first five elements into output c. Because
a precision has not been specified, MATLAB uses the default
precision of uchar, and the output is numeric:
fid = fopen('alphabet.txt', 'r');
c = fread(fid, 5)'
c =
65 66 67 68 69
fclose(fid);
This time, specify that you want each element read as an unsigned
8-bit integer and output as a character. (Using a precision of
'char=>char' or '*char' will produce the same result):
fid = fopen('alphabet.txt', 'r');
c = fread(fid, 5, 'uint8=>char')'
c =
ABCDE
fclose(fid);
See also fwrite, fseek, fscanf, fgetl, fgets, load, fopen, feof.
Overloaded methods:
serial/fread
icinterface/fread
Reference page in Help browser
doc fread
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2001, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19010 points, or 1901 ms of data.
{Warning: Short read!}
> In readgenbin at 98
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2001, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19010 points, or 1901 ms of data.
{Warning: Short read! 19001 < 19010}
> In readgenbin at 98
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2002, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19020 points, or 1902 ms of data.
{Warning: Short read! 19001 < 19020}
> In readgenbin at 98
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2003, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19030 points, or 1903 ms of data.
{Warning: Short read! 19001 < 19030}
> In readgenbin at 98
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2003, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
{??? Error using ==> readgenbin at 88
end_time is past end of file!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2001, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
{??? Error using ==> readgenbin at 88
end_time is past end of file!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19000 points, or 1900 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000.1, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19001 points, or 1900.1 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000.2, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19002 points, or 1900.2 ms of data.
{Warning: Short read! 19001 < 19002}
> In readgenbin at 98
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000.2, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
{??? Error using ==> readgenbin at 88
end_time is past end of file!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000.1, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19001 points, or 1900.1 ms of data.
>> size(dat)
ans =
19001 1
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, NaN, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 18001 points, or 1800.1 ms of data.
>> size(dat)
ans =
18001 1
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, NaN, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19001 points, or 1900.1 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19000 points, or 1900 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', 100, 2000.1, 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 19001 points, or 1900.1 ms of data.
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{??? Error using ==> readgenbin at 55
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{??? Error using ==> readgenbin at 55
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', [], [], []);
{??? Operands to the || and && operators must be convertible to logical scalar
values.
Error in ==> readgenbin at 36
if ~exist('endian', 'var') || isnan(endian) || isempty(endian)
}
>> help isempty
ISEMPTY True for empty array.
ISEMPTY(X) returns 1 if X is an empty array and 0 otherwise. An
empty array has no elements, that is prod(size(X))==0.
Overloaded methods:
timer/isempty
tscollection/isempty
fittype/isempty
dataset/isempty
categorical/isempty
codistributed/isempty
Composite/isempty
Reference page in Help browser
doc isempty
>> help logic
logic not found.
Use the Help browser search field to search the documentation, or
type "help help" for help command options, such as help for methods.
>> help logical
LOGICAL Convert numeric values to logical.
LOGICAL(X) converts the elements of the array X into logicals,
thus returning an array that can be used for logical indexing
or logical tests. logicals can have the values 0 and 1 corresponding
to false and true, respectively. Any non-zero real element of input
array X is converted to a logical 1 while zeros in X become logical 0.
Complex values and NaNs cannot be converted to logicals and will
result in a conversion error. logical arrays can also be created
using the creation functions TRUE and FALSE.
Because logical arrays are returned by the logical operators (&,|,~)
and the relational operators (==,~=,<,<=,>=,>), as well as by
functions like ANY, ALL, ISNAN, ISINF, ISFINITE, ISEMPTY, ISEQUAL,
etc., it is unusual to need to invoke the LOGICAL function itself.
The term "logical indexing" refers to any indexing operation where
the index expression is a logical array, in which case the index is
treated as a mask that selects elements from the indexed array. In
essence, it is a short-hand notation for A(FIND(B)) that enables us
to simply write A(B) when B is a logical array. The result is the
elements of A at the indices where B is one. It is often convenient
to derive the index expression from the indexed data itself. For
example, the positive elements of a vector A can be obtained using
A(A>0).
Logicals can be combined with doubles in arithmetic operations and
will produce results that are of type double. You can convert a
logical to any other numeric data type using the appropriate
conversion function. For example, double(A) converts the logical
array A into a double array.
See also islogical, false, true, relop, ops.
Overloaded methods:
codistributed/logical
Reference page in Help browser
doc logical
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', [], [], []);
{??? Operands to the || and && operators must be convertible to logical scalar
values.
Error in ==> readgenbin at 36
if ~exist('endian', 'var') || isnan(endian) || logical(isempty(endian))
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', [], [], []);
{??? Operands to the || and && operators must be convertible to logical scalar
values.
Error in ==> readgenbin at 37
if ~exist('endian', 'var') || isnan(endian)
}
>> isnan(12)
ans =
0
>> isnan(12) || isempty(12)
ans =
0
>> isnan(12) || isempty([])
ans =
1
>> isnan([]) || isempty([])
{??? Operands to the || and && operators must be convertible to logical scalar
values.
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', [], [], []);
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{??? Error using ==> readgenbin at 55
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!
}
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', [], [], 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
>> figure; plot(t, dat)
>> [dat t] = readgenbin('~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin', [], [], 'b');
Reading ~/tmp/CompNeuroHW10/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
>> help strcmp
STRCMP Compare strings.
TF = STRCMP(S1,S2) compares the strings S1 and S2 and returns logical 1
(true) if they are identical, and returns logical 0 (false) otherwise.
TF = STRCMP(S,C), compares string S to each element of cell array C,
where S is a character vector (or a 1-by-1 cell array) and C is a cell
array of strings. The function returns TF, a logical array that is the
same size as C and contains logical 1 (true) for those elements of C
that are a match, and logical 0 (false) for those elements that are not.
The order of the two input arguments is not important.
TF = STRCMP(C1,C2) compares each element of C1 to the same element in C2,
where C1 and C2 are equal-size cell arrays of strings. Input C1 and/or C2
can also be a character array having the number of rows as there are
cells in the cell array. The function returns TF, a logical array that
is the same size as C1 or C2, and contains logical 1 (true) for those
elements of C1 and C2 that are a match, and logical 0 (false) for those
elements that are not.
When one of the inputs is a cell array, scalar expansion occurs as
needed.
STRCMP supports international character sets.
See also strncmp, strcmpi, strfind, deblank, regexp.
Overloaded methods:
opaque/strcmp
Reference page in Help browser
doc strcmp
>> help strcmpi
STRCMPI Compare strings ignoring case.
TF = STRCMPI(S1,S2) compares the strings S1 and S2 and returns logical 1
(true) if they are the same except for case, and returns logical 0 (false)
otherwise.
TF = STRCMPI(S,C), compares string S to each element of cell array C,
where S is a character vector (or a 1-by-1 cell array) and C is a cell
array of strings. The function returns TF, a logical array that is the
same size as C and contains logical 1 (true) for those elements of C
that are a match, except for case, and logical 0 (false) for those elements
that are not. The order of the two input arguments is not important.
TF = STRCMPI(C1,C2) compares each element of C1 to the same element in C2,
where C1 and C2 are equal-size cell arrays of strings. Input C1 and/or C2
can also be a character array having the number of rows as there are
cells in the cell array. The function returns TF, a logical array that
is the same size as C1 or C2, and contains logical 1 (true) for those
elements of C1 and C2 that are a match, except for case, and logical 0
(false) for those elements that are not.
When one of the inputs is a cell array, scalar expansion occurs as
needed.
STRCMPI supports international character sets.
See also strcmp, strncmp, strncmpi, regexpi.
Overloaded methods:
opaque/strcmpi
Reference page in Help browser
doc strcmpi
>> help exist
EXIST Check if variables or functions are defined.
EXIST('A') returns:
0 if A does not exist
1 if A is a variable in the workspace
2 if A is an M-file on MATLAB's search path. It also returns 2 when
A is the full pathname to a file or when A is the name of an
ordinary file on MATLAB's search path
3 if A is a MEX-file on MATLAB's search path
4 if A is a MDL-file on MATLAB's search path
5 if A is a built-in MATLAB function
6 if A is a P-file on MATLAB's search path
7 if A is a directory
8 if A is a class (EXIST returns 0 for Java classes if you
start MATLAB with the -nojvm option.)
EXIST('A') or EXIST('A.EXT') returns 2 if a file named 'A' or 'A.EXT'
and the extension isn't a P or MEX function extension.
EXIST('A','var') checks only for variables.
EXIST('A','builtin') checks only for built-in functions.
EXIST('A','file') checks for files or directories.
EXIST('A','dir') checks only for directories.
EXIST('A','class') checks only for classes.
If A specifies a filename, MATLAB attempts to locate the file,
examines the filename extension, and determines the value to
return based on the extension alone. MATLAB does not examine
the contents or internal structure of the file.
When searching for a directory, MATLAB finds directories that are part
of MATLAB's search path. They can be specified by a partial path. It
also finds the current working directory specified by a partial path,
and subdirectories of the current working directory specified by
a relative path.
EXIST returns 0 if the specified instance isn't found.
See also dir, what, isempty, partialpath.
Overloaded methods:
inline/exist
fittype/exist
Composite/exist
Reference page in Help browser
doc exist
>> figure; plot(t, dat)
>>
>> t = trace('data1_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: could not open file 'data1_0_pAcip.bin'
{??? Error using ==> readgenesis
readgenesis: error... see output above
Error in ==> trace.trace at 181
data = readgenesis(data_src, channel);
}
>>
>> pwd
ans =
/home/cengiz/work/pandora
>> cd /home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> t = trace('data20_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: could not open file 'data20_0_pAcip.bin'
{??? Error using ==> readgenesis
readgenesis: error... see output above
Error in ==> trace.trace at 181
data = readgenesis(data_src, channel);
}
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> ls
brute_20.save data_20_trial_0_pAcip.bin
>> t = trace('data_20_trial_0_pAcip.bin', 1e-4, 1e-3, 'GP sim1', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_20_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=GP sim1
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'GP sim1'
props: [1x1 struct]
>> plot(t)
ans =
2
>> prof_trinity = getProfileAllSpikes(t)
{Warning: Error in GP sim1 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in GP sim1 ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for GP sim1 ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, GP sim1
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, GP sim1
ans =
results: [1x1 struct]
id: 'GP sim1'
props: [0x0 struct]
ISICV: 0.0059
SpikeRate: 4.7368
SpikeRateISI: 4.8843
avg: -64.1681
max: 38.5472
min: -70.0721
SpikeAmplitudeMean: 88.7882
SpikeAmplitudeMode: 88.5418
SpikeAmplitudeSTD: 0.6131
SpikeBaseWidthMean: 2.1973
SpikeBaseWidthMode: 2.1194
SpikeBaseWidthSTD: 0.1450
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.7333
SpikeFallTimeMode: 1.7010
SpikeFallTimeSTD: 0.0707
SpikeFixVWidthMean: 1.1370
SpikeFixVWidthMode: 1.1325
SpikeFixVWidthSTD: 0.0037
SpikeHalfVmMean: -6.0533
SpikeHalfVmMode: -5.9603
SpikeHalfVmSTD: 0.3675
SpikeHalfWidthMean: 1.0712
SpikeHalfWidthMode: 1.0644
SpikeHalfWidthSTD: 0.0062
SpikeInitTimeMean: 6.6382
SpikeInitTimeMode: 6.6986
SpikeInitTimeSTD: 0.0955
SpikeInitVmBySlopeMean: -50.2910
SpikeInitVmBySlopeMode: -50.8911
SpikeInitVmBySlopeSTD: 0.3699
SpikeInitVmMean: -50.4473
SpikeInitVmMode: -51.8002
SpikeInitVmSTD: 0.6665
SpikeMaxAHPMean: 19.6204
SpikeMaxAHPMode: 19.7919
SpikeMaxAHPSTD: 0.6646
SpikeMaxVmSlopeMean: 362.9439
SpikeMaxVmSlopeMode: 338.2374
SpikeMaxVmSlopeSTD: 19.5736
SpikeMinTimeMean: 35.6889
SpikeMinTimeMode: 35.6995
SpikeMinTimeSTD: 0.0333
SpikeMinVmMean: -70.0678
SpikeMinVmMode: -70.0719
SpikeMinVmSTD: 0.0028
SpikePeakVmMean: 38.3408
SpikePeakVmMode: 38.2260
SpikePeakVmSTD: 0.1176
SpikeRiseTimeMean: 0.4640
SpikeRiseTimeMode: 0.4197
SpikeRiseTimeSTD: 0.0758
Spikes: 9
>> t_NaP_2 = trace('data_21_trial_0_pAcip.bin', 1e-4, 1e-3, 'Trinity, NaP=2', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_21_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2'
props: [1x1 struct]
>> prof_trinity_NaP_2 = getProfileAllSpikes(t_NaP_2)
{Warning: Error in Trinity, NaP=2 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 ( spike#10): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 ( spike#14): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#14)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 ( spike#16): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#16)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 ( spike#17): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 ( spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2'
props: [0x0 struct]
ISICV: 0.0030
SpikeRate: 8.9474
SpikeRateISI: 9.0406
avg: -65.2548
max: 38.6604
min: -69.6121
SpikeAmplitudeMean: 90.4034
SpikeAmplitudeMode: 89.6899
SpikeAmplitudeSTD: 0.9974
SpikeBaseWidthMean: 2.4401
SpikeBaseWidthMode: 2.2199
SpikeBaseWidthSTD: 0.1781
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.9235
SpikeFallTimeMode: 1.9990
SpikeFallTimeSTD: 0.0903
SpikeFixVWidthMean: 1.1360
SpikeFixVWidthMode: 1.1297
SpikeFixVWidthSTD: 0.0052
SpikeHalfVmMean: -7.1239
SpikeHalfVmMode: -7.7616
SpikeHalfVmSTD: 0.5236
SpikeHalfWidthMean: 1.0877
SpikeHalfWidthMode: 1.0954
SpikeHalfWidthSTD: 0.0084
SpikeInitTimeMean: 6.5764
SpikeInitTimeMode: 6.6986
SpikeInitTimeSTD: 0.1201
SpikeInitVmBySlopeMean: -51.7864
SpikeInitVmBySlopeMode: -52.1540
SpikeInitVmBySlopeSTD: 0.4656
SpikeInitVmMean: -52.3256
SpikeInitVmMode: -53.4364
SpikeInitVmSTD: 0.9977
SpikeMaxAHPMean: 17.2783
SpikeMaxAHPMode: 16.1653
SpikeMaxAHPSTD: 1.0004
SpikeMaxVmSlopeMean: 376.3644
SpikeMaxVmSlopeMode: 394.3713
SpikeMaxVmSlopeSTD: 19.4093
SpikeMinTimeMean: 34.7235
SpikeMinTimeMode: 34.6990
SpikeMinTimeSTD: 0.1251
SpikeMinVmMean: -69.6038
SpikeMinVmMode: -69.6058
SpikeMinVmSTD: 0.0060
SpikePeakVmMean: 38.0778
SpikePeakVmMode: 37.9250
SpikePeakVmSTD: 0.2243
SpikeRiseTimeMean: 0.5166
SpikeRiseTimeMode: 0.4206
SpikeRiseTimeSTD: 0.0967
Spikes: 17
>> plot(t_NaP_2)
ans =
3
>> t_NaP_2_KCNQ_4_5 = trace('data_22_trial_0_pAcip.bin', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_22_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 KCNQ=4.5
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [1x1 struct]
>> plot(t_NaP_2_KCNQ_4_5)
ans =
4
>> prof_trinity_NaP_2_KCNQ_4_5 = getProfileAllSpikes(t_NaP_2_KCNQ_4_5)
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#7): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#9): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#12): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#13): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#15): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#15)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#17): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2 KCNQ=4.5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 KCNQ=4.5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [0x0 struct]
ISICV: 0.0029
SpikeRate: 8.9474
SpikeRateISI: 8.8213
avg: -65.5831
max: 38.7106
min: -70.0973
SpikeAmplitudeMean: 90.2145
SpikeAmplitudeMode: 89.5223
SpikeAmplitudeSTD: 0.9398
SpikeBaseWidthMean: 2.3725
SpikeBaseWidthMode: 2.2516
SpikeBaseWidthSTD: 0.1675
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.8765
SpikeFallTimeMode: 1.8010
SpikeFallTimeSTD: 0.0903
SpikeFixVWidthMean: 1.1364
SpikeFixVWidthMode: 1.1285
SpikeFixVWidthSTD: 0.0045
SpikeHalfVmMean: -6.9591
SpikeHalfVmMode: -7.7118
SpikeHalfVmSTD: 0.4427
SpikeHalfWidthMean: 1.0856
SpikeHalfWidthMode: 1.0737
SpikeHalfWidthSTD: 0.0080
SpikeInitTimeMean: 6.6039
SpikeInitTimeMode: 6.6987
SpikeInitTimeSTD: 0.1007
SpikeInitVmBySlopeMean: -51.7411
SpikeInitVmBySlopeMode: -52.1657
SpikeInitVmBySlopeSTD: 0.4307
SpikeInitVmMean: -52.0663
SpikeInitVmMode: -53.4290
SpikeInitVmSTD: 0.8916
SpikeMaxAHPMean: 18.0249
SpikeMaxAHPMode: 16.6436
SpikeMaxAHPSTD: 0.8919
SpikeMaxVmSlopeMean: 375.2039
SpikeMaxVmSlopeMode: 363.6026
SpikeMaxVmSlopeSTD: 18.3615
SpikeMinTimeMean: 34.4471
SpikeMinTimeMode: 34.4025
SpikeMinTimeSTD: 0.1231
SpikeMinVmMean: -70.0912
SpikeMinVmMode: -70.0939
SpikeMinVmSTD: 0.0047
SpikePeakVmMean: 38.1482
SpikePeakVmMode: 38.0005
SpikePeakVmSTD: 0.1963
SpikeRiseTimeMean: 0.4961
SpikeRiseTimeMode: 0.4211
SpikeRiseTimeSTD: 0.0833
Spikes: 17
>> prof_trinity_NaP_2.SpikeRateISI
{??? Reference to non-existent field 'SpikeRateISI'.
Error in ==> getfield at 38
f = s.(deblank(strField)); % deblank field name
Error in ==> results_profile.get at 12
b = getfield(struct(a), attr);
Error in ==> trace_allspikes_profile.get at 17
b = get(a.results_profile, attr);
Error in ==> results_profile.subsref at 21
b = get(a, index.subs);
}
>> prof_trinity_NaP_2.results.SpikeRateISI
ans =
9.0406
>> prof_trinity_NaP_2_KCNQ_4_5.results.SpikeRateISI
ans =
8.8213
>> who
Your variables are:
ans t
dat t_NaP_2
prof_trinity t_NaP_2_KCNQ_4_5
prof_trinity_NaP_2
prof_trinity_NaP_2_KCNQ_4_5
>> prof_trinity.results.SpikeRateISI
ans =
4.8843
>> t_abdul = trace('data_23_trial_0_pAcip.bin', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_23_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 KCNQ=4.5
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [1x1 struct]
>> prof_abdul = getProfileAllSpikes(t_abdul)
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#7): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#14)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2 KCNQ=4.5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 KCNQ=4.5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [0x0 struct]
ISICV: 0.0038
SpikeRate: 7.3684
SpikeRateISI: 7.2739
avg: -65.1707
max: 44.8712
min: -70.2393
SpikeAmplitudeMean: 96.8411
SpikeAmplitudeMode: 97.0537
SpikeAmplitudeSTD: 0.5330
SpikeBaseWidthMean: 2.2283
SpikeBaseWidthMode: 2.2191
SpikeBaseWidthSTD: 0.0572
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.8143
SpikeFallTimeMode: 1.8005
SpikeFallTimeSTD: 0.0363
SpikeFixVWidthMean: 1.2120
SpikeFixVWidthMode: 1.2064
SpikeFixVWidthSTD: 0.0056
SpikeHalfVmMean: -3.7658
SpikeHalfVmMode: -3.8614
SpikeHalfVmSTD: 0.2274
SpikeHalfWidthMean: 1.1172
SpikeHalfWidthMode: 1.1230
SpikeHalfWidthSTD: 0.0044
SpikeInitTimeMean: 6.7002
SpikeInitTimeMode: 6.7004
SpikeInitTimeSTD: 0.0232
SpikeInitVmBySlopeMean: -52.1501
SpikeInitVmBySlopeMode: -52.4004
SpikeInitVmBySlopeSTD: 0.4314
SpikeInitVmMean: -52.1864
SpikeInitVmMode: -52.3968
SpikeInitVmSTD: 0.4845
SpikeMaxAHPMean: 18.0446
SpikeMaxAHPMode: 17.8329
SpikeMaxAHPSTD: 0.4842
SpikeMaxVmSlopeMean: 447.3201
SpikeMaxVmSlopeMode: 451.3534
SpikeMaxVmSlopeSTD: 20.6668
SpikeMinTimeMean: 31.9714
SpikeMinTimeMode: 31.9990
SpikeMinTimeSTD: 0.0611
SpikeMinVmMean: -70.2309
SpikeMinVmMode: -70.2311
SpikeMinVmSTD: 0.0033
SpikePeakVmMean: 44.6547
SpikePeakVmMode: 44.6613
SpikePeakVmSTD: 0.1035
SpikeRiseTimeMean: 0.4140
SpikeRiseTimeMode: 0.4196
SpikeRiseTimeSTD: 0.0259
Spikes: 14
>>
>> who
Your variables are:
ans t
dat t_NaP_2
prof_abdul t_NaP_2_KCNQ_4_5
prof_trinity t_abdul
prof_trinity_NaP_2
prof_trinity_NaP_2_KCNQ_4_5
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> load('../../../../gp_red_db.mat')
{??? Error using ==> load
Unable to read file ../../../../gp_red_db.mat: No such file or directory.
}
>> load('../../../../gp_db_red.mat')
>> dbsize(gp_db_red(gp_db_red(:, 'NaF') == 125, :))
ans =
2187 297
>> dbsize(gp_db_red(gp_db_red(:, 'NaF') == 1000, :))
ans =
2187 297
>> dbsize(gp_db_red)
ans =
10206 297
>> dbsize(gp_db_red(gp_db_red(:, 'PulseISICV_D200pA') > 0.25 & gp_db_red(:, 'PulseISICV_D200pA') < 0.5, :))
ans =
250 297
>> open('/home/cengiz/Documents/teaching/Comp-Neurosci-2012/hw10/Homework_10_Gunay_clzhao_Conductance125.fig')
>> open('/home/cengiz/Documents/teaching/Comp-Neurosci-2012/hw10/Homework_10_Gunay_clzhao_hist.fig')
>> t_trinity_NaF_700 = trace('data/data_24_trial_0_pA', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3))
{??? Error using ==> trace.trace at 261
No matching load function found for file 'data/data_24_trial_0_pA' or specified
type ''.
}
>> ls
brute_20.save data_20_trial_0_pAcip_trinity.bin
brute_21.save data_21_trial_0_pAcip_trinity_NaP_2.bin
brute_22.save data_22_trial_0_pAcip_trinity_NaP_2_KCNQ_4_5.bin
brute_23.save data_23_trial_0_pAcip.bin
brute_24.save data_24_trial_0_pAcip_trinity_NaF_700.bin
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> t_trinity_NaF_700 = trace('data_24_trial_0_pAcip_trinity_NaF_700.bin', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_24_trial_0_pAcip_trinity_NaF_700.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 KCNQ=4.5
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [1x1 struct]
>> prof_trinity_NaF_700 = getProfileAllSpikes(t_trinity_NaF_700)
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 KCNQ=4.5 ( spike#9): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 KCNQ=4.5 ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2 KCNQ=4.5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 KCNQ=4.5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [0x0 struct]
ISICV: 0.0059
SpikeRate: 4.7368
SpikeRateISI: 5.0135
avg: -64.2480
max: 42.7261
min: -70.2408
SpikeAmplitudeMean: 93.6968
SpikeAmplitudeMode: 93.0774
SpikeAmplitudeSTD: 0.5273
SpikeBaseWidthMean: 2.2059
SpikeBaseWidthMode: 2.1017
SpikeBaseWidthSTD: 0.1073
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.7778
SpikeFallTimeMode: 1.7990
SpikeFallTimeSTD: 0.0667
SpikeFixVWidthMean: 1.1826
SpikeFixVWidthMode: 1.1760
SpikeFixVWidthSTD: 0.0049
SpikeHalfVmMean: -4.3341
SpikeHalfVmMode: -4.8708
SpikeHalfVmSTD: 0.2555
SpikeHalfWidthMean: 1.0930
SpikeHalfWidthMode: 1.0897
SpikeHalfWidthSTD: 0.0047
SpikeInitTimeMean: 6.6830
SpikeInitTimeMode: 6.6995
SpikeInitTimeSTD: 0.0362
SpikeInitVmBySlopeMean: -51.1091
SpikeInitVmBySlopeMode: -51.6006
SpikeInitVmBySlopeSTD: 0.3636
SpikeInitVmMean: -51.1825
SpikeInitVmMode: -52.2491
SpikeInitVmSTD: 0.5110
SpikeMaxAHPMean: 19.0551
SpikeMaxAHPMode: 17.9863
SpikeMaxAHPSTD: 0.5115
SpikeMaxVmSlopeMean: 400.9054
SpikeMaxVmSlopeMode: 434.4865
SpikeMaxVmSlopeSTD: 26.7455
SpikeMinTimeMean: 34.2778
SpikeMinTimeMode: 34.2995
SpikeMinTimeSTD: 0.0441
SpikeMinVmMean: -70.2377
SpikeMinVmMode: -70.2407
SpikeMinVmSTD: 0.0017
SpikePeakVmMean: 42.5143
SpikePeakVmMode: 42.5334
SpikePeakVmSTD: 0.0916
SpikeRiseTimeMean: 0.4281
SpikeRiseTimeMode: 0.4007
SpikeRiseTimeSTD: 0.0456
Spikes: 9
>> prof.results.SpikeRateISI
{??? Undefined function or variable 'prof'.
}
>> who
Your variables are:
a_plot prof_trinity_NaP_2_KCNQ_4_5
ans t
dat t_NaP_2
gp_db_red t_NaP_2_KCNQ_4_5
prof_abdul t_abdul
prof_trinity t_trinity_NaF_700
prof_trinity_NaF_700
prof_trinity_NaP_2
>> prof_trinity.results.SpikeRateISI
ans =
4.8843
>> prof_trinity_NaF_700.results.SpikeRateISI
ans =
5.0135
>> getProfileAllSpikes(trace('data_25', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3)))
{??? Error using ==> trace.trace at 261
No matching load function found for file 'data_25' or specified type ''.
}
>> ls
brute_20.save data_20_trial_0_pAcip_trinity.bin
brute_21.save data_21_trial_0_pAcip_trinity_NaP_2.bin
brute_22.save data_22_trial_0_pAcip_trinity_NaP_2_KCNQ_4_5.bin
brute_23.save data_23_trial_0_pAcip.bin
brute_24.save data_24_trial_0_pAcip_trinity_NaF_700.bin
brute_25.save data_25_trial_0_pAcip_Kv4_640.bin
>> getProfileAllSpikes(trace('data_25_trial_0_pAcip_Kv4_640.bin', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3)))
readgenesis: data_25_trial_0_pAcip_Kv4_640.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace_allspikes_profile, Trinity, NaP=2 KCNQ=4.5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 KCNQ=4.5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [0x0 struct]
ISICV: NaN
SpikeRate: 0
SpikeRateISI: 0
avg: -70.0726
max: -69.7176
min: -70.7298
SpikeAmplitudeMean: NaN
SpikeAmplitudeMode: 0
SpikeAmplitudeSTD: NaN
SpikeBaseWidthMean: NaN
SpikeBaseWidthMode: 0
SpikeBaseWidthSTD: NaN
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: NaN
SpikeFallTimeMode: 0
SpikeFallTimeSTD: NaN
SpikeFixVWidthMean: NaN
SpikeFixVWidthMode: 0
SpikeFixVWidthSTD: NaN
SpikeHalfVmMean: NaN
SpikeHalfVmMode: 0
SpikeHalfVmSTD: NaN
SpikeHalfWidthMean: NaN
SpikeHalfWidthMode: 0
SpikeHalfWidthSTD: NaN
SpikeInitTimeMean: NaN
SpikeInitTimeMode: 0
SpikeInitTimeSTD: NaN
SpikeInitVmBySlopeMean: NaN
SpikeInitVmBySlopeMode: 0
SpikeInitVmBySlopeSTD: NaN
SpikeInitVmMean: NaN
SpikeInitVmMode: 0
SpikeInitVmSTD: NaN
SpikeMaxAHPMean: NaN
SpikeMaxAHPMode: 0
SpikeMaxAHPSTD: NaN
SpikeMaxVmSlopeMean: NaN
SpikeMaxVmSlopeMode: 0
SpikeMaxVmSlopeSTD: NaN
SpikeMinTimeMean: NaN
SpikeMinTimeMode: 0
SpikeMinTimeSTD: NaN
SpikeMinVmMean: NaN
SpikeMinVmMode: 0
SpikeMinVmSTD: NaN
SpikePeakVmMean: NaN
SpikePeakVmMode: 0
SpikePeakVmSTD: NaN
SpikeRiseTimeMean: NaN
SpikeRiseTimeMode: 0
SpikeRiseTimeSTD: NaN
Spikes: 0
>> t_trinity_NaP_2_Kv4_640 = trace('data_25_trial_0_pAcip_Kv4_640.bin', 1e-4, 1e-3, 'Trinity, NaP=2 KCNQ=4.5', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_25_trial_0_pAcip_Kv4_640.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 KCNQ=4.5
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 KCNQ=4.5'
props: [1x1 struct]
>> plot(t_trinity_NaP_2_Kv4_640)
ans =
6
>> t_trinity_NaP_2_Kv4_620 = trace('data_26_trial_0_pAcip_NaP_2_Kv4_620.bin', 1e-4, 1e-3, 'Trinity, NaP=2 Kv4=620', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_26_trial_0_pAcip_NaP_2_Kv4_620.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 Kv4=620
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 Kv4=620'
props: [1x1 struct]
>> plot(t_trinity_NaP_2_Kv4_620)
ans =
7
>> t_charles = trace('data_27_trial_0_pAcip_charles.bin', 1e-4, 1e-3, 'charles', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_27_trial_0_pAcip_charles.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=charles
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'charles'
props: [1x1 struct]
>> plot(t_charles)
ans =
6
>> t_charles = trace('data_27_trial_0_pAcip_charles.bin', 1e-4, 1e-3, 'charles', struct('trace_time_start', 10000, 'scale_y', 1e3))
readgenesis: data_27_trial_0_pAcip_charles.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=charles
ans =
data: [10001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'charles'
props: [1x1 struct]
>> plot(t_charles)
ans =
7
>> prof_charles = getProfileAllSpikes(t_charles)
{Warning: Error in charles ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in charles ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in charles ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in charles ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in charles ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in charles ( spike#7): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for charles ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, charles
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, charles
ans =
results: [1x1 struct]
id: 'charles'
props: [0x0 struct]
ISICV: 0.0013
SpikeRate: 7
SpikeRateISI: 6.7950
avg: -64.9278
max: 39.8265
min: -70.0103
SpikeAmplitudeMean: 91.2328
SpikeAmplitudeMode: 91.0415
SpikeAmplitudeSTD: 0.2956
SpikeBaseWidthMean: 1.4433
SpikeBaseWidthMode: 1.4295
SpikeBaseWidthSTD: 0.0383
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.1167
SpikeFallTimeMode: 1.1005
SpikeFallTimeSTD: 0.0408
SpikeFixVWidthMean: 0.8394
SpikeFixVWidthMode: 0.8318
SpikeFixVWidthSTD: 0.0054
SpikeHalfVmMean: -5.7608
SpikeHalfVmMode: -5.9961
SpikeHalfVmSTD: 0.2038
SpikeHalfWidthMean: 0.7898
SpikeHalfWidthMode: 0.7849
SpikeHalfWidthSTD: 0.0042
SpikeInitTimeMean: 6.7571
SpikeInitTimeMode: 6.7995
SpikeInitTimeSTD: 0.0450
SpikeInitVmBySlopeMean: -51.3635
SpikeInitVmBySlopeMode: -51.0961
SpikeInitVmBySlopeSTD: 0.3076
SpikeInitVmMean: -51.3635
SpikeInitVmMode: -51.0961
SpikeInitVmSTD: 0.3076
SpikeMaxAHPMean: 18.6149
SpikeMaxAHPMode: 18.9127
SpikeMaxAHPSTD: 0.3252
SpikeMaxVmSlopeMean: 393.7415
SpikeMaxVmSlopeMode: 353.6406
SpikeMaxVmSlopeSTD: 31.2838
SpikeMinTimeMean: 23.2000
SpikeMinTimeMode: 23.2000
SpikeMinTimeSTD: 0
SpikeMinVmMean: -70.0082
SpikeMinVmMode: -70.0088
SpikeMinVmSTD: 0.0013
SpikePeakVmMean: 39.8693
SpikePeakVmMode: 40.0206
SpikePeakVmSTD: 0.1447
SpikeRiseTimeMean: 0.3200
SpikeRiseTimeMode: 0.2805
SpikeRiseTimeSTD: 0.0412
Spikes: 7
>> dbsize(gp_red_db(gp_red_db(:, 'CaHVA') == 3, :))
{??? Undefined variable gp_red_db.
}
>> who
Your variables are:
a_plot t
ans t_NaP_2
dat t_NaP_2_KCNQ_4_5
gp_db_red t_abdul
prof_abdul t_charles
prof_charles t_trinity_NaF_700
prof_trinity t_trinity_NaP_2_Kv4_620
prof_trinity_NaF_700 t_trinity_NaP_2_Kv4_640
prof_trinity_NaP_2
prof_trinity_NaP_2_KCNQ_4_5
>> dbsize(gp_db_red(gp_db_red(:, 'CaHVA') == 3, :))
ans =
3402 297
>> dbsize(gp_db_red(gp_db_red(:, 'PulseISICV_D200pA') > 0.3 & gp_db_red(:, 'PulseISICV_D200pA') < 3, :))
ans =
350 297
>> invar_db = invarParam(delColumns(gp_db_red, 'trial'), 'KCNQ')
tests_3D_db, Invariant values from sim db gpsc0503 mult CIP
tests_db, Invariant values from sim db gpsc0503 mult CIP
4 rows in database with 288 columns, and 2916 pages.
Column names:
[ 1] 'KCNQ'
[ 2] 'IniSpontSpikeRateISI_H100pA'
[ 3] 'PulseISICV_H100pA'
[ 4] 'PulseSFA_H100pA'
[ 5] 'PulseIni100msISICV_H100pA'
[ 6] 'PulseIni100msRest1SpikeRate_H100pA'
[ 7] 'PulseIni100msRest2SpikeRate_H100pA'
[ 8] 'PulseIni100msRest1SpikeRateISI_H100pA'
[ 9] 'PulseIni100msRest2SpikeRateISI_H100pA'
[ 10] 'PulseIni100msSpikeRate_H100pA'
[ 11] 'PulseIni100msSpikeRateISI_H100pA'
[ 12] 'PulsePotAvg_H100pA'
[ 13] 'PulseSpikeAmpDecayTau_H100pA'
[ 14] 'PulseSpikeAmpDecayDelta_H100pA'
[ 15] 'PulseSpontAmpRatio_H100pA'
[ 16] 'PulsePotMin_H100pA'
[ 17] 'PulsePotMinTime_H100pA'
[ 18] 'PulsePotSag_H100pA'
[ 19] 'PulsePotTau_H100pA'
[ 20] 'RecSpont1SpikeRate_H100pA'
[ 21] 'RecSpont2SpikeRate_H100pA'
[ 22] 'RecSpont1SpikeRateISI_H100pA'
[ 23] 'RecSpont2SpikeRateISI_H100pA'
[ 24] 'RecSpontFirstISI_H100pA'
[ 25] 'RecSpontFirstSpikeTime_H100pA'
[ 26] 'RecSpontISICV_H100pA'
[ 27] 'RecSpontPotAvg_H100pA'
[ 28] 'RecovSpikeAmplitudeMean_H100pA'
[ 29] 'RecovSpikeAmplitudeMode_H100pA'
[ 30] 'RecovSpikeAmplitudeSTD_H100pA'
[ 31] 'RecovSpikeBaseWidthMean_H100pA'
[ 32] 'RecovSpikeBaseWidthMode_H100pA'
[ 33] 'RecovSpikeBaseWidthSTD_H100pA'
[ 34] 'RecovSpikeFallTimeMean_H100pA'
[ 35] 'RecovSpikeFallTimeMode_H100pA'
[ 36] 'RecovSpikeFallTimeSTD_H100pA'
[ 37] 'RecovSpikeHalfWidthMean_H100pA'
[ 38] 'RecovSpikeHalfWidthMode_H100pA'
[ 39] 'RecovSpikeHalfWidthSTD_H100pA'
[ 40] 'RecovSpikeInitVmBySlopeMean_H100pA'
[ 41] 'RecovSpikeInitVmBySlopeMode_H100pA'
[ 42] 'RecovSpikeInitVmBySlopeSTD_H100pA'
[ 43] 'RecovSpikeInitVmMean_H100pA'
[ 44] 'RecovSpikeInitVmMode_H100pA'
[ 45] 'RecovSpikeInitVmSTD_H100pA'
[ 46] 'RecovSpikeMaxAHPMean_H100pA'
[ 47] 'RecovSpikeMaxAHPMode_H100pA'
[ 48] 'RecovSpikeMaxAHPSTD_H100pA'
[ 49] 'RecovSpikeMaxVmSlopeMean_H100pA'
[ 50] 'RecovSpikeMaxVmSlopeMode_H100pA'
[ 51] 'RecovSpikeMaxVmSlopeSTD_H100pA'
[ 52] 'RecovSpikeMinTimeMean_H100pA'
[ 53] 'RecovSpikeMinTimeMode_H100pA'
[ 54] 'RecovSpikeMinTimeSTD_H100pA'
[ 55] 'RecovSpikeRiseTimeMean_H100pA'
[ 56] 'RecovSpikeRiseTimeMode_H100pA'
[ 57] 'RecovSpikeRiseTimeSTD_H100pA'
[ 58] 'IniSpontISICV_0pA'
[ 59] 'IniSpontPotAvg_0pA'
[ 60] 'IniSpontSpikeRate_0pA'
[ 61] 'IniSpontSpikeRateISI_0pA'
[ 62] 'SpontSpikeAmplitudeMean_0pA'
[ 63] 'SpontSpikeAmplitudeMode_0pA'
[ 64] 'SpontSpikeAmplitudeSTD_0pA'
[ 65] 'SpontSpikeBaseWidthMean_0pA'
[ 66] 'SpontSpikeBaseWidthMode_0pA'
[ 67] 'SpontSpikeBaseWidthSTD_0pA'
[ 68] 'SpontSpikeFallTimeMean_0pA'
[ 69] 'SpontSpikeFallTimeMode_0pA'
[ 70] 'SpontSpikeFallTimeSTD_0pA'
[ 71] 'SpontSpikeHalfWidthMean_0pA'
[ 72] 'SpontSpikeHalfWidthMode_0pA'
[ 73] 'SpontSpikeHalfWidthSTD_0pA'
[ 74] 'SpontSpikeInitVmBySlopeMean_0pA'
[ 75] 'SpontSpikeInitVmBySlopeMode_0pA'
[ 76] 'SpontSpikeInitVmBySlopeSTD_0pA'
[ 77] 'SpontSpikeInitVmMean_0pA'
[ 78] 'SpontSpikeInitVmMode_0pA'
[ 79] 'SpontSpikeInitVmSTD_0pA'
[ 80] 'SpontSpikeMaxAHPMean_0pA'
[ 81] 'SpontSpikeMaxAHPMode_0pA'
[ 82] 'SpontSpikeMaxAHPSTD_0pA'
[ 83] 'SpontSpikeMaxVmSlopeMean_0pA'
[ 84] 'SpontSpikeMaxVmSlopeMode_0pA'
[ 85] 'SpontSpikeMaxVmSlopeSTD_0pA'
[ 86] 'SpontSpikeMinTimeMean_0pA'
[ 87] 'SpontSpikeMinTimeMode_0pA'
[ 88] 'SpontSpikeMinTimeSTD_0pA'
[ 89] 'SpontSpikeRiseTimeMean_0pA'
[ 90] 'SpontSpikeRiseTimeMode_0pA'
[ 91] 'SpontSpikeRiseTimeSTD_0pA'
[ 92] 'PulseISICV_D40pA'
[ 93] 'PulseSFA_D40pA'
[ 94] 'PulseIni100msISICV_D40pA'
[ 95] 'PulseIni100msRest1SpikeRate_D40pA'
[ 96] 'PulseIni100msRest2SpikeRate_D40pA'
[ 97] 'PulseIni100msRest1SpikeRateISI_D40pA'
[ 98] 'PulseIni100msRest2SpikeRateISI_D40pA'
[ 99] 'PulseIni100msSpikeRate_D40pA'
[100] 'PulseIni100msSpikeRateISI_D40pA'
[101] 'PulsePotAvg_D40pA'
[102] 'PulseSpikeAmpDecayTau_D40pA'
[103] 'PulseSpikeAmpDecayDelta_D40pA'
[104] 'RecIniSpontPotRatio_D40pA'
[105] 'RecIniSpontRateRatio_D40pA'
[106] 'RecSpont1SpikeRate_D40pA'
[107] 'RecSpont2SpikeRate_D40pA'
[108] 'RecSpont1SpikeRateISI_D40pA'
[109] 'RecSpont2SpikeRateISI_D40pA'
[110] 'RecSpontFirstISI_D40pA'
[111] 'RecSpontFirstSpikeTime_D40pA'
[112] 'RecSpontISICV_D40pA'
[113] 'RecSpontPotAvg_D40pA'
[114] 'PulseSpikeAmplitudeMean_D40pA'
[115] 'PulseSpikeAmplitudeMode_D40pA'
[116] 'PulseSpikeAmplitudeSTD_D40pA'
[117] 'PulseSpikeBaseWidthMean_D40pA'
[118] 'PulseSpikeBaseWidthMode_D40pA'
[119] 'PulseSpikeBaseWidthSTD_D40pA'
[120] 'PulseSpikeFallTimeMean_D40pA'
[121] 'PulseSpikeFallTimeMode_D40pA'
[122] 'PulseSpikeFallTimeSTD_D40pA'
[123] 'PulseSpikeHalfWidthMean_D40pA'
[124] 'PulseSpikeHalfWidthMode_D40pA'
[125] 'PulseSpikeHalfWidthSTD_D40pA'
[126] 'PulseSpikeInitVmBySlopeMean_D40pA'
[127] 'PulseSpikeInitVmBySlopeMode_D40pA'
[128] 'PulseSpikeInitVmBySlopeSTD_D40pA'
[129] 'PulseSpikeInitVmMean_D40pA'
[130] 'PulseSpikeInitVmMode_D40pA'
[131] 'PulseSpikeInitVmSTD_D40pA'
[132] 'PulseSpikeMaxAHPMean_D40pA'
[133] 'PulseSpikeMaxAHPMode_D40pA'
[134] 'PulseSpikeMaxAHPSTD_D40pA'
[135] 'PulseSpikeMaxVmSlopeMean_D40pA'
[136] 'PulseSpikeMaxVmSlopeMode_D40pA'
[137] 'PulseSpikeMaxVmSlopeSTD_D40pA'
[138] 'PulseSpikeMinTimeMean_D40pA'
[139] 'PulseSpikeMinTimeMode_D40pA'
[140] 'PulseSpikeMinTimeSTD_D40pA'
[141] 'PulseSpikeRiseTimeMean_D40pA'
[142] 'PulseSpikeRiseTimeMode_D40pA'
[143] 'PulseSpikeRiseTimeSTD_D40pA'
[144] 'PulseISICV_D100pA'
[145] 'PulseSFA_D100pA'
[146] 'PulseIni100msISICV_D100pA'
[147] 'PulseIni100msRest1SpikeRate_D100pA'
[148] 'PulseIni100msRest2SpikeRate_D100pA'
[149] 'PulseIni100msRest1SpikeRateISI_D100pA'
[150] 'PulseIni100msRest2SpikeRateISI_D100pA'
[151] 'PulseIni100msSpikeRate_D100pA'
[152] 'PulseIni100msSpikeRateISI_D100pA'
[153] 'PulsePotAvg_D100pA'
[154] 'PulseSpikeAmpDecayTau_D100pA'
[155] 'PulseSpikeAmpDecayDelta_D100pA'
[156] 'RecSpont1SpikeRate_D100pA'
[157] 'RecSpont2SpikeRate_D100pA'
[158] 'RecSpont1SpikeRateISI_D100pA'
[159] 'RecSpont2SpikeRateISI_D100pA'
[160] 'RecSpontFirstISI_D100pA'
[161] 'RecSpontFirstSpikeTime_D100pA'
[162] 'RecSpontISICV_D100pA'
[163] 'RecSpontPotAvg_D100pA'
[164] 'PulseSpikeAmplitudeMean_D100pA'
[165] 'PulseSpikeAmplitudeMode_D100pA'
[166] 'PulseSpikeAmplitudeSTD_D100pA'
[167] 'PulseSpikeBaseWidthMean_D100pA'
[168] 'PulseSpikeBaseWidthMode_D100pA'
[169] 'PulseSpikeBaseWidthSTD_D100pA'
[170] 'PulseSpikeFallTimeMean_D100pA'
[171] 'PulseSpikeFallTimeMode_D100pA'
[172] 'PulseSpikeFallTimeSTD_D100pA'
[173] 'PulseSpikeHalfWidthMean_D100pA'
[174] 'PulseSpikeHalfWidthMode_D100pA'
[175] 'PulseSpikeHalfWidthSTD_D100pA'
[176] 'PulseSpikeInitVmBySlopeMean_D100pA'
[177] 'PulseSpikeInitVmBySlopeMode_D100pA'
[178] 'PulseSpikeInitVmBySlopeSTD_D100pA'
[179] 'PulseSpikeInitVmMean_D100pA'
[180] 'PulseSpikeInitVmMode_D100pA'
[181] 'PulseSpikeInitVmSTD_D100pA'
[182] 'PulseSpikeMaxAHPMean_D100pA'
[183] 'PulseSpikeMaxAHPMode_D100pA'
[184] 'PulseSpikeMaxAHPSTD_D100pA'
[185] 'PulseSpikeMaxVmSlopeMean_D100pA'
[186] 'PulseSpikeMaxVmSlopeMode_D100pA'
[187] 'PulseSpikeMaxVmSlopeSTD_D100pA'
[188] 'PulseSpikeMinTimeMean_D100pA'
[189] 'PulseSpikeMinTimeMode_D100pA'
[190] 'PulseSpikeMinTimeSTD_D100pA'
[191] 'PulseSpikeRiseTimeMean_D100pA'
[192] 'PulseSpikeRiseTimeMode_D100pA'
[193] 'PulseSpikeRiseTimeSTD_D100pA'
[194] 'RecovSpikeAmplitudeMean_D100pA'
[195] 'RecovSpikeAmplitudeMode_D100pA'
[196] 'RecovSpikeAmplitudeSTD_D100pA'
[197] 'RecovSpikeBaseWidthMean_D100pA'
[198] 'RecovSpikeBaseWidthMode_D100pA'
[199] 'RecovSpikeBaseWidthSTD_D100pA'
[200] 'RecovSpikeFallTimeMean_D100pA'
[201] 'RecovSpikeFallTimeMode_D100pA'
[202] 'RecovSpikeFallTimeSTD_D100pA'
[203] 'RecovSpikeHalfWidthMean_D100pA'
[204] 'RecovSpikeHalfWidthMode_D100pA'
[205] 'RecovSpikeHalfWidthSTD_D100pA'
[206] 'RecovSpikeInitVmBySlopeMean_D100pA'
[207] 'RecovSpikeInitVmBySlopeMode_D100pA'
[208] 'RecovSpikeInitVmBySlopeSTD_D100pA'
[209] 'RecovSpikeInitVmMean_D100pA'
[210] 'RecovSpikeInitVmMode_D100pA'
[211] 'RecovSpikeInitVmSTD_D100pA'
[212] 'RecovSpikeMaxAHPMean_D100pA'
[213] 'RecovSpikeMaxAHPMode_D100pA'
[214] 'RecovSpikeMaxAHPSTD_D100pA'
[215] 'RecovSpikeMaxVmSlopeMean_D100pA'
[216] 'RecovSpikeMaxVmSlopeMode_D100pA'
[217] 'RecovSpikeMaxVmSlopeSTD_D100pA'
[218] 'RecovSpikeMinTimeMean_D100pA'
[219] 'RecovSpikeMinTimeMode_D100pA'
[220] 'RecovSpikeMinTimeSTD_D100pA'
[221] 'RecovSpikeRiseTimeMean_D100pA'
[222] 'RecovSpikeRiseTimeMode_D100pA'
[223] 'RecovSpikeRiseTimeSTD_D100pA'
[224] 'PulseISICV_D200pA'
[225] 'PulseSFA_D200pA'
[226] 'PulseIni100msISICV_D200pA'
[227] 'PulseIni100msRest1SpikeRate_D200pA'
[228] 'PulseIni100msRest2SpikeRate_D200pA'
[229] 'PulseIni100msRest1SpikeRateISI_D200pA'
[230] 'PulseIni100msRest2SpikeRateISI_D200pA'
[231] 'PulseIni100msSpikeRate_D200pA'
[232] 'PulseIni100msSpikeRateISI_D200pA'
[233] 'PulsePotAvg_D200pA'
[234] 'PulseSpikeAmpDecayTau_D200pA'
[235] 'PulseSpikeAmpDecayDelta_D200pA'
[236] 'RecIniSpontPotRatio_D200pA'
[237] 'RecIniSpontRateRatio_D200pA'
[238] 'RecSpont1SpikeRate_D200pA'
[239] 'RecSpont2SpikeRate_D200pA'
[240] 'RecSpont1SpikeRateISI_D200pA'
[241] 'RecSpont2SpikeRateISI_D200pA'
[242] 'RecSpontFirstISI_D200pA'
[243] 'RecSpontFirstSpikeTime_D200pA'
[244] 'RecSpontISICV_D200pA'
[245] 'RecSpontPotAvg_D200pA'
[246] 'PulseSpikeAmplitudeMean_D200pA'
[247] 'PulseSpikeAmplitudeMode_D200pA'
[248] 'PulseSpikeAmplitudeSTD_D200pA'
[249] 'PulseSpikeBaseWidthMean_D200pA'
[250] 'PulseSpikeBaseWidthMode_D200pA'
[251] 'PulseSpikeBaseWidthSTD_D200pA'
[252] 'PulseSpikeFallTimeMean_D200pA'
[253] 'PulseSpikeFallTimeMode_D200pA'
[254] 'PulseSpikeFallTimeSTD_D200pA'
[255] 'PulseSpikeHalfWidthMean_D200pA'
[256] 'PulseSpikeHalfWidthMode_D200pA'
[257] 'PulseSpikeHalfWidthSTD_D200pA'
[258] 'PulseSpikeInitVmBySlopeMean_D200pA'
[259] 'PulseSpikeInitVmBySlopeMode_D200pA'
[260] 'PulseSpikeInitVmBySlopeSTD_D200pA'
[261] 'PulseSpikeInitVmMean_D200pA'
[262] 'PulseSpikeInitVmMode_D200pA'
[263] 'PulseSpikeInitVmSTD_D200pA'
[264] 'PulseSpikeMaxAHPMean_D200pA'
[265] 'PulseSpikeMaxAHPMode_D200pA'
[266] 'PulseSpikeMaxAHPSTD_D200pA'
[267] 'PulseSpikeMaxVmSlopeMean_D200pA'
[268] 'PulseSpikeMaxVmSlopeMode_D200pA'
[269] 'PulseSpikeMaxVmSlopeSTD_D200pA'
[270] 'PulseSpikeMinTimeMean_D200pA'
[271] 'PulseSpikeMinTimeMode_D200pA'
[272] 'PulseSpikeMinTimeSTD_D200pA'
[273] 'PulseSpikeRiseTimeMean_D200pA'
[274] 'PulseSpikeRiseTimeMode_D200pA'
[275] 'PulseSpikeRiseTimeSTD_D200pA'
[276] 'PulsePotSagDivMin_H100pA'
[277] 'InputResGOhm_HpA'
[278] 'InputCappF_HpA'
[279] 'IniRecISIRatio_H100pA'
[280] 'PulseSFARatio_D100pA'
[281] 'RecIniSpontRateRatio_H100pA'
[282] 'RecIniSpontRateRatio_D100pA'
[283] 'PulseSpontAmpRatio_D40pA'
[284] 'PulseSpontAmpRatio_D100pA'
[285] 'PulseSpontAmpRatio_D200pA'
[286] 'RecIniSpontPotRatio_H100pA'
[287] 'RecIniSpontPotRatio_D100pA'
[288] 'RowIndex'
Optional properties of tests_db:
ans =
invarName: 'KCNQ'
>> displayRows(invar_db(:, {'IniSpontSpikeRate_0pA'}, 1))
ans =
[1x21 char] [0] [0] [0] [NaN]
>> displayRows(invar_db(:, {'KCNQ', 'IniSpontSpikeRate_0pA'}, 1))
ans =
'KCNQ' [0.0800] [0.4000] [2] [NaN]
[1x21 char] [ 0] [ 0] [0] [NaN]
>> displayRows(invar_db(:, {'KCNQ', 'IniSpontSpikeRate_0pA'}, 18762))
{??? Index exceeds matrix dimensions.
Error in ==> tests_db.onlyRowsTests at 50
obj.data = obj.data(rows, cols, pages);
Error in ==> tests_db.subsref at 55
b = onlyRowsTests(a, index.subs{1:3});
}
>> displayRows(invar_db(:, {'KCNQ', 'IniSpontSpikeRate_0pA'}, 1876))
ans =
'KCNQ' [ 0.0800] [ 0.4000] [ 2] [10]
[1x21 char] [13.0013] [12.0012] [7.0007] [ 0]
>> a_stats_db = statsMeanSE(swapRowsPages(invar_db))
stats_db, Mean and SEs of Invariant values from sim db gpsc0503 mult CIP
tests_db, Mean and SEs of Invariant values from sim db gpsc0503 mult CIP
3 rows in database with 288 columns, and 4 pages.
Column names:
[ 1] 'KCNQ'
[ 2] 'IniSpontSpikeRateISI_H100pA'
[ 3] 'PulseISICV_H100pA'
[ 4] 'PulseSFA_H100pA'
[ 5] 'PulseIni100msISICV_H100pA'
[ 6] 'PulseIni100msRest1SpikeRate_H100pA'
[ 7] 'PulseIni100msRest2SpikeRate_H100pA'
[ 8] 'PulseIni100msRest1SpikeRateISI_H100pA'
[ 9] 'PulseIni100msRest2SpikeRateISI_H100pA'
[ 10] 'PulseIni100msSpikeRate_H100pA'
[ 11] 'PulseIni100msSpikeRateISI_H100pA'
[ 12] 'PulsePotAvg_H100pA'
[ 13] 'PulseSpikeAmpDecayTau_H100pA'
[ 14] 'PulseSpikeAmpDecayDelta_H100pA'
[ 15] 'PulseSpontAmpRatio_H100pA'
[ 16] 'PulsePotMin_H100pA'
[ 17] 'PulsePotMinTime_H100pA'
[ 18] 'PulsePotSag_H100pA'
[ 19] 'PulsePotTau_H100pA'
[ 20] 'RecSpont1SpikeRate_H100pA'
[ 21] 'RecSpont2SpikeRate_H100pA'
[ 22] 'RecSpont1SpikeRateISI_H100pA'
[ 23] 'RecSpont2SpikeRateISI_H100pA'
[ 24] 'RecSpontFirstISI_H100pA'
[ 25] 'RecSpontFirstSpikeTime_H100pA'
[ 26] 'RecSpontISICV_H100pA'
[ 27] 'RecSpontPotAvg_H100pA'
[ 28] 'RecovSpikeAmplitudeMean_H100pA'
[ 29] 'RecovSpikeAmplitudeMode_H100pA'
[ 30] 'RecovSpikeAmplitudeSTD_H100pA'
[ 31] 'RecovSpikeBaseWidthMean_H100pA'
[ 32] 'RecovSpikeBaseWidthMode_H100pA'
[ 33] 'RecovSpikeBaseWidthSTD_H100pA'
[ 34] 'RecovSpikeFallTimeMean_H100pA'
[ 35] 'RecovSpikeFallTimeMode_H100pA'
[ 36] 'RecovSpikeFallTimeSTD_H100pA'
[ 37] 'RecovSpikeHalfWidthMean_H100pA'
[ 38] 'RecovSpikeHalfWidthMode_H100pA'
[ 39] 'RecovSpikeHalfWidthSTD_H100pA'
[ 40] 'RecovSpikeInitVmBySlopeMean_H100pA'
[ 41] 'RecovSpikeInitVmBySlopeMode_H100pA'
[ 42] 'RecovSpikeInitVmBySlopeSTD_H100pA'
[ 43] 'RecovSpikeInitVmMean_H100pA'
[ 44] 'RecovSpikeInitVmMode_H100pA'
[ 45] 'RecovSpikeInitVmSTD_H100pA'
[ 46] 'RecovSpikeMaxAHPMean_H100pA'
[ 47] 'RecovSpikeMaxAHPMode_H100pA'
[ 48] 'RecovSpikeMaxAHPSTD_H100pA'
[ 49] 'RecovSpikeMaxVmSlopeMean_H100pA'
[ 50] 'RecovSpikeMaxVmSlopeMode_H100pA'
[ 51] 'RecovSpikeMaxVmSlopeSTD_H100pA'
[ 52] 'RecovSpikeMinTimeMean_H100pA'
[ 53] 'RecovSpikeMinTimeMode_H100pA'
[ 54] 'RecovSpikeMinTimeSTD_H100pA'
[ 55] 'RecovSpikeRiseTimeMean_H100pA'
[ 56] 'RecovSpikeRiseTimeMode_H100pA'
[ 57] 'RecovSpikeRiseTimeSTD_H100pA'
[ 58] 'IniSpontISICV_0pA'
[ 59] 'IniSpontPotAvg_0pA'
[ 60] 'IniSpontSpikeRate_0pA'
[ 61] 'IniSpontSpikeRateISI_0pA'
[ 62] 'SpontSpikeAmplitudeMean_0pA'
[ 63] 'SpontSpikeAmplitudeMode_0pA'
[ 64] 'SpontSpikeAmplitudeSTD_0pA'
[ 65] 'SpontSpikeBaseWidthMean_0pA'
[ 66] 'SpontSpikeBaseWidthMode_0pA'
[ 67] 'SpontSpikeBaseWidthSTD_0pA'
[ 68] 'SpontSpikeFallTimeMean_0pA'
[ 69] 'SpontSpikeFallTimeMode_0pA'
[ 70] 'SpontSpikeFallTimeSTD_0pA'
[ 71] 'SpontSpikeHalfWidthMean_0pA'
[ 72] 'SpontSpikeHalfWidthMode_0pA'
[ 73] 'SpontSpikeHalfWidthSTD_0pA'
[ 74] 'SpontSpikeInitVmBySlopeMean_0pA'
[ 75] 'SpontSpikeInitVmBySlopeMode_0pA'
[ 76] 'SpontSpikeInitVmBySlopeSTD_0pA'
[ 77] 'SpontSpikeInitVmMean_0pA'
[ 78] 'SpontSpikeInitVmMode_0pA'
[ 79] 'SpontSpikeInitVmSTD_0pA'
[ 80] 'SpontSpikeMaxAHPMean_0pA'
[ 81] 'SpontSpikeMaxAHPMode_0pA'
[ 82] 'SpontSpikeMaxAHPSTD_0pA'
[ 83] 'SpontSpikeMaxVmSlopeMean_0pA'
[ 84] 'SpontSpikeMaxVmSlopeMode_0pA'
[ 85] 'SpontSpikeMaxVmSlopeSTD_0pA'
[ 86] 'SpontSpikeMinTimeMean_0pA'
[ 87] 'SpontSpikeMinTimeMode_0pA'
[ 88] 'SpontSpikeMinTimeSTD_0pA'
[ 89] 'SpontSpikeRiseTimeMean_0pA'
[ 90] 'SpontSpikeRiseTimeMode_0pA'
[ 91] 'SpontSpikeRiseTimeSTD_0pA'
[ 92] 'PulseISICV_D40pA'
[ 93] 'PulseSFA_D40pA'
[ 94] 'PulseIni100msISICV_D40pA'
[ 95] 'PulseIni100msRest1SpikeRate_D40pA'
[ 96] 'PulseIni100msRest2SpikeRate_D40pA'
[ 97] 'PulseIni100msRest1SpikeRateISI_D40pA'
[ 98] 'PulseIni100msRest2SpikeRateISI_D40pA'
[ 99] 'PulseIni100msSpikeRate_D40pA'
[100] 'PulseIni100msSpikeRateISI_D40pA'
[101] 'PulsePotAvg_D40pA'
[102] 'PulseSpikeAmpDecayTau_D40pA'
[103] 'PulseSpikeAmpDecayDelta_D40pA'
[104] 'RecIniSpontPotRatio_D40pA'
[105] 'RecIniSpontRateRatio_D40pA'
[106] 'RecSpont1SpikeRate_D40pA'
[107] 'RecSpont2SpikeRate_D40pA'
[108] 'RecSpont1SpikeRateISI_D40pA'
[109] 'RecSpont2SpikeRateISI_D40pA'
[110] 'RecSpontFirstISI_D40pA'
[111] 'RecSpontFirstSpikeTime_D40pA'
[112] 'RecSpontISICV_D40pA'
[113] 'RecSpontPotAvg_D40pA'
[114] 'PulseSpikeAmplitudeMean_D40pA'
[115] 'PulseSpikeAmplitudeMode_D40pA'
[116] 'PulseSpikeAmplitudeSTD_D40pA'
[117] 'PulseSpikeBaseWidthMean_D40pA'
[118] 'PulseSpikeBaseWidthMode_D40pA'
[119] 'PulseSpikeBaseWidthSTD_D40pA'
[120] 'PulseSpikeFallTimeMean_D40pA'
[121] 'PulseSpikeFallTimeMode_D40pA'
[122] 'PulseSpikeFallTimeSTD_D40pA'
[123] 'PulseSpikeHalfWidthMean_D40pA'
[124] 'PulseSpikeHalfWidthMode_D40pA'
[125] 'PulseSpikeHalfWidthSTD_D40pA'
[126] 'PulseSpikeInitVmBySlopeMean_D40pA'
[127] 'PulseSpikeInitVmBySlopeMode_D40pA'
[128] 'PulseSpikeInitVmBySlopeSTD_D40pA'
[129] 'PulseSpikeInitVmMean_D40pA'
[130] 'PulseSpikeInitVmMode_D40pA'
[131] 'PulseSpikeInitVmSTD_D40pA'
[132] 'PulseSpikeMaxAHPMean_D40pA'
[133] 'PulseSpikeMaxAHPMode_D40pA'
[134] 'PulseSpikeMaxAHPSTD_D40pA'
[135] 'PulseSpikeMaxVmSlopeMean_D40pA'
[136] 'PulseSpikeMaxVmSlopeMode_D40pA'
[137] 'PulseSpikeMaxVmSlopeSTD_D40pA'
[138] 'PulseSpikeMinTimeMean_D40pA'
[139] 'PulseSpikeMinTimeMode_D40pA'
[140] 'PulseSpikeMinTimeSTD_D40pA'
[141] 'PulseSpikeRiseTimeMean_D40pA'
[142] 'PulseSpikeRiseTimeMode_D40pA'
[143] 'PulseSpikeRiseTimeSTD_D40pA'
[144] 'PulseISICV_D100pA'
[145] 'PulseSFA_D100pA'
[146] 'PulseIni100msISICV_D100pA'
[147] 'PulseIni100msRest1SpikeRate_D100pA'
[148] 'PulseIni100msRest2SpikeRate_D100pA'
[149] 'PulseIni100msRest1SpikeRateISI_D100pA'
[150] 'PulseIni100msRest2SpikeRateISI_D100pA'
[151] 'PulseIni100msSpikeRate_D100pA'
[152] 'PulseIni100msSpikeRateISI_D100pA'
[153] 'PulsePotAvg_D100pA'
[154] 'PulseSpikeAmpDecayTau_D100pA'
[155] 'PulseSpikeAmpDecayDelta_D100pA'
[156] 'RecSpont1SpikeRate_D100pA'
[157] 'RecSpont2SpikeRate_D100pA'
[158] 'RecSpont1SpikeRateISI_D100pA'
[159] 'RecSpont2SpikeRateISI_D100pA'
[160] 'RecSpontFirstISI_D100pA'
[161] 'RecSpontFirstSpikeTime_D100pA'
[162] 'RecSpontISICV_D100pA'
[163] 'RecSpontPotAvg_D100pA'
[164] 'PulseSpikeAmplitudeMean_D100pA'
[165] 'PulseSpikeAmplitudeMode_D100pA'
[166] 'PulseSpikeAmplitudeSTD_D100pA'
[167] 'PulseSpikeBaseWidthMean_D100pA'
[168] 'PulseSpikeBaseWidthMode_D100pA'
[169] 'PulseSpikeBaseWidthSTD_D100pA'
[170] 'PulseSpikeFallTimeMean_D100pA'
[171] 'PulseSpikeFallTimeMode_D100pA'
[172] 'PulseSpikeFallTimeSTD_D100pA'
[173] 'PulseSpikeHalfWidthMean_D100pA'
[174] 'PulseSpikeHalfWidthMode_D100pA'
[175] 'PulseSpikeHalfWidthSTD_D100pA'
[176] 'PulseSpikeInitVmBySlopeMean_D100pA'
[177] 'PulseSpikeInitVmBySlopeMode_D100pA'
[178] 'PulseSpikeInitVmBySlopeSTD_D100pA'
[179] 'PulseSpikeInitVmMean_D100pA'
[180] 'PulseSpikeInitVmMode_D100pA'
[181] 'PulseSpikeInitVmSTD_D100pA'
[182] 'PulseSpikeMaxAHPMean_D100pA'
[183] 'PulseSpikeMaxAHPMode_D100pA'
[184] 'PulseSpikeMaxAHPSTD_D100pA'
[185] 'PulseSpikeMaxVmSlopeMean_D100pA'
[186] 'PulseSpikeMaxVmSlopeMode_D100pA'
[187] 'PulseSpikeMaxVmSlopeSTD_D100pA'
[188] 'PulseSpikeMinTimeMean_D100pA'
[189] 'PulseSpikeMinTimeMode_D100pA'
[190] 'PulseSpikeMinTimeSTD_D100pA'
[191] 'PulseSpikeRiseTimeMean_D100pA'
[192] 'PulseSpikeRiseTimeMode_D100pA'
[193] 'PulseSpikeRiseTimeSTD_D100pA'
[194] 'RecovSpikeAmplitudeMean_D100pA'
[195] 'RecovSpikeAmplitudeMode_D100pA'
[196] 'RecovSpikeAmplitudeSTD_D100pA'
[197] 'RecovSpikeBaseWidthMean_D100pA'
[198] 'RecovSpikeBaseWidthMode_D100pA'
[199] 'RecovSpikeBaseWidthSTD_D100pA'
[200] 'RecovSpikeFallTimeMean_D100pA'
[201] 'RecovSpikeFallTimeMode_D100pA'
[202] 'RecovSpikeFallTimeSTD_D100pA'
[203] 'RecovSpikeHalfWidthMean_D100pA'
[204] 'RecovSpikeHalfWidthMode_D100pA'
[205] 'RecovSpikeHalfWidthSTD_D100pA'
[206] 'RecovSpikeInitVmBySlopeMean_D100pA'
[207] 'RecovSpikeInitVmBySlopeMode_D100pA'
[208] 'RecovSpikeInitVmBySlopeSTD_D100pA'
[209] 'RecovSpikeInitVmMean_D100pA'
[210] 'RecovSpikeInitVmMode_D100pA'
[211] 'RecovSpikeInitVmSTD_D100pA'
[212] 'RecovSpikeMaxAHPMean_D100pA'
[213] 'RecovSpikeMaxAHPMode_D100pA'
[214] 'RecovSpikeMaxAHPSTD_D100pA'
[215] 'RecovSpikeMaxVmSlopeMean_D100pA'
[216] 'RecovSpikeMaxVmSlopeMode_D100pA'
[217] 'RecovSpikeMaxVmSlopeSTD_D100pA'
[218] 'RecovSpikeMinTimeMean_D100pA'
[219] 'RecovSpikeMinTimeMode_D100pA'
[220] 'RecovSpikeMinTimeSTD_D100pA'
[221] 'RecovSpikeRiseTimeMean_D100pA'
[222] 'RecovSpikeRiseTimeMode_D100pA'
[223] 'RecovSpikeRiseTimeSTD_D100pA'
[224] 'PulseISICV_D200pA'
[225] 'PulseSFA_D200pA'
[226] 'PulseIni100msISICV_D200pA'
[227] 'PulseIni100msRest1SpikeRate_D200pA'
[228] 'PulseIni100msRest2SpikeRate_D200pA'
[229] 'PulseIni100msRest1SpikeRateISI_D200pA'
[230] 'PulseIni100msRest2SpikeRateISI_D200pA'
[231] 'PulseIni100msSpikeRate_D200pA'
[232] 'PulseIni100msSpikeRateISI_D200pA'
[233] 'PulsePotAvg_D200pA'
[234] 'PulseSpikeAmpDecayTau_D200pA'
[235] 'PulseSpikeAmpDecayDelta_D200pA'
[236] 'RecIniSpontPotRatio_D200pA'
[237] 'RecIniSpontRateRatio_D200pA'
[238] 'RecSpont1SpikeRate_D200pA'
[239] 'RecSpont2SpikeRate_D200pA'
[240] 'RecSpont1SpikeRateISI_D200pA'
[241] 'RecSpont2SpikeRateISI_D200pA'
[242] 'RecSpontFirstISI_D200pA'
[243] 'RecSpontFirstSpikeTime_D200pA'
[244] 'RecSpontISICV_D200pA'
[245] 'RecSpontPotAvg_D200pA'
[246] 'PulseSpikeAmplitudeMean_D200pA'
[247] 'PulseSpikeAmplitudeMode_D200pA'
[248] 'PulseSpikeAmplitudeSTD_D200pA'
[249] 'PulseSpikeBaseWidthMean_D200pA'
[250] 'PulseSpikeBaseWidthMode_D200pA'
[251] 'PulseSpikeBaseWidthSTD_D200pA'
[252] 'PulseSpikeFallTimeMean_D200pA'
[253] 'PulseSpikeFallTimeMode_D200pA'
[254] 'PulseSpikeFallTimeSTD_D200pA'
[255] 'PulseSpikeHalfWidthMean_D200pA'
[256] 'PulseSpikeHalfWidthMode_D200pA'
[257] 'PulseSpikeHalfWidthSTD_D200pA'
[258] 'PulseSpikeInitVmBySlopeMean_D200pA'
[259] 'PulseSpikeInitVmBySlopeMode_D200pA'
[260] 'PulseSpikeInitVmBySlopeSTD_D200pA'
[261] 'PulseSpikeInitVmMean_D200pA'
[262] 'PulseSpikeInitVmMode_D200pA'
[263] 'PulseSpikeInitVmSTD_D200pA'
[264] 'PulseSpikeMaxAHPMean_D200pA'
[265] 'PulseSpikeMaxAHPMode_D200pA'
[266] 'PulseSpikeMaxAHPSTD_D200pA'
[267] 'PulseSpikeMaxVmSlopeMean_D200pA'
[268] 'PulseSpikeMaxVmSlopeMode_D200pA'
[269] 'PulseSpikeMaxVmSlopeSTD_D200pA'
[270] 'PulseSpikeMinTimeMean_D200pA'
[271] 'PulseSpikeMinTimeMode_D200pA'
[272] 'PulseSpikeMinTimeSTD_D200pA'
[273] 'PulseSpikeRiseTimeMean_D200pA'
[274] 'PulseSpikeRiseTimeMode_D200pA'
[275] 'PulseSpikeRiseTimeSTD_D200pA'
[276] 'PulsePotSagDivMin_H100pA'
[277] 'InputResGOhm_HpA'
[278] 'InputCappF_HpA'
[279] 'IniRecISIRatio_H100pA'
[280] 'PulseSFARatio_D100pA'
[281] 'RecIniSpontRateRatio_H100pA'
[282] 'RecIniSpontRateRatio_D100pA'
[283] 'PulseSpontAmpRatio_D40pA'
[284] 'PulseSpontAmpRatio_D100pA'
[285] 'PulseSpontAmpRatio_D200pA'
[286] 'RecIniSpontPotRatio_H100pA'
[287] 'RecIniSpontPotRatio_D100pA'
[288] 'RowIndex'
Row names:
'mean'
'SE'
'n'
Optional properties of tests_db:
ans =
0x0 struct array with no fields.
>> plotFigure(plot_bars(a_stats_db(:, {'KCNQ', 'PulseISICV_D200pA'}, :), '', struct('pageVariable', 'KCNQ')));
>> plotFigure(plot_bars(a_stats_db(:, {'KCNQ', 'PulseISICV_D200pA'}, :), '', struct('pageVariable', 'KCNQ', 'quiet', 1)));
>> t_trinity_NaP_2_CaHVA = trace('data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin', 1e-4, 1e-3, 'Trinity, NaP=2 CaHVA=5', struct('trace_time_start', 10000, 'scale_y', 1e3))
readgenesis: could not open file 'data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin'
{??? Error using ==> readgenesis
readgenesis: error... see output above
Error in ==> trace.trace at 181
data = readgenesis(data_src, channel);
}
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> ls
brute_20.save data_20_trial_0_pAcip_trinity.bin
brute_21.save data_21_trial_0_pAcip_trinity_NaP_2.bin
brute_22.save data_22_trial_0_pAcip_trinity_NaP_2_KCNQ_4_5.bin
brute_23.save data_23_trial_0_pAcip.bin
brute_24.save data_24_trial_0_pAcip_trinity_NaF_700.bin
brute_25.save data_25_trial_0_pAcip_Kv4_640.bin
brute_26.save data_26_trial_0_pAcip_NaP_2_Kv4_620.bin
brute_27.save data_27_trial_0_pAcip_charles.bin
brute_28.save data_28_trial_0_pAcip_trinity_NaP_2_CaHVA.bin
>> t_trinity_NaP_2_CaHVA = trace('data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin', 1e-4, 1e-3, 'Trinity, NaP=2 CaHVA=5', struct('trace_time_start', 10000, 'scale_y', 1e3))
readgenesis: data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 CaHVA=5
ans =
data: [10001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 CaHVA=5'
props: [1x1 struct]
>> plot(t_trinity_NaP_2_CaHVA)
ans =
8
>> prof_trinity_NaP_2_CaHVA_5 = getProfileAllSpikes(t_trinity_NaP_2_CaHVA_5)
{??? Undefined function or variable 't_trinity_NaP_2_CaHVA_5'.
}
>> prof_trinity_NaP_2_CaHVA_5 = getProfileAllSpikes(t_trinity_NaP_2_CaHVA)
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2 CaHVA=5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 CaHVA=5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 CaHVA=5'
props: [0x0 struct]
ISICV: 0.0024
SpikeRate: 5
SpikeRateISI: 4.6318
avg: -70.0740
max: 39.2852
min: -82.1495
SpikeAmplitudeMean: 91.0042
SpikeAmplitudeMode: 90.8984
SpikeAmplitudeSTD: 0.1367
SpikeBaseWidthMean: 2.0760
SpikeBaseWidthMode: 2.0494
SpikeBaseWidthSTD: 0.0513
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.6400
SpikeFallTimeMode: 1.6005
SpikeFallTimeSTD: 0.0548
SpikeFixVWidthMean: 1.1465
SpikeFixVWidthMode: 1.1420
SpikeFixVWidthSTD: 0.0057
SpikeHalfVmMean: -6.2111
SpikeHalfVmMode: -6.3504
SpikeHalfVmSTD: 0.0820
SpikeHalfWidthMean: 1.0848
SpikeHalfWidthMode: 1.0794
SpikeHalfWidthSTD: 0.0057
SpikeInitTimeMean: 6.6800
SpikeInitTimeMode: 6.6998
SpikeInitTimeSTD: 0.0274
SpikeInitVmBySlopeMean: -51.7132
SpikeInitVmBySlopeMode: -51.6643
SpikeInitVmBySlopeSTD: 0.1500
SpikeInitVmMean: -51.7132
SpikeInitVmMode: -51.6643
SpikeInitVmSTD: 0.1500
SpikeMaxAHPMean: 30.4354
SpikeMaxAHPMode: 30.1778
SpikeMaxAHPSTD: 0.1499
SpikeMaxVmSlopeMean: 373.7007
SpikeMaxVmSlopeMode: 365.7515
SpikeMaxVmSlopeSTD: 12.1367
SpikeMinTimeMean: 28.6000
SpikeMinTimeMode: 28.6000
SpikeMinTimeSTD: 0
SpikeMinVmMean: -82.1486
SpikeMinVmMode: -82.1494
SpikeMinVmSTD: 7.9598e-04
SpikePeakVmMean: 39.2910
SpikePeakVmMode: 39.2851
SpikePeakVmSTD: 0.0164
SpikeRiseTimeMean: 0.4360
SpikeRiseTimeMode: 0.4202
SpikeRiseTimeSTD: 0.0152
Spikes: 5
>> t_clarissa = trace('data_29_trial_0_pAcip_clarissa.bin', 1e-4, 1e-3, 'Clarissa', struct('trace_time_start', 10000, 'scale_y', 1e3))
readgenesis: data_29_trial_0_pAcip_clarissa.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Clarissa
ans =
data: [10001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Clarissa'
props: [1x1 struct]
>> t_clarissa = trace('data_29_trial_0_pAcip_clarissa.bin', 1e-4, 1e-3, 'Clarissa', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_29_trial_0_pAcip_clarissa.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Clarissa
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Clarissa'
props: [1x1 struct]
>> t_trinity_NaP_2_CaHVA = trace('data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin', 1e-4, 1e-3, 'Trinity, NaP=2 CaHVA=5', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 CaHVA=5
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 CaHVA=5'
props: [1x1 struct]
>> prof_trinity_NaP_2_CaHVA_5 = getProfileAllSpikes(t_trinity_NaP_2_CaHVA)
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Trinity, NaP=2 CaHVA=5 ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2 CaHVA=5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 CaHVA=5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 CaHVA=5'
props: [0x0 struct]
ISICV: 0.0054
SpikeRate: 4.7368
SpikeRateISI: 4.6522
avg: -70.1104
max: 39.2979
min: -82.1495
SpikeAmplitudeMean: 91.2374
SpikeAmplitudeMode: 90.9563
SpikeAmplitudeSTD: 0.6403
SpikeBaseWidthMean: 2.1192
SpikeBaseWidthMode: 2.0516
SpikeBaseWidthSTD: 0.1044
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.6556
SpikeFallTimeMode: 1.6995
SpikeFallTimeSTD: 0.0527
SpikeFixVWidthMean: 1.1471
SpikeFixVWidthMode: 1.1420
SpikeFixVWidthSTD: 0.0046
SpikeHalfVmMean: -6.3447
SpikeHalfVmMode: -6.1926
SpikeHalfVmSTD: 0.3509
SpikeHalfWidthMean: 1.0880
SpikeHalfWidthMode: 1.0795
SpikeHalfWidthSTD: 0.0065
SpikeInitTimeMean: 6.6363
SpikeInitTimeMode: 6.6986
SpikeInitTimeSTD: 0.0888
SpikeInitVmBySlopeMean: -51.8194
SpikeInitVmBySlopeMode: -52.3132
SpikeInitVmBySlopeSTD: 0.4048
SpikeInitVmMean: -51.9634
SpikeInitVmMode: -51.6594
SpikeInitVmSTD: 0.6708
SpikeMaxAHPMean: 30.1842
SpikeMaxAHPMode: 30.4867
SpikeMaxAHPSTD: 0.6711
SpikeMaxVmSlopeMean: 381.2720
SpikeMaxVmSlopeMode: 354.8945
SpikeMaxVmSlopeSTD: 19.2762
SpikeMinTimeMean: 28.5889
SpikeMinTimeMode: 28.5995
SpikeMinTimeSTD: 0.0333
SpikeMinVmMean: -82.1476
SpikeMinVmMode: -82.1494
SpikeMinVmSTD: 0.0015
SpikePeakVmMean: 39.2740
SpikePeakVmMode: 39.2847
SpikePeakVmSTD: 0.0362
SpikeRiseTimeMean: 0.4637
SpikeRiseTimeMode: 0.4198
SpikeRiseTimeSTD: 0.0690
Spikes: 9
>> getProfileAllSpikes(t_clarissa)
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#9): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#11): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#14): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#14)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#15): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#15)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#16): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#16)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#17): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#18): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#18)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Clarissa
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Clarissa
ans =
results: [1x1 struct]
id: 'Clarissa'
props: [0x0 struct]
ISICV: 0.0032
SpikeRate: 9.4737
SpikeRateISI: 9.0768
avg: -65.3672
max: 43.4252
min: -69.9721
SpikeAmplitudeMean: 95.4980
SpikeAmplitudeMode: 95.7206
SpikeAmplitudeSTD: 0.7868
SpikeBaseWidthMean: 2.3524
SpikeBaseWidthMode: 2.3216
SpikeBaseWidthSTD: 0.1187
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.8000
SpikeFallTimeMode: 1.8955
SpikeFallTimeSTD: 0.4284
SpikeFixVWidthMean: 1.1858
SpikeFixVWidthMode: 1.1898
SpikeFixVWidthSTD: 0.0053
SpikeHalfVmMean: -4.8753
SpikeHalfVmMode: -4.7771
SpikeHalfVmSTD: 0.3463
SpikeHalfWidthMean: 1.1053
SpikeHalfWidthMode: 1.1083
SpikeHalfWidthSTD: 0.0065
SpikeInitTimeMean: 6.6510
SpikeInitTimeMode: 6.6991
SpikeInitTimeSTD: 0.0574
SpikeInitVmBySlopeMean: -52.4373
SpikeInitVmBySlopeMode: -52.9640
SpikeInitVmBySlopeSTD: 0.3988
SpikeInitVmMean: -52.6243
SpikeInitVmMode: -54.0840
SpikeInitVmSTD: 0.7167
SpikeMaxAHPMean: 17.2246
SpikeMaxAHPMode: 17.5380
SpikeMaxAHPSTD: 0.8027
SpikeMaxVmSlopeMean: 422.2717
SpikeMaxVmSlopeMode: 434.3384
SpikeMaxVmSlopeSTD: 23.7038
SpikeMinTimeMean: 31.3556
SpikeMinTimeMode: 32.3525
SpikeMinTimeSTD: 4.2101
SpikeMinVmMean: -69.8489
SpikeMinVmMode: -69.9618
SpikeMinVmSTD: 0.4799
SpikePeakVmMean: 42.8737
SpikePeakVmMode: 42.7232
SpikePeakVmSTD: 0.1890
SpikeRiseTimeMean: 0.4524
SpikeRiseTimeMode: 0.4202
SpikeRiseTimeSTD: 0.0638
Spikes: 18
>> dbsize(gp_db_red(gp_db_red(:, 'PulsePotAvgD100pA') > -70 & gp_db_red(:, 'PulsePotAvgD100pA') < -60, :))
{??? Error using ==> tests_db.tests2idx at 76
Field 'PulsePotAvgD100pA' not found in db
Error in ==> tests_db.tests2cols at 34
cols = tests2idx(db, 2, tests);
Error in ==> params_tests_db.onlyRowsTests at 38
cols = tests2cols(obj, varargin{2});
Error in ==> params_tests_db.subsref at 33
b = onlyRowsTests(a, index.subs{:});
}
>> dbsize(gp_db_red(gp_db_red(:, 'PulsePotAvg_D100pA') > -70 & gp_db_red(:, 'PulsePotAvg_D100pA') < -60, :))
ans =
5181 297
>> .74*1.10
ans =
0.8140
>> dbsize(gp_db_red(gp_db_red(:, 'PulseISICV_D200pA') > 0.1 & gp_db_red(:, 'PulseISICV_D200pA') < .3, :))
ans =
1733 297
>> t_clair = trace('data_53_trial_0_pAcip_claire.bin', 1e-4, 1e-3, 'Clarissa', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_53_trial_0_pAcip_claire.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Clarissa
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Clarissa'
props: [1x1 struct]
>> plot(t_clair)
ans =
9
>> getProfileAllSpikes(t_clair)
{Warning: Error in Clarissa ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#11): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Clarissa ( spike#13): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Clarissa ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Clarissa
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Clarissa
ans =
results: [1x1 struct]
id: 'Clarissa'
props: [0x0 struct]
ISICV: 0.0040
SpikeRate: 6.8421
SpikeRateISI: 6.5459
avg: -66.2530
max: 43.1611
min: -71.5199
SpikeAmplitudeMean: 95.4414
SpikeAmplitudeMode: 95.4219
SpikeAmplitudeSTD: 0.6497
SpikeBaseWidthMean: 2.1539
SpikeBaseWidthMode: 2.0991
SpikeBaseWidthSTD: 0.0917
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.6000
SpikeFallTimeMode: 1.7065
SpikeFallTimeSTD: 0.4528
SpikeFixVWidthMean: 1.1351
SpikeFixVWidthMode: 1.1301
SpikeFixVWidthSTD: 0.0047
SpikeHalfVmMean: -4.7884
SpikeHalfVmMode: -5.4587
SpikeHalfVmSTD: 0.2986
SpikeHalfWidthMean: 1.0565
SpikeHalfWidthMode: 1.0512
SpikeHalfWidthSTD: 0.0054
SpikeInitTimeMean: 6.6846
SpikeInitTimeMode: 6.7009
SpikeInitTimeSTD: 0.0468
SpikeInitVmBySlopeMean: -52.3703
SpikeInitVmBySlopeMode: -52.9342
SpikeInitVmBySlopeSTD: 0.3796
SpikeInitVmMean: -52.5091
SpikeInitVmMode: -52.4779
SpikeInitVmSTD: 0.6168
SpikeMaxAHPMean: 18.0507
SpikeMaxAHPMode: 19.1733
SpikeMaxAHPSTD: 3.3541
SpikeMaxVmSlopeMean: 419.9220
SpikeMaxVmSlopeMode: 424.0457
SpikeMaxVmSlopeSTD: 23.9396
SpikeMinTimeMean: 32.7462
SpikeMinTimeMode: 34.5735
SpikeMinTimeSTD: 7.0147
SpikeMinVmMean: -70.5597
SpikeMinVmMode: -71.4576
SpikeMinVmSTD: 3.4453
SpikePeakVmMean: 42.9323
SpikePeakVmMode: 42.7848
SpikePeakVmSTD: 0.0948
SpikeRiseTimeMean: 0.4231
SpikeRiseTimeMode: 0.4004
SpikeRiseTimeSTD: 0.0537
Spikes: 13
>> t_trinity_NaP_2_SK_256 = trace('data_30_trial_0_pAcip_trinity_NAP_2_SK_256.bin', 1e-4, 1e-3, 'Trinity, NaP=2 CaHVA=5', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_30_trial_0_pAcip_trinity_NAP_2_SK_256.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Trinity, NaP=2 CaHVA=5
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Trinity, NaP=2 CaHVA=5'
props: [1x1 struct]
>> getProfileAllSpikes(t_trinity_NaP_2_SK_256)
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Trinity, NaP=2 CaHVA=5 ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Trinity, NaP=2 CaHVA=5
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Trinity, NaP=2 CaHVA=5
ans =
results: [1x1 struct]
id: 'Trinity, NaP=2 CaHVA=5'
props: [0x0 struct]
ISICV: 7.7781e-04
SpikeRate: 4.7368
SpikeRateISI: 4.6160
avg: -76.5772
max: 40.1121
min: -88.9876
SpikeAmplitudeMean: 96.0065
SpikeAmplitudeMode: 95.9929
SpikeAmplitudeSTD: 0.0893
SpikeBaseWidthMean: 1.7654
SpikeBaseWidthMode: 1.7207
SpikeBaseWidthSTD: 0.0486
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.2222
SpikeFallTimeMode: 1.2005
SpikeFallTimeSTD: 0.0441
SpikeFixVWidthMean: 0.9748
SpikeFixVWidthMode: 0.9681
SpikeFixVWidthSTD: 0.0068
SpikeHalfVmMean: -7.9938
SpikeHalfVmMode: -8.1378
SpikeHalfVmSTD: 0.0843
SpikeHalfWidthMean: 0.9514
SpikeHalfWidthMode: 0.9442
SpikeHalfWidthSTD: 0.0077
SpikeInitTimeMean: 6.5657
SpikeInitTimeMode: 6.6002
SpikeInitTimeSTD: 0.0329
SpikeInitVmBySlopeMean: -55.8510
SpikeInitVmBySlopeMode: -56.0891
SpikeInitVmBySlopeSTD: 0.2286
SpikeInitVmMean: -55.9970
SpikeInitVmMode: -56.1293
SpikeInitVmSTD: 0.1090
SpikeMaxAHPMean: 32.9891
SpikeMaxAHPMode: 32.8565
SpikeMaxAHPSTD: 0.1094
SpikeMaxVmSlopeMean: 399.1392
SpikeMaxVmSlopeMode: 376.2801
SpikeMaxVmSlopeSTD: 14.5011
SpikeMinTimeMean: 17.9444
SpikeMinTimeMode: 17.9005
SpikeMinTimeSTD: 0.0527
SpikeMinVmMean: -88.9861
SpikeMinVmMode: -88.9874
SpikeMinVmSTD: 5.2878e-04
SpikePeakVmMean: 40.0095
SpikePeakVmMode: 39.8540
SpikePeakVmSTD: 0.0795
SpikeRiseTimeMean: 0.5432
SpikeRiseTimeMode: 0.5202
SpikeRiseTimeSTD: 0.0180
Spikes: 9
>> t_kunal = trace('data_64_trial_0_pAcip_kunal.bin', 1e-4, 1e-3, 'Kunal Patel', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_64_trial_0_pAcip_kunal.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Kunal Patel
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Kunal Patel'
props: [1x1 struct]
>> getProfileAllSpikes(t_kunal)
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#4): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#6): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#7): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#12): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#13): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Kunal Patel ( spike#14): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Kunal Patel ( spike#14)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Kunal Patel
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Kunal Patel
ans =
results: [1x1 struct]
id: 'Kunal Patel'
props: [0x0 struct]
ISICV: 0.0011
SpikeRate: 7.3684
SpikeRateISI: 7.3256
avg: -69.5585
max: 37.5782
min: -76.4790
SpikeAmplitudeMean: 90.2197
SpikeAmplitudeMode: 89.2593
SpikeAmplitudeSTD: 0.7787
SpikeBaseWidthMean: 1.3861
SpikeBaseWidthMode: 1.3590
SpikeBaseWidthSTD: 0.0794
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.0083
SpikeFallTimeMode: 1.0005
SpikeFallTimeSTD: 0.0289
SpikeFixVWidthMean: 0.7676
SpikeFixVWidthMode: 0.7634
SpikeFixVWidthSTD: 0.0046
SpikeHalfVmMean: -7.5209
SpikeHalfVmMode: -7.5195
SpikeHalfVmSTD: 0.4298
SpikeHalfWidthMean: 0.7403
SpikeHalfWidthMode: 0.7421
SpikeHalfWidthSTD: 0.0039
SpikeInitTimeMean: 6.7141
SpikeInitTimeMode: 6.7987
SpikeInitTimeSTD: 0.0969
SpikeInitVmBySlopeMean: -52.3014
SpikeInitVmBySlopeMode: -52.7951
SpikeInitVmBySlopeSTD: 0.4105
SpikeInitVmMean: -52.5616
SpikeInitVmMode: -53.8069
SpikeInitVmSTD: 0.7876
SpikeMaxAHPMean: 23.7872
SpikeMaxAHPMode: 22.6506
SpikeMaxAHPSTD: 0.7929
SpikeMaxVmSlopeMean: 400.9014
SpikeMaxVmSlopeMode: 421.5749
SpikeMaxVmSlopeSTD: 19.7654
SpikeMinTimeMean: 28.9750
SpikeMinTimeMode: 28.9995
SpikeMinTimeSTD: 0.0452
SpikeMinVmMean: -76.4590
SpikeMinVmMode: -76.4587
SpikeMinVmSTD: 0.0065
SpikePeakVmMean: 37.6581
SpikePeakVmMode: 37.5128
SpikePeakVmSTD: 0.2479
SpikeRiseTimeMean: 0.3674
SpikeRiseTimeMode: 0.3590
SpikeRiseTimeSTD: 0.0832
Spikes: 14
>> who
Your variables are:
a_plot t_NaP_2
a_stats_db t_NaP_2_KCNQ_4_5
ans t_abdul
dat t_charles
gp_db_red t_clair
invar_db t_clarissa
prof_abdul t_kunal
prof_charles t_trinity_NaF_700
prof_trinity t_trinity_NaP_2_CaHVA
prof_trinity_NaF_700 t_trinity_NaP_2_Kv4_620
prof_trinity_NaP_2 t_trinity_NaP_2_Kv4_640
prof_trinity_NaP_2_CaHVA_5 t_trinity_NaP_2_SK_256
prof_trinity_NaP_2_KCNQ_4_5
t
>> displayRows(invar_db(:, {1:11, 'KCNQ', 'IniSpontSpikeRate_0pA'}, 1876))
{??? Error using ==> cat
CAT arguments dimensions are not consistent.
Error in ==> tests_db.displayRows at 45
s = cat(2, col_names, num2cell(db.data(rows, :, pages))');
}
>> displayRows(invar_db(:, {'KCNQ', 'IniSpontSpikeRate_0pA'}, 1876))
ans =
'KCNQ' [ 0.0800] [ 0.4000] [ 2] [10]
[1x21 char] [13.0013] [12.0012] [7.0007] [ 0]
>> invar_db
tests_3D_db, Invariant values from sim db gpsc0503 mult CIP
tests_db, Invariant values from sim db gpsc0503 mult CIP
4 rows in database with 288 columns, and 2916 pages.
Column names:
[ 1] 'KCNQ'
[ 2] 'IniSpontSpikeRateISI_H100pA'
[ 3] 'PulseISICV_H100pA'
[ 4] 'PulseSFA_H100pA'
[ 5] 'PulseIni100msISICV_H100pA'
[ 6] 'PulseIni100msRest1SpikeRate_H100pA'
[ 7] 'PulseIni100msRest2SpikeRate_H100pA'
[ 8] 'PulseIni100msRest1SpikeRateISI_H100pA'
[ 9] 'PulseIni100msRest2SpikeRateISI_H100pA'
[ 10] 'PulseIni100msSpikeRate_H100pA'
[ 11] 'PulseIni100msSpikeRateISI_H100pA'
[ 12] 'PulsePotAvg_H100pA'
[ 13] 'PulseSpikeAmpDecayTau_H100pA'
[ 14] 'PulseSpikeAmpDecayDelta_H100pA'
[ 15] 'PulseSpontAmpRatio_H100pA'
[ 16] 'PulsePotMin_H100pA'
[ 17] 'PulsePotMinTime_H100pA'
[ 18] 'PulsePotSag_H100pA'
[ 19] 'PulsePotTau_H100pA'
[ 20] 'RecSpont1SpikeRate_H100pA'
[ 21] 'RecSpont2SpikeRate_H100pA'
[ 22] 'RecSpont1SpikeRateISI_H100pA'
[ 23] 'RecSpont2SpikeRateISI_H100pA'
[ 24] 'RecSpontFirstISI_H100pA'
[ 25] 'RecSpontFirstSpikeTime_H100pA'
[ 26] 'RecSpontISICV_H100pA'
[ 27] 'RecSpontPotAvg_H100pA'
[ 28] 'RecovSpikeAmplitudeMean_H100pA'
[ 29] 'RecovSpikeAmplitudeMode_H100pA'
[ 30] 'RecovSpikeAmplitudeSTD_H100pA'
[ 31] 'RecovSpikeBaseWidthMean_H100pA'
[ 32] 'RecovSpikeBaseWidthMode_H100pA'
[ 33] 'RecovSpikeBaseWidthSTD_H100pA'
[ 34] 'RecovSpikeFallTimeMean_H100pA'
[ 35] 'RecovSpikeFallTimeMode_H100pA'
[ 36] 'RecovSpikeFallTimeSTD_H100pA'
[ 37] 'RecovSpikeHalfWidthMean_H100pA'
[ 38] 'RecovSpikeHalfWidthMode_H100pA'
[ 39] 'RecovSpikeHalfWidthSTD_H100pA'
[ 40] 'RecovSpikeInitVmBySlopeMean_H100pA'
[ 41] 'RecovSpikeInitVmBySlopeMode_H100pA'
[ 42] 'RecovSpikeInitVmBySlopeSTD_H100pA'
[ 43] 'RecovSpikeInitVmMean_H100pA'
[ 44] 'RecovSpikeInitVmMode_H100pA'
[ 45] 'RecovSpikeInitVmSTD_H100pA'
[ 46] 'RecovSpikeMaxAHPMean_H100pA'
[ 47] 'RecovSpikeMaxAHPMode_H100pA'
[ 48] 'RecovSpikeMaxAHPSTD_H100pA'
[ 49] 'RecovSpikeMaxVmSlopeMean_H100pA'
[ 50] 'RecovSpikeMaxVmSlopeMode_H100pA'
[ 51] 'RecovSpikeMaxVmSlopeSTD_H100pA'
[ 52] 'RecovSpikeMinTimeMean_H100pA'
[ 53] 'RecovSpikeMinTimeMode_H100pA'
[ 54] 'RecovSpikeMinTimeSTD_H100pA'
[ 55] 'RecovSpikeRiseTimeMean_H100pA'
[ 56] 'RecovSpikeRiseTimeMode_H100pA'
[ 57] 'RecovSpikeRiseTimeSTD_H100pA'
[ 58] 'IniSpontISICV_0pA'
[ 59] 'IniSpontPotAvg_0pA'
[ 60] 'IniSpontSpikeRate_0pA'
[ 61] 'IniSpontSpikeRateISI_0pA'
[ 62] 'SpontSpikeAmplitudeMean_0pA'
[ 63] 'SpontSpikeAmplitudeMode_0pA'
[ 64] 'SpontSpikeAmplitudeSTD_0pA'
[ 65] 'SpontSpikeBaseWidthMean_0pA'
[ 66] 'SpontSpikeBaseWidthMode_0pA'
[ 67] 'SpontSpikeBaseWidthSTD_0pA'
[ 68] 'SpontSpikeFallTimeMean_0pA'
[ 69] 'SpontSpikeFallTimeMode_0pA'
[ 70] 'SpontSpikeFallTimeSTD_0pA'
[ 71] 'SpontSpikeHalfWidthMean_0pA'
[ 72] 'SpontSpikeHalfWidthMode_0pA'
[ 73] 'SpontSpikeHalfWidthSTD_0pA'
[ 74] 'SpontSpikeInitVmBySlopeMean_0pA'
[ 75] 'SpontSpikeInitVmBySlopeMode_0pA'
[ 76] 'SpontSpikeInitVmBySlopeSTD_0pA'
[ 77] 'SpontSpikeInitVmMean_0pA'
[ 78] 'SpontSpikeInitVmMode_0pA'
[ 79] 'SpontSpikeInitVmSTD_0pA'
[ 80] 'SpontSpikeMaxAHPMean_0pA'
[ 81] 'SpontSpikeMaxAHPMode_0pA'
[ 82] 'SpontSpikeMaxAHPSTD_0pA'
[ 83] 'SpontSpikeMaxVmSlopeMean_0pA'
[ 84] 'SpontSpikeMaxVmSlopeMode_0pA'
[ 85] 'SpontSpikeMaxVmSlopeSTD_0pA'
[ 86] 'SpontSpikeMinTimeMean_0pA'
[ 87] 'SpontSpikeMinTimeMode_0pA'
[ 88] 'SpontSpikeMinTimeSTD_0pA'
[ 89] 'SpontSpikeRiseTimeMean_0pA'
[ 90] 'SpontSpikeRiseTimeMode_0pA'
[ 91] 'SpontSpikeRiseTimeSTD_0pA'
[ 92] 'PulseISICV_D40pA'
[ 93] 'PulseSFA_D40pA'
[ 94] 'PulseIni100msISICV_D40pA'
[ 95] 'PulseIni100msRest1SpikeRate_D40pA'
[ 96] 'PulseIni100msRest2SpikeRate_D40pA'
[ 97] 'PulseIni100msRest1SpikeRateISI_D40pA'
[ 98] 'PulseIni100msRest2SpikeRateISI_D40pA'
[ 99] 'PulseIni100msSpikeRate_D40pA'
[100] 'PulseIni100msSpikeRateISI_D40pA'
[101] 'PulsePotAvg_D40pA'
[102] 'PulseSpikeAmpDecayTau_D40pA'
[103] 'PulseSpikeAmpDecayDelta_D40pA'
[104] 'RecIniSpontPotRatio_D40pA'
[105] 'RecIniSpontRateRatio_D40pA'
[106] 'RecSpont1SpikeRate_D40pA'
[107] 'RecSpont2SpikeRate_D40pA'
[108] 'RecSpont1SpikeRateISI_D40pA'
[109] 'RecSpont2SpikeRateISI_D40pA'
[110] 'RecSpontFirstISI_D40pA'
[111] 'RecSpontFirstSpikeTime_D40pA'
[112] 'RecSpontISICV_D40pA'
[113] 'RecSpontPotAvg_D40pA'
[114] 'PulseSpikeAmplitudeMean_D40pA'
[115] 'PulseSpikeAmplitudeMode_D40pA'
[116] 'PulseSpikeAmplitudeSTD_D40pA'
[117] 'PulseSpikeBaseWidthMean_D40pA'
[118] 'PulseSpikeBaseWidthMode_D40pA'
[119] 'PulseSpikeBaseWidthSTD_D40pA'
[120] 'PulseSpikeFallTimeMean_D40pA'
[121] 'PulseSpikeFallTimeMode_D40pA'
[122] 'PulseSpikeFallTimeSTD_D40pA'
[123] 'PulseSpikeHalfWidthMean_D40pA'
[124] 'PulseSpikeHalfWidthMode_D40pA'
[125] 'PulseSpikeHalfWidthSTD_D40pA'
[126] 'PulseSpikeInitVmBySlopeMean_D40pA'
[127] 'PulseSpikeInitVmBySlopeMode_D40pA'
[128] 'PulseSpikeInitVmBySlopeSTD_D40pA'
[129] 'PulseSpikeInitVmMean_D40pA'
[130] 'PulseSpikeInitVmMode_D40pA'
[131] 'PulseSpikeInitVmSTD_D40pA'
[132] 'PulseSpikeMaxAHPMean_D40pA'
[133] 'PulseSpikeMaxAHPMode_D40pA'
[134] 'PulseSpikeMaxAHPSTD_D40pA'
[135] 'PulseSpikeMaxVmSlopeMean_D40pA'
[136] 'PulseSpikeMaxVmSlopeMode_D40pA'
[137] 'PulseSpikeMaxVmSlopeSTD_D40pA'
[138] 'PulseSpikeMinTimeMean_D40pA'
[139] 'PulseSpikeMinTimeMode_D40pA'
[140] 'PulseSpikeMinTimeSTD_D40pA'
[141] 'PulseSpikeRiseTimeMean_D40pA'
[142] 'PulseSpikeRiseTimeMode_D40pA'
[143] 'PulseSpikeRiseTimeSTD_D40pA'
[144] 'PulseISICV_D100pA'
[145] 'PulseSFA_D100pA'
[146] 'PulseIni100msISICV_D100pA'
[147] 'PulseIni100msRest1SpikeRate_D100pA'
[148] 'PulseIni100msRest2SpikeRate_D100pA'
[149] 'PulseIni100msRest1SpikeRateISI_D100pA'
[150] 'PulseIni100msRest2SpikeRateISI_D100pA'
[151] 'PulseIni100msSpikeRate_D100pA'
[152] 'PulseIni100msSpikeRateISI_D100pA'
[153] 'PulsePotAvg_D100pA'
[154] 'PulseSpikeAmpDecayTau_D100pA'
[155] 'PulseSpikeAmpDecayDelta_D100pA'
[156] 'RecSpont1SpikeRate_D100pA'
[157] 'RecSpont2SpikeRate_D100pA'
[158] 'RecSpont1SpikeRateISI_D100pA'
[159] 'RecSpont2SpikeRateISI_D100pA'
[160] 'RecSpontFirstISI_D100pA'
[161] 'RecSpontFirstSpikeTime_D100pA'
[162] 'RecSpontISICV_D100pA'
[163] 'RecSpontPotAvg_D100pA'
[164] 'PulseSpikeAmplitudeMean_D100pA'
[165] 'PulseSpikeAmplitudeMode_D100pA'
[166] 'PulseSpikeAmplitudeSTD_D100pA'
[167] 'PulseSpikeBaseWidthMean_D100pA'
[168] 'PulseSpikeBaseWidthMode_D100pA'
[169] 'PulseSpikeBaseWidthSTD_D100pA'
[170] 'PulseSpikeFallTimeMean_D100pA'
[171] 'PulseSpikeFallTimeMode_D100pA'
[172] 'PulseSpikeFallTimeSTD_D100pA'
[173] 'PulseSpikeHalfWidthMean_D100pA'
[174] 'PulseSpikeHalfWidthMode_D100pA'
[175] 'PulseSpikeHalfWidthSTD_D100pA'
[176] 'PulseSpikeInitVmBySlopeMean_D100pA'
[177] 'PulseSpikeInitVmBySlopeMode_D100pA'
[178] 'PulseSpikeInitVmBySlopeSTD_D100pA'
[179] 'PulseSpikeInitVmMean_D100pA'
[180] 'PulseSpikeInitVmMode_D100pA'
[181] 'PulseSpikeInitVmSTD_D100pA'
[182] 'PulseSpikeMaxAHPMean_D100pA'
[183] 'PulseSpikeMaxAHPMode_D100pA'
[184] 'PulseSpikeMaxAHPSTD_D100pA'
[185] 'PulseSpikeMaxVmSlopeMean_D100pA'
[186] 'PulseSpikeMaxVmSlopeMode_D100pA'
[187] 'PulseSpikeMaxVmSlopeSTD_D100pA'
[188] 'PulseSpikeMinTimeMean_D100pA'
[189] 'PulseSpikeMinTimeMode_D100pA'
[190] 'PulseSpikeMinTimeSTD_D100pA'
[191] 'PulseSpikeRiseTimeMean_D100pA'
[192] 'PulseSpikeRiseTimeMode_D100pA'
[193] 'PulseSpikeRiseTimeSTD_D100pA'
[194] 'RecovSpikeAmplitudeMean_D100pA'
[195] 'RecovSpikeAmplitudeMode_D100pA'
[196] 'RecovSpikeAmplitudeSTD_D100pA'
[197] 'RecovSpikeBaseWidthMean_D100pA'
[198] 'RecovSpikeBaseWidthMode_D100pA'
[199] 'RecovSpikeBaseWidthSTD_D100pA'
[200] 'RecovSpikeFallTimeMean_D100pA'
[201] 'RecovSpikeFallTimeMode_D100pA'
[202] 'RecovSpikeFallTimeSTD_D100pA'
[203] 'RecovSpikeHalfWidthMean_D100pA'
[204] 'RecovSpikeHalfWidthMode_D100pA'
[205] 'RecovSpikeHalfWidthSTD_D100pA'
[206] 'RecovSpikeInitVmBySlopeMean_D100pA'
[207] 'RecovSpikeInitVmBySlopeMode_D100pA'
[208] 'RecovSpikeInitVmBySlopeSTD_D100pA'
[209] 'RecovSpikeInitVmMean_D100pA'
[210] 'RecovSpikeInitVmMode_D100pA'
[211] 'RecovSpikeInitVmSTD_D100pA'
[212] 'RecovSpikeMaxAHPMean_D100pA'
[213] 'RecovSpikeMaxAHPMode_D100pA'
[214] 'RecovSpikeMaxAHPSTD_D100pA'
[215] 'RecovSpikeMaxVmSlopeMean_D100pA'
[216] 'RecovSpikeMaxVmSlopeMode_D100pA'
[217] 'RecovSpikeMaxVmSlopeSTD_D100pA'
[218] 'RecovSpikeMinTimeMean_D100pA'
[219] 'RecovSpikeMinTimeMode_D100pA'
[220] 'RecovSpikeMinTimeSTD_D100pA'
[221] 'RecovSpikeRiseTimeMean_D100pA'
[222] 'RecovSpikeRiseTimeMode_D100pA'
[223] 'RecovSpikeRiseTimeSTD_D100pA'
[224] 'PulseISICV_D200pA'
[225] 'PulseSFA_D200pA'
[226] 'PulseIni100msISICV_D200pA'
[227] 'PulseIni100msRest1SpikeRate_D200pA'
[228] 'PulseIni100msRest2SpikeRate_D200pA'
[229] 'PulseIni100msRest1SpikeRateISI_D200pA'
[230] 'PulseIni100msRest2SpikeRateISI_D200pA'
[231] 'PulseIni100msSpikeRate_D200pA'
[232] 'PulseIni100msSpikeRateISI_D200pA'
[233] 'PulsePotAvg_D200pA'
[234] 'PulseSpikeAmpDecayTau_D200pA'
[235] 'PulseSpikeAmpDecayDelta_D200pA'
[236] 'RecIniSpontPotRatio_D200pA'
[237] 'RecIniSpontRateRatio_D200pA'
[238] 'RecSpont1SpikeRate_D200pA'
[239] 'RecSpont2SpikeRate_D200pA'
[240] 'RecSpont1SpikeRateISI_D200pA'
[241] 'RecSpont2SpikeRateISI_D200pA'
[242] 'RecSpontFirstISI_D200pA'
[243] 'RecSpontFirstSpikeTime_D200pA'
[244] 'RecSpontISICV_D200pA'
[245] 'RecSpontPotAvg_D200pA'
[246] 'PulseSpikeAmplitudeMean_D200pA'
[247] 'PulseSpikeAmplitudeMode_D200pA'
[248] 'PulseSpikeAmplitudeSTD_D200pA'
[249] 'PulseSpikeBaseWidthMean_D200pA'
[250] 'PulseSpikeBaseWidthMode_D200pA'
[251] 'PulseSpikeBaseWidthSTD_D200pA'
[252] 'PulseSpikeFallTimeMean_D200pA'
[253] 'PulseSpikeFallTimeMode_D200pA'
[254] 'PulseSpikeFallTimeSTD_D200pA'
[255] 'PulseSpikeHalfWidthMean_D200pA'
[256] 'PulseSpikeHalfWidthMode_D200pA'
[257] 'PulseSpikeHalfWidthSTD_D200pA'
[258] 'PulseSpikeInitVmBySlopeMean_D200pA'
[259] 'PulseSpikeInitVmBySlopeMode_D200pA'
[260] 'PulseSpikeInitVmBySlopeSTD_D200pA'
[261] 'PulseSpikeInitVmMean_D200pA'
[262] 'PulseSpikeInitVmMode_D200pA'
[263] 'PulseSpikeInitVmSTD_D200pA'
[264] 'PulseSpikeMaxAHPMean_D200pA'
[265] 'PulseSpikeMaxAHPMode_D200pA'
[266] 'PulseSpikeMaxAHPSTD_D200pA'
[267] 'PulseSpikeMaxVmSlopeMean_D200pA'
[268] 'PulseSpikeMaxVmSlopeMode_D200pA'
[269] 'PulseSpikeMaxVmSlopeSTD_D200pA'
[270] 'PulseSpikeMinTimeMean_D200pA'
[271] 'PulseSpikeMinTimeMode_D200pA'
[272] 'PulseSpikeMinTimeSTD_D200pA'
[273] 'PulseSpikeRiseTimeMean_D200pA'
[274] 'PulseSpikeRiseTimeMode_D200pA'
[275] 'PulseSpikeRiseTimeSTD_D200pA'
[276] 'PulsePotSagDivMin_H100pA'
[277] 'InputResGOhm_HpA'
[278] 'InputCappF_HpA'
[279] 'IniRecISIRatio_H100pA'
[280] 'PulseSFARatio_D100pA'
[281] 'RecIniSpontRateRatio_H100pA'
[282] 'RecIniSpontRateRatio_D100pA'
[283] 'PulseSpontAmpRatio_D40pA'
[284] 'PulseSpontAmpRatio_D100pA'
[285] 'PulseSpontAmpRatio_D200pA'
[286] 'RecIniSpontPotRatio_H100pA'
[287] 'RecIniSpontPotRatio_D100pA'
[288] 'RowIndex'
Optional properties of tests_db:
ans =
invarName: 'KCNQ'
>> t_seth = trace('data_42_trial_0_pAcip_seth.bin', 1e-4, 1e-3, 'Seth Koenig', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_42_trial_0_pAcip_seth.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Seth Koenig
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Seth Koenig'
props: [1x1 struct]
>> getProfileAllSpikes(t_seth)
{Warning: Error in Seth Koenig ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#7): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#10): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#11): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#12): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#13): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#15)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Seth Koenig ( spike#16): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#16)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Seth Koenig ( spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Seth Koenig
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Seth Koenig
ans =
results: [1x1 struct]
id: 'Seth Koenig'
props: [0x0 struct]
ISICV: 0.0028
SpikeRate: 8.9474
SpikeRateISI: 8.9161
avg: -64.8449
max: 34.6661
min: -68.7646
SpikeAmplitudeMean: 85.8036
SpikeAmplitudeMode: 84.6903
SpikeAmplitudeSTD: 0.9487
SpikeBaseWidthMean: 1.4587
SpikeBaseWidthMode: 1.3591
SpikeBaseWidthSTD: 0.1165
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.0647
SpikeFallTimeMode: 1.0995
SpikeFallTimeSTD: 0.0493
SpikeFixVWidthMean: 0.7581
SpikeFixVWidthMode: 0.7556
SpikeFixVWidthSTD: 0.0039
SpikeHalfVmMean: -8.5803
SpikeHalfVmMode: -8.5289
SpikeHalfVmSTD: 0.3575
SpikeHalfWidthMean: 0.7421
SpikeHalfWidthMode: 0.7364
SpikeHalfWidthSTD: 0.0037
SpikeInitTimeMean: 6.6813
SpikeInitTimeMode: 6.6987
SpikeInitTimeSTD: 0.0995
SpikeInitVmBySlopeMean: -51.1483
SpikeInitVmBySlopeMode: -51.4504
SpikeInitVmBySlopeSTD: 0.3568
SpikeInitVmMean: -51.4821
SpikeInitVmMode: -52.7429
SpikeInitVmSTD: 0.8034
SpikeMaxAHPMean: 17.2345
SpikeMaxAHPMode: 16.0442
SpikeMaxAHPSTD: 0.7964
SpikeMaxVmSlopeMean: 374.7368
SpikeMaxVmSlopeMode: 387.3538
SpikeMaxVmSlopeSTD: 19.7352
SpikeMinTimeMean: 27.8882
SpikeMinTimeMode: 27.8980
SpikeMinTimeSTD: 0.1269
SpikeMinVmMean: -68.7167
SpikeMinVmMode: -68.7097
SpikeMinVmSTD: 0.0149
SpikePeakVmMean: 34.3214
SpikePeakVmMode: 34.3519
SpikePeakVmSTD: 0.2454
SpikeRiseTimeMean: 0.3940
SpikeRiseTimeMode: 0.3560
SpikeRiseTimeSTD: 0.0868
Spikes: 17
>> 95*.9
ans =
85.5000
>> 613.50/60
ans =
10.2250
>> 8.25 + (60+58)/80
ans =
9.7250
>> 30*8.25+60+58
ans =
365.5000
>> dbsize(gp_db_red(gp_db_red(:, 'PulseISICV_D200pA') >= 0 & gp_db_red(:, 'PulseISICV_D200pA') < .1, :))
ans =
5919 297
>> t_nichols = trace('data_43_trial_0_pAcip_nichols.bin', 1e-4, 1e-3, 'Mike Nichols', struct('trace_time_start', 1000, 'scale_y', 1e3))
readgenesis: data_43_trial_0_pAcip_nichols.bin, trace 1 of 1 (20000 points @ 10 kHz)
trace, id=Mike Nichols
ans =
data: [19001x1 double]
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Mike Nichols'
props: [1x1 struct]
>> plot(t_nichols)
ans =
10
>> getProfileAllSpikes(t_nichols)
{Warning: Error in Mike Nichols ( spike#1): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#1)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#2): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#2)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#3): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#3)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#5): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#5)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#6)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#7): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#7)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#8): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#8)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#9): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#10): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#10)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#11): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#12): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#12)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Error in Mike Nichols ( spike#13): Error using ==>
spike_shape.calcInitVmMaxCurvPhasePlane>findMax at 323
No local maxima found!}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 179
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: vPP curvature ignored, v' > 15 for Mike Nichols ( spike#13)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
trace_allspikes_profile, Mike Nichols
ans =
trace: [1x1 trace]
spikes: [1x1 spikes]
spikes_db: [1x1 spikes_db]
props: [1x1 struct]
results_profile: [1x1 results_profile]
results_profile, Mike Nichols
ans =
results: [1x1 struct]
id: 'Mike Nichols'
props: [0x0 struct]
ISICV: 0.0042
SpikeRate: 6.8421
SpikeRateISI: 6.6593
avg: -64.9553
max: 45.6806
min: -70.3503
SpikeAmplitudeMean: 97.1135
SpikeAmplitudeMode: 96.3998
SpikeAmplitudeSTD: 0.4738
SpikeBaseWidthMean: 2.1988
SpikeBaseWidthMode: 2.1995
SpikeBaseWidthSTD: 0.0481
SpikeDAHPMagMean: NaN
SpikeDAHPMagMode: 0
SpikeDAHPMagSTD: NaN
SpikeFallTimeMean: 1.8231
SpikeFallTimeMode: 1.8005
SpikeFallTimeSTD: 0.0439
SpikeFixVWidthMean: 1.2380
SpikeFixVWidthMode: 1.2268
SpikeFixVWidthSTD: 0.0063
SpikeHalfVmMean: -3.2116
SpikeHalfVmMode: -3.4539
SpikeHalfVmSTD: 0.1729
SpikeHalfWidthMean: 1.1347
SpikeHalfWidthMode: 1.1274
SpikeHalfWidthSTD: 0.0048
SpikeInitTimeMean: 6.7288
SpikeInitTimeMode: 6.7005
SpikeInitTimeSTD: 0.0431
SpikeInitVmBySlopeMean: -51.7683
SpikeInitVmBySlopeMode: -51.5622
SpikeInitVmBySlopeSTD: 0.3903
SpikeInitVmMean: -51.7683
SpikeInitVmMode: -51.5622
SpikeInitVmSTD: 0.3903
SpikeMaxAHPMean: 18.5743
SpikeMaxAHPMode: 18.7787
SpikeMaxAHPSTD: 0.3898
SpikeMaxVmSlopeMean: 432.0950
SpikeMaxVmSlopeMode: 393.5029
SpikeMaxVmSlopeSTD: 26.6591
SpikeMinTimeMean: 31.9462
SpikeMinTimeMode: 31.9005
SpikeMinTimeSTD: 0.0776
SpikeMinVmMean: -70.3426
SpikeMinVmMode: -70.3501
SpikeMinVmSTD: 0.0035
SpikePeakVmMean: 45.3452
SpikePeakVmMode: 45.3523
SpikePeakVmSTD: 0.1402
SpikeRiseTimeMean: 0.3758
SpikeRiseTimeMode: 0.3997
SpikeRiseTimeSTD: 0.0225
Spikes: 13
>> dbsize(gp_db_red(gp_db_red(:, 'PulsePotAvg_D100pA') > -60 & gp_db_red(:, 'PulsePotAvg_D100pA') < 0, :))
ans =
4838 297
>> dbsize(gp_db_red(gp_db_red(:, 'PulsePotAvg_D100pA') > -60 & gp_db_red(:, 'PulsePotAvg_D100pA') < 0, :))
ans =
4838 297
>> close all
>> ls ~/tmp/
03-Pipes Honour.mp3
06. mouse on mars - 1001.mp3
08 - A Tout Le Monde (Set Me Free).mp3
1-02 Colgrass, Urban Requiem.m4a
a2.pdf
a2.ps
a2.ps~
aa-cnets-fall2011.pdf
amazonmp3.deb
amazonmp3.rpm
Amira541-LinuxAMD64.tar.gz
Amira541-Win32VC8.exe
a.ps
ati-driver-installer-9.2-x86.x86_64.run
aydin_IMG_4053.JPG
baines-Kfast-inact-cannot-be-lower.pdf
bayoumiRec.doc
britain-cambridge-1500px.png
brute_scripts_svn.dump
celldata
cengique_6e73895dca9e8ee7d75bfeecc462232f.zip
cengiz - aydindan.jpg
cengiz-laotse-cvsrep.tar.bz2
cengiz_p1_submitted_R1_022108_all.pdf
cengiz_p1_supp_mat_tables_R2_v3_djv1.doc
CG-x86_64-patch.diff
Cha OK371 images.odt
CompNeuroHW10
daily-backup
dom01.JPG
dom02.JPG
dom18.JPG
dom35.JPG
dsc03898_cropped.jpg
dsc03898.jpg
dvorak-layout.eps
dvorak-layout.pdf
finnix-103.iso
FlyBase_Fields_download.txt
genesis-2.3-Linux-bin.tar.bz2
genesis-2.3-src.tar.bz2
gmail-contacts-filtered.csv
gmail-import-address.csv
GrayMatter-DEMO_efigs.zip
Gunay_Edgerton_Jaeger_2008_JNS_GP_Model_Scripts.zip
GunayEdgertonJaeger2008.zip
hpdjt1100serieswumps
Image:Ist1_tanitim_level_subat_98.pdf
index.html
Ist1_tanitim_level_subat_98.pdf
jobs.sql.zip
L1-WT-inact-avg.png
L3-aCC-RP2-snapshot1.png
Layout2.pdf
lyx
Mathematica_8.0.1_LINUX_MachineSpecific.iso
mathworks_downloads
matlab-r18-2007b-unix-mac-license-thruSep2008.txt
matlab-r2007b-unix-mac-license-thruSep2008.txt
mendeleydesktop-0.9.9.2-linux-i486.tar.bz2
ndvis
ndvis.zip
netstat-wo-skype.log
netstat-w-skype.log
neuroConstruct_unix_1_5_2.sh
neuroidnet
neuroidnet-src.jar
neuroidnet.zip
notify_moderators.zip
nrn-7.1.x86_64.rpm
nxclient-3.5.0-7.i386.rpm
nxclient-3.5.0-7.x86_64.rpm
nxnode-3.5.0-3.i386.rpm
nxnode-3.5.0-3.x86_64.rpm
nxserver-3.5.0-4.i386.rpm
nxserver-3.5.0-4.x86_64.rpm
openSUSE-11.2-DVD-x86_64.iso
openSUSE-11.2-DVD-x86_64.iso.torrent
P1080445_cropped.JPG
P1080445.JPG
paper.pdf
paper.txt
pasaport
password.dat
picasa-3.0-current.i386.rpm
posterCNS11.pdf
posterSFN11.pdf
power of nightmares (2004).mpg
prinzlab-usb-stick1
readNeuronVecAscii.m
readNeuronVecAscii.m~
Samsung_CNP770ND-UnifiedLinuxDriver_1.00.tar.gz
secme
simEngine_lin_64_1.2preview_BUILD_3760.tgz
swftools-2011-01-23-1815.tar.gz
treatPhysDB.m
tremulous-1.1.0-installer.x86.run
ubuntu
vlad.m~
Wow.ogg
Wow.ogg.m3u
yesterday_-the_azeri_way.mp3
>> %a_fs = params_tests_fileset('~/tmp/CompNeuroHW10/*_0_pAcip.bin', 1e-4, 1e-3, 'NaF doublet', struct('trace_time_start', 1000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
>> ls ~/tmp/CompNeuroHW10/
data_10_trial_0_pAcip.bin data_14_trial_0_pAcip.bin data_4_trial_0_pAcip.bin
data_11_trial_0_pAcip.bin data_1_trial_0_pAcip.bin data_5_trial_0_pAcip.bin
data_12_trial_0_pAcip.bin data_2_trial_0_pAcip.bin
data_13_trial_0_pAcip.bin data_3_trial_0_pAcip.bin
>> a_fs = params_tests_fileset('~/tmp/CompNeuroHW10/*_0_pAcip.bin', 1e-4, 1e-3, 'Claire big-endian files', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
{??? Error using ==> dlmread at 62
The file 'naf_doublet.par' could not be opened because: No such file or
directory
Error in ==> params_tests_fileset.params_tests_fileset at 140
param_rows = dlmread(props.param_row_filename);
}
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample/data
>> ls
brute_20.save data_20_trial_0_pAcip_trinity.bin
brute_21.save data_21_trial_0_pAcip_trinity_NaP_2.bin
brute_22.save data_22_trial_0_pAcip_trinity_NaP_2_KCNQ_4_5.bin
brute_23.save data_23_trial_0_pAcip.bin
brute_24.save data_24_trial_0_pAcip_trinity_NaF_700.bin
brute_25.save data_25_trial_0_pAcip_Kv4_640.bin
brute_26.save data_26_trial_0_pAcip_NaP_2_Kv4_620.bin
brute_27.save data_27_trial_0_pAcip_charles.bin
brute_28.save data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin
brute_29.save data_29_trial_0_pAcip_clarissa.bin
brute_30.save data_30_trial_0_pAcip_trinity_NAP_2_SK_256.bin
brute_42.save data_42_trial_0_pAcip_seth.bin
brute_43.save data_43_trial_0_pAcip_nichols.bin
brute_53.save data_53_trial_0_pAcip_claire.bin
brute_64.save data_64_trial_0_pAcip_kunal.bin
>> cd ..
>> ls
create_perlhash_param_db paramScanSingle.pl
data readGPparams.g
dosim runbatch_local_perlhash.sh
dosimnum run_genesis.sh
find_missing.sh setup_1cip.g
morph3_addedNaF_HCN_KCNQ_lower_vals.par setup.g
naf_doublet.par setup_saveItot.cpp
naf_doublet.par.db setup-test.g
naf_doublet.txt sge_perlhash.sh
paramRangesMorphAddedNaF.txt sge_submit
paramRangesMorph.txt worknodes
>> a_fs = params_tests_fileset('~/tmp/CompNeuroHW10/*_0_pAcip.bin', 1e-4, 1e-3, 'Claire big-endian files', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
params_tests_fileset, Claire big-endian files
ans =
path: '~/tmp/CompNeuroHW10'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, Claire big-endian files
ans =
list: {1x10 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Claire big-endian files'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
readgenesis: could not open file '~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin'
{Warning: Error caught during database creation, before starting to read items:
Error using ==> readgenesis
readgenesis: error... see output above. Returning empty database.}
> In params_tests_dataset.readDBItems at 50
In params_tests_dataset.params_tests_db at 60
Stack trace:
/home/cengiz/work/pandora/classes/@trace/trace.m at 181 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/trace.m at 57 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/loadItemProfile.m at 35 (loadItemProfile).
/home/cengiz/work/pandora/classes/@params_tests_dataset/testNames.m at 40 (testNames).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 41 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Error in ==> params_tests_dataset.readDBItems at 35
if ~ exist('items', 'var')
{??? Output argument "docs" (and maybe others) not assigned during call to
"/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m>readDBItems".
Error in ==> params_tests_dataset.params_tests_db at 60
[params, param_names, tests, test_names, a_doc] = readDBItems(args{:});
}
>> help trace
trace - Load a generic data trace. It can be membrane voltage, current, etc.
Usage:
obj = trace(data_src, dt, dy, id, props)
Description:
This object is designed to recognize most data file formats. See the
data_src parameter below. Traces for specific experimental or simulation
protocols can extend this class for adding new parameters.
Parameters:
data_src: Trace data as a column vector OR name of a data file generated by either
Genesis (.bin, .gbin, .genflac), Neuron, PCDX (.all), Matlab (.mat) or
NeuroShare (.nsn, .nev, .stb, .plx, .nex, .map, .son, .smr, .mcd) files.
dt: Time resolution in [s], unless specified in Neuron ASCII, HDF5 or NeuroShare file.
dy: y-axis resolution in [ISI (V, A, etc.)], unless specified in HDF5 or NeuroShare file.
id: Identification string
props: A structure with any optional properties.
scale_y: Y-axis scale to be applied to loaded data.
offset_y: Y-axis offset to be added to loaded and scaled data.
unit_y: Unit of Y-axis as in 'V' or 'A' (default='V').
y_label: String to put on Y-axis of plots.
trace_time_start: Samples in the beginning to discard [dt]
baseline: Resting potential.
channel: Channel to read from file Genesis, PCDX, NeuroShare or
Neuron file, or column in a data vector.
file_type: Specify file type instead of guessing from extension:
'genesis': Raw binary files created with Genesis disk_out method.
'genesis_flac': Compressed Genesis binary files.
'neuron': Binary files created with Neuron's Vector.vwrite method.
'neuronascii': Ascii files created from Neuron's Vector objects.
Uses time step in file to scale given dt (Must be in ms).
'pcdx': .ALL data acquisition files from PCDX program.
'matlab': Matlab .MAT binary files with matrix data.
'neuroshare': One of the vendor formats recognized by
NeuroShare Windows DLLs. See above and http://neuroshare.org. A
scale_y value may need to be supplied to get the correct units.
'abf': AxoClamp .ABF format read with abf2load from Matlab FileExchange.
file_endian: 'l' for little endian and 'b' for big endian
(default='n', for native endian). See machineformat option
in fopen for more info.
traces: Trace numbers as a numeric array or as a string with
numeric ranges (e.g., '1 2 5-10 28') for PCDX files.
spike_finder: Method of finding spikes
(1 for findFilteredSpikes, 2 for Li Su's
findspikes, and 3 for Alfonso Delgado Reyes's
findspikes_old). Methods 2 and 3 require a threshold.
threshold: Spike finding threshold. For the findspikes method,
it is either a scalar, or [thres1 thres2] to define
a range. For findFilteredSpikes it is used on the
filtered data and the default is 2/3 max amplitude
of band-passed data, but with a minimum of 15.
downThreshold: (Only for findFilteredSpikes) Size of the trough
after the spike peak in filtered data (Default=-2).
minInit2MaxAmp, minMin2MaxAmp: For spike_shape elimination,
conditions of minimal allowed values for
initial point to max point and minimal point to
max point, respectively (Default=10 for both).
init_Vm_method: Method of finding spike thresholds during spike
shape calculation (see spike_shape/spike_shape).
init_threshold: Spike initiation threshold (deriv or accel).
(see above methods and implementation in calcInitVm)
init_lo_thr, init_hi_thr: Low and high thresholds for slope.
custom_filter: Recommended if sampling rate differs appreciably from 10 kHz.
If custom_filter == 1, a filter with custom lowpass and highpass
cutoffs can be specified. This allows for fast and accurate spike
discrimination. The filter type used is a 2-pole
butterworth, different than the default high-order
Cheby2. Creates new prop called 'butterWorth' to
hold the filter.
lowPassFreq: If set, it sets a new low pass cutoff for custom filter. Default is 3000Hz
highPassFreq: If set it sets a new high pass cutoff for custom filter. Default is 50 Hz
quiet: If 1, reduces the amount of textual description in plots
and does not add information to id field.
Returns a structure object with the following fields:
data: The trace column matrix.
dt, dy, id, props (see above)
General operations on trace objects:
trace - Construct a new trace object.
plot - Graph the trace.
display - Returns and displays the identification string.
get - Gets attributes of this object and parents.
subsref - Allows usage of . operator.
calcAvg - Calculate the average value of the trace period.
calcMin - Calculate the minimum value of the trace period.
calcMax - Calculate the minimum value of the trace period.
periodWhole - Return the whole period of this trace.
findFilteredSpikes - Use a band-pass filter to smooth the data and
find spikes afterwards.
getResults - Calculates a set of tests.
spike_shape - Build a trace of the average spike shape in here.
spikes - Build a spikes object with the spikes found here.
Converter methods:
spikes - Find the spikes and construct a spikes object.
spike_shape - Construct a spike_shape object from this trace.
Additional methods:
See methods('trace')
See also: spikes, spike_shape, cip_trace, period
$Id: trace.m 1333 2012-04-19 18:01:11Z cengique $
Author: Cengiz Gunay <cgunay@emory.edu>, 2004/07/30
Modified:
- allow custom filter, Thomas D. Sangrey 2007/12/04
Overloaded methods:
params_tests_fileset/trace
>> a_fs = params_tests_fileset('~/tmp/CompNeuroHW10/*_0_pAcip.bin', 1e-4, 1e-3, 'Claire big-endian files', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes', 'file_endian', 'b'))
params_tests_fileset, Claire big-endian files
ans =
path: '~/tmp/CompNeuroHW10'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, Claire big-endian files
ans =
list: {1x10 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Claire big-endian files'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
file_endian: 'b'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#24)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#26)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#24)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#26)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Error caught during database creation at item index 1: Error using ==>
params_tests_fileset.getItemParams at 70
Trial number 10 is larger than trials available in the specified param_rows
(6).. Truncating database.}
> In params_tests_dataset.readDBItems at 123
In params_tests_dataset.params_tests_db at 60
Item in question is:
data_10_trial_0_pAcip.bin
Stack trace:
/home/cengiz/work/pandora/classes/@params_tests_fileset/getItemParams.m at 70 (getItemParams).
/home/cengiz/work/pandora/classes/@params_tests_dataset/itemResultsRow.m at 53 (itemResultsRow).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 101 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Elapsed time took 0.51 seconds.
size of a_test_results: 0 56
size of test_names: 1 56
size of params: 0 12
size of param_names: 1 12
{??? Error using ==> params_tests_db.params_tests_db at 94
Number of columns in params or a_test_results and items in param_names or
test_names must match. And there should be some data to create the db.
Error in ==> params_tests_dataset.params_tests_db at 64
db_obj = params_tests_db(params, param_names, tests, test_names, ...
}
>> help computer
COMPUTER Computer type.
C = COMPUTER returns string C denoting the type of computer
on which MATLAB is executing. Possibilities are:
ISPC ISUNIX ISMAC ARCHSTR
32-Bit Platforms
PCWIN - Microsoft Windows on x86 1 0 0 win32
GLNX86 - Linux on x86 0 1 0 glnx86
64-Bit Platforms
PCWIN64 - Microsoft Windows on x64 1 0 0 win64
GLNXA64 - Linux on x86_64 0 1 0 glnxa64
MACI64 - Apple Mac OS X on x86_64 0 1 1 maci64
ARCHSTR = COMPUTER('arch') returns string ARCHSTR which is
used by the MEX command -arch switch.
[C,MAXSIZE] = COMPUTER returns integer MAXSIZE which
contains the maximum number of elements allowed in a matrix
on this version of MATLAB.
[C,MAXSIZE,ENDIAN] = COMPUTER returns either 'L' for
little endian byte ordering or 'B' for big endian byte ordering.
See also ispc, isunix, ismac.
Reference page in Help browser
doc computer
>> [C,MAXSIZE,ENDIAN] = COMPUTER
{??? Undefined function or variable 'COMPUTER'.
}
>> [c,maxsize,endian] = computer
c =
GLNXA64
maxsize =
2.8147e+14
endian =
L
>> t_db = params_tests_db(a_fs)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#24)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#26)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#24)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#26)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Error caught during database creation at item index 1: Error using ==>
params_tests_fileset.getItemParams at 70
Trial number 10 is larger than trials available in the specified param_rows
(6).. Truncating database.}
> In params_tests_dataset.readDBItems at 123
In params_tests_dataset.params_tests_db at 60
Item in question is:
data_10_trial_0_pAcip.bin
Stack trace:
/home/cengiz/work/pandora/classes/@params_tests_fileset/getItemParams.m at 70 (getItemParams).
/home/cengiz/work/pandora/classes/@params_tests_dataset/itemResultsRow.m at 53 (itemResultsRow).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 101 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Elapsed time took 0.50 seconds.
size of a_test_results: 0 56
size of test_names: 1 56
size of params: 0 12
size of param_names: 1 12
{??? Error using ==> params_tests_db.params_tests_db at 94
Number of columns in params or a_test_results and items in param_names or
test_names must match. And there should be some data to create the db.
Error in ==> params_tests_dataset.params_tests_db at 64
db_obj = params_tests_db(params, param_names, tests, test_names, ...
}
>> t_db
{??? Undefined function or variable 't_db'.
}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#24)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#26)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ~/tmp/CompNeuroHW10/data_10_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#4)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#17)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#24)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for Claire big-endian files(1) (
spike#26)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Error caught during database creation at item index 1: Error using ==>
params_tests_fileset.getItemParams at 70
Trial number 10 is larger than trials available in the specified param_rows
(6).. Truncating database.}
> In params_tests_dataset.readDBItems at 123
In params_tests_dataset.params_tests_db at 60
Item in question is:
data_10_trial_0_pAcip.bin
Stack trace:
/home/cengiz/work/pandora/classes/@params_tests_fileset/getItemParams.m at 70 (getItemParams).
/home/cengiz/work/pandora/classes/@params_tests_dataset/itemResultsRow.m at 53 (itemResultsRow).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 101 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Elapsed time took 0.51 seconds.
size of a_test_results: 0 56
size of test_names: 1 56
size of params: 0 12
size of param_names: 1 12
{??? Error using ==> params_tests_db.params_tests_db at 94
Number of columns in params or a_test_results and items in param_names or
test_names must match. And there should be some data to create the db.
Error in ==> params_tests_dataset.params_tests_db at 64
db_obj = params_tests_db(params, param_names, tests, test_names, ...
}
>> a_fs = params_tests_fileset('~/tmp/CompNeuroHW10/data_[123456]_trial_0_pAcip.bin', 1e-4, 1e-3, 'Claire big-endian files', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes', 'file_endian', 'b'))
{Warning: Pattern "~/tmp/CompNeuroHW10/data_[123456]_trial_0_pAcip.bin" matched
no files.}
> In params_tests_fileset.params_tests_fileset at 129
{Warning: *** Fatal: No files in dataset!!! ***}
> In params_tests_fileset.params_tests_fileset at 134
params_tests_fileset, Claire big-endian files
ans =
path: '~/tmp/CompNeuroHW10'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, Claire big-endian files
ans =
list: {}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'Claire big-endian files'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
file_endian: 'b'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Error caught during database creation, before starting to read items:
Index exceeds matrix dimensions.. Returning empty database.}
> In params_tests_dataset.readDBItems at 50
In params_tests_dataset.params_tests_db at 60
Stack trace:
/home/cengiz/work/pandora/classes/@params_tests_dataset/getItem.m at 30 (getItem).
/home/cengiz/work/pandora/classes/@params_tests_fileset/trace.m at 29 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/loadItemProfile.m at 35 (loadItemProfile).
/home/cengiz/work/pandora/classes/@params_tests_dataset/testNames.m at 40 (testNames).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 41 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Error in ==> params_tests_dataset.readDBItems at 35
if ~ exist('items', 'var')
{??? Output argument "docs" (and maybe others) not assigned during call to
"/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m>readDBItems".
Error in ==> params_tests_dataset.params_tests_db at 60
[params, param_names, tests, test_names, a_doc] = readDBItems(args{:});
}
>> pwd
ans =
/home/cengiz/Documents/writings/brute-force/database-analysis-lecture/GunayEdgertonJaeger2008/runs/run_sample
>> ls data
brute_20.save data_20_trial_0_pAcip_trinity.bin
brute_21.save data_21_trial_0_pAcip_trinity_NaP_2.bin
brute_22.save data_22_trial_0_pAcip_trinity_NaP_2_KCNQ_4_5.bin
brute_23.save data_23_trial_0_pAcip.bin
brute_24.save data_24_trial_0_pAcip_trinity_NaF_700.bin
brute_25.save data_25_trial_0_pAcip_Kv4_640.bin
brute_26.save data_26_trial_0_pAcip_NaP_2_Kv4_620.bin
brute_27.save data_27_trial_0_pAcip_charles.bin
brute_28.save data_28_trial_0_pAcip_trinity_NaP_2_CaHVA_5.bin
brute_29.save data_29_trial_0_pAcip_clarissa.bin
brute_30.save data_30_trial_0_pAcip_trinity_NAP_2_SK_256.bin
brute_42.save data_42_trial_0_pAcip_seth.bin
brute_43.save data_43_trial_0_pAcip_nichols.bin
brute_53.save data_53_trial_0_pAcip_claire.bin
brute_64.save data_64_trial_0_pAcip_kunal.bin
>> ls
create_perlhash_param_db paramScanSingle.pl
data readGPparams.g
dosim runbatch_local_perlhash.sh
dosimnum run_genesis.sh
find_missing.sh setup_1cip.g
morph3_addedNaF_HCN_KCNQ_lower_vals.par setup.g
naf_doublet.par setup_saveItot.cpp
naf_doublet.par.db setup-test.g
naf_doublet.txt sge_perlhash.sh
paramRangesMorphAddedNaF.txt sge_submit
paramRangesMorph.txt worknodes
>> ls ../../
common README runs
>> ls ../../../
2012-spring-session20-21-homework-10.pdf
2012-spring-session20-21-homework.doc
2012-spring-session20-21-homework-keys.doc
action potential.png
CentralPatternGeneratorLecture.ppt
data
data2
data-old
giant-squid.jpg
gp_db_red.mat
GP-model-large-param-database.pdf
GP-model-large-param-database.ppt
GPslides.ppt
GunayEdgertonJaeger2008
GunayEdgertonJaeger2008_IBS534.zip
Hendrickson-2010-reduced-GP-models
Hendrickson-2010-reduced-GP-models.zip
Hudson and Prinz (2010) Fig 6.png
hw10-todo
IBS534_2012_s20_CG_handout.doc
IBS534_2012_s21_search_algo_DBs_handout_CG.doc
lecture11-AP.ppt
lecture12-AP - part 1.ppt
lecture12-AP - part 2.ppt
lecture21-CG-handout.doc
lecture21-CG.pdf
lecture21-CG.ppt
Lecture 25 12-04 Pattern generation.ppt
lobster homarus americanus.png
matlab-session_2012-04-06_handout-and-homework.log
matlab-session_2012-04-06_handout-and-homework.log~
model_bundle_morph3_addedNaF_HCN_KCNQ_comp_3.mat
naf_doublet.par
naf_doublet.txt
pandoras-box-dieter.png
present-dieter-class.lyx
present-dieter-class.pdf
present_references.lyx
runbatch_local_perlhash.sh
setup_1cip.g
stomatogastric ganglion.png
supp_mat_1_code.m
supp_mat_1_dat.mat
supp_mat_2_code.m
supp_mat_2_dat.mat
>> ls ../../../data-old
brute_1.save data1_0_pAcip.bin data2_100_pAcip.bin
brute_2.save data1_100_pAcip.bin data3_0_pAcip.bin
brute_3.save data2_0_pAcip.bin data3_100_pAcip.bin
>> ls ../../../data2
brute_10.save brute_6.save data2_0_pAcip.bin data6_0_pAcip.bin
brute_1.save brute_7.save data30_0_pAcip.bin data6_100_pAcip.bin
brute_20.save brute_8.save data30_100_pAcip.bin data7_0_pAcip.bin
brute_2.save brute_9.save data3_0_pAcip.bin data7_100_pAcip.bin
brute_30.save data10_0_pAcip.bin data3_100_pAcip.bin data8_0_pAcip.bin
brute_3.save data10_100_pAcip.bin data4_100_pAcip.bin data8_100_pAcip.bin
brute_4.save data20_0_pAcip.bin data5_0_pAcip.bin data9_0_pAcip.bin
brute_5.save data20_100_pAcip.bin data5_100_pAcip.bin data9_100_pAcip.bin
>> ls ../../../data
brute_1.save brute_4.save data_1_trial_0_pAcip.bin data_4_trial_0_pAcip.bin
brute_2.save brute_5.save data_2_trial_0_pAcip.bin data_5_trial_0_pAcip.bin
brute_3.save brute_6.save data_3_trial_0_pAcip.bin data_6_trial_0_pAcip.bin
>> ls ../../../data
brute_1.save brute_4.save data_1_trial_0_pAcip.bin data_4_trial_0_pAcip.bin
brute_2.save brute_5.save data_2_trial_0_pAcip.bin data_5_trial_0_pAcip.bin
brute_3.save brute_6.save data_3_trial_0_pAcip.bin data_6_trial_0_pAcip.bin
>> a_fs = params_tests_fileset('../../../data/*_0_pAcip.bin', 1e-4, 1e-3, 'test w/o readgenesis', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes', 'file_endian', 'b'))
params_tests_fileset, test w/o readgenesis
ans =
path: '../../../data'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, test w/o readgenesis
ans =
list: {1x6 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'test w/o readgenesis'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
file_endian: 'b'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{Warning: Error caught during database creation, before starting to read items:
Error using ==> readgenbin at 74
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!. Returning empty database.}
> In params_tests_dataset.readDBItems at 50
In params_tests_dataset.params_tests_db at 60
Stack trace:
/home/cengiz/work/pandora/functions/readgenbin.m at 74 (readgenbin).
/home/cengiz/work/pandora/classes/@trace/trace.m at 175 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/trace.m at 57 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/loadItemProfile.m at 35 (loadItemProfile).
/home/cengiz/work/pandora/classes/@params_tests_dataset/testNames.m at 40 (testNames).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 41 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Error in ==> params_tests_dataset.readDBItems at 35
if ~ exist('items', 'var')
{??? Output argument "docs" (and maybe others) not assigned during call to
"/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m>readDBItems".
Error in ==> params_tests_dataset.params_tests_db at 60
[params, param_names, tests, test_names, a_doc] = readDBItems(args{:});
}
>> a_fs = params_tests_fileset('../../../data/*_0_pAcip.bin', 1e-4, 1e-3, 'test w/o readgenesis', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes', 'file_endian', 'l'))
params_tests_fileset, test w/o readgenesis
ans =
path: '../../../data'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, test w/o readgenesis
ans =
list: {1x6 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'test w/o readgenesis'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
file_endian: 'l'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_1_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_1_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_2_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(2) ( spike#34)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_3_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_4_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_5_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_6_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Elapsed time took 6.02 seconds.
params_tests_db, test w/o readgenesis
ans =
num_params: 12
tests_db: [1x1 tests_db]
tests_db, test w/o readgenesis
6 rows in database with 68 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morph'
[11] 'trial'
[12] 'pAcip'
[13] 'ISICV'
[14] 'SpikeRate'
[15] 'SpikeRateISI'
[16] 'avg'
[17] 'max'
[18] 'min'
[19] 'SpikeAmplitudeMean'
[20] 'SpikeAmplitudeMode'
[21] 'SpikeAmplitudeSTD'
[22] 'SpikeBaseWidthMean'
[23] 'SpikeBaseWidthMode'
[24] 'SpikeBaseWidthSTD'
[25] 'SpikeDAHPMagMean'
[26] 'SpikeDAHPMagMode'
[27] 'SpikeDAHPMagSTD'
[28] 'SpikeFallTimeMean'
[29] 'SpikeFallTimeMode'
[30] 'SpikeFallTimeSTD'
[31] 'SpikeFixVWidthMean'
[32] 'SpikeFixVWidthMode'
[33] 'SpikeFixVWidthSTD'
[34] 'SpikeHalfVmMean'
[35] 'SpikeHalfVmMode'
[36] 'SpikeHalfVmSTD'
[37] 'SpikeHalfWidthMean'
[38] 'SpikeHalfWidthMode'
[39] 'SpikeHalfWidthSTD'
[40] 'SpikeInitTimeMean'
[41] 'SpikeInitTimeMode'
[42] 'SpikeInitTimeSTD'
[43] 'SpikeInitVmBySlopeMean'
[44] 'SpikeInitVmBySlopeMode'
[45] 'SpikeInitVmBySlopeSTD'
[46] 'SpikeInitVmMean'
[47] 'SpikeInitVmMode'
[48] 'SpikeInitVmSTD'
[49] 'SpikeMaxAHPMean'
[50] 'SpikeMaxAHPMode'
[51] 'SpikeMaxAHPSTD'
[52] 'SpikeMaxVmSlopeMean'
[53] 'SpikeMaxVmSlopeMode'
[54] 'SpikeMaxVmSlopeSTD'
[55] 'SpikeMinTimeMean'
[56] 'SpikeMinTimeMode'
[57] 'SpikeMinTimeSTD'
[58] 'SpikeMinVmMean'
[59] 'SpikeMinVmMode'
[60] 'SpikeMinVmSTD'
[61] 'SpikePeakVmMean'
[62] 'SpikePeakVmMode'
[63] 'SpikePeakVmSTD'
[64] 'SpikeRiseTimeMean'
[65] 'SpikeRiseTimeMode'
[66] 'SpikeRiseTimeSTD'
[67] 'Spikes'
[68] 'ItemIndex'
Optional properties of tests_db:
ans =
doc: [1x1 doc_multi]
>> displayRows(t_db(1, :))
ans =
'NaF' [ 125]
'NaP' [ 1]
'Kv2' [ 0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [ 0.0800]
'SK' [ 2]
'CaHVA' [ 0.3000]
'HCN' [ 1]
'morph' [ 3]
'trial' [ 1]
'pAcip' [ 0]
'ISICV' [ 0.7904]
'SpikeRate' [ 51]
'SpikeRateISI' [ 50.1756]
'avg' [-57.2903]
'max' [ 32.3271]
'min' [-64.0950]
'SpikeAmplitudeMean' [ 77.7479]
'SpikeAmplitudeMode' [ 74.4354]
'SpikeAmplitudeSTD' [ 3.3077]
'SpikeBaseWidthMean' [ 1.6084]
'SpikeBaseWidthMode' [ 1.5500]
'SpikeBaseWidthSTD' [ 0.0860]
'SpikeDAHPMagMean' [ NaN]
'SpikeDAHPMagMode' [ 0]
'SpikeDAHPMagSTD' [ NaN]
'SpikeFallTimeMean' [ 1.1020]
'SpikeFallTimeMode' [ 1.0955]
'SpikeFallTimeSTD' [ 0.1584]
'SpikeFixVWidthMean' [ 0.7277]
'SpikeFixVWidthMode' [ 0.7402]
'SpikeFixVWidthSTD' [ 0.0159]
'SpikeHalfVmMean' [ -9.3919]
'SpikeHalfVmMode' [-10.6712]
'SpikeHalfVmSTD' [ 1.0918]
'SpikeHalfWidthMean' [ 0.7195]
'SpikeHalfWidthMode' [ 0.7194]
'SpikeHalfWidthSTD' [ 0.0031]
'SpikeInitTimeMean' [ 3.8440]
'SpikeInitTimeMode' [ 6.6231]
'SpikeInitTimeSTD' [ 2.7923]
'SpikeInitVmBySlopeMean' [-47.6048]
'SpikeInitVmBySlopeMode' [-48.4997]
'SpikeInitVmBySlopeSTD' [ 0.6384]
'SpikeInitVmMean' [-48.2659]
'SpikeInitVmMode' [-48.3615]
'SpikeInitVmSTD' [ 0.7566]
'SpikeMaxAHPMean' [ 11.8451]
'SpikeMaxAHPMode' [ 7.3180]
'SpikeMaxAHPSTD' [ 4.1733]
'SpikeMaxVmSlopeMean' [310.5354]
'SpikeMaxVmSlopeMode' [309.7685]
'SpikeMaxVmSlopeSTD' [ 23.5819]
'SpikeMinTimeMean' [ 12.9360]
'SpikeMinTimeMode' [ 8.9890]
'SpikeMinTimeSTD' [ 4.4565]
'SpikeMinVmMean' [-60.1110]
'SpikeMinVmMode' [-56.5479]
'SpikeMinVmSTD' [ 3.5686]
'SpikePeakVmMean' [ 29.4820]
'SpikePeakVmMode' [ 32.0717]
'SpikePeakVmSTD' [ 2.6985]
'SpikeRiseTimeMean' [ 0.4864]
'SpikeRiseTimeMode' [ 0.4502]
'SpikeRiseTimeSTD' [ 0.0367]
'Spikes' [ 51]
'ItemIndex' [ 1]
>> displayRows(t_db(6, :))
ans =
'NaF' [ 250]
'NaP' [ 1]
'Kv2' [ 0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [ 0.0800]
'SK' [ 2]
'CaHVA' [ 0.3000]
'HCN' [ 1]
'morph' [ 3]
'trial' [ 6]
'pAcip' [ 0]
'ISICV' [ 0.0065]
'SpikeRate' [ 67]
'SpikeRateISI' [ 67.3263]
'avg' [ -53.4950]
'max' [ 37.4306]
'min' [ -60.7455]
'SpikeAmplitudeMean' [ 86.7655]
'SpikeAmplitudeMode' [ 86.8883]
'SpikeAmplitudeSTD' [ 0.2730]
'SpikeBaseWidthMean' [ 1.5364]
'SpikeBaseWidthMode' [ 1.5189]
'SpikeBaseWidthSTD' [ 0.0285]
'SpikeDAHPMagMean' [ NaN]
'SpikeDAHPMagMode' [ 0]
'SpikeDAHPMagSTD' [ NaN]
'SpikeFallTimeMean' [ 1.1000]
'SpikeFallTimeMode' [ 1.1000]
'SpikeFallTimeSTD' [2.2377e-16]
'SpikeFixVWidthMean' [ 0.7644]
'SpikeFixVWidthMode' [ 0.7561]
'SpikeFixVWidthSTD' [ 0.0055]
'SpikeHalfVmMean' [ -5.9379]
'SpikeHalfVmMode' [ -5.7069]
'SpikeHalfVmSTD' [ 0.2984]
'SpikeHalfWidthMean' [ 0.7126]
'SpikeHalfWidthMode' [ 0.7164]
'SpikeHalfWidthSTD' [ 0.0032]
'SpikeInitTimeMean' [ 6.6442]
'SpikeInitTimeMode' [ 6.6423]
'SpikeInitTimeSTD' [ 0.0052]
'SpikeInitVmBySlopeMean' [ -48.5184]
'SpikeInitVmBySlopeMode' [ -48.8366]
'SpikeInitVmBySlopeSTD' [ 0.2681]
'SpikeInitVmMean' [ -49.3261]
'SpikeInitVmMode' [ -49.3164]
'SpikeInitVmSTD' [ 0.3770]
'SpikeMaxAHPMean' [ 11.3669]
'SpikeMaxAHPMode' [ 11.4299]
'SpikeMaxAHPSTD' [ 0.3800]
'SpikeMaxVmSlopeMean' [ 365.3979]
'SpikeMaxVmSlopeMode' [ 383.2894]
'SpikeMaxVmSlopeSTD' [ 21.2558]
'SpikeMinTimeMean' [ 9.1031]
'SpikeMinTimeMode' [ 9.1005]
'SpikeMinTimeSTD' [ 0.0174]
'SpikeMinVmMean' [ -60.6838]
'SpikeMinVmMode' [ -60.6741]
'SpikeMinVmSTD' [ 0.0130]
'SpikePeakVmMean' [ 37.4395]
'SpikePeakVmMode' [ 37.6167]
'SpikePeakVmSTD' [ 0.2640]
'SpikeRiseTimeMean' [ 0.4364]
'SpikeRiseTimeMode' [ 0.4189]
'SpikeRiseTimeSTD' [ 0.0281]
'Spikes' [ 67]
'ItemIndex' [ 6]
>> a_fs = params_tests_fileset('../../../data/*_0_pAcip.bin', 1e-4, 1e-3, 'test w/o readgenesis', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes', 'file_endian', 'n'))
params_tests_fileset, test w/o readgenesis
ans =
path: '../../../data'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, test w/o readgenesis
ans =
list: {1x6 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'test w/o readgenesis'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
file_endian: 'n'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_1_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_1_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_2_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(2) ( spike#34)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_3_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_4_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_5_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
readgenesis: ../../../data/data_6_trial_0_pAcip.bin, trace 1 of 1 (20000 points @ 10 kHz)
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Elapsed time took 6.04 seconds.
params_tests_db, test w/o readgenesis
ans =
num_params: 12
tests_db: [1x1 tests_db]
tests_db, test w/o readgenesis
6 rows in database with 68 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morph'
[11] 'trial'
[12] 'pAcip'
[13] 'ISICV'
[14] 'SpikeRate'
[15] 'SpikeRateISI'
[16] 'avg'
[17] 'max'
[18] 'min'
[19] 'SpikeAmplitudeMean'
[20] 'SpikeAmplitudeMode'
[21] 'SpikeAmplitudeSTD'
[22] 'SpikeBaseWidthMean'
[23] 'SpikeBaseWidthMode'
[24] 'SpikeBaseWidthSTD'
[25] 'SpikeDAHPMagMean'
[26] 'SpikeDAHPMagMode'
[27] 'SpikeDAHPMagSTD'
[28] 'SpikeFallTimeMean'
[29] 'SpikeFallTimeMode'
[30] 'SpikeFallTimeSTD'
[31] 'SpikeFixVWidthMean'
[32] 'SpikeFixVWidthMode'
[33] 'SpikeFixVWidthSTD'
[34] 'SpikeHalfVmMean'
[35] 'SpikeHalfVmMode'
[36] 'SpikeHalfVmSTD'
[37] 'SpikeHalfWidthMean'
[38] 'SpikeHalfWidthMode'
[39] 'SpikeHalfWidthSTD'
[40] 'SpikeInitTimeMean'
[41] 'SpikeInitTimeMode'
[42] 'SpikeInitTimeSTD'
[43] 'SpikeInitVmBySlopeMean'
[44] 'SpikeInitVmBySlopeMode'
[45] 'SpikeInitVmBySlopeSTD'
[46] 'SpikeInitVmMean'
[47] 'SpikeInitVmMode'
[48] 'SpikeInitVmSTD'
[49] 'SpikeMaxAHPMean'
[50] 'SpikeMaxAHPMode'
[51] 'SpikeMaxAHPSTD'
[52] 'SpikeMaxVmSlopeMean'
[53] 'SpikeMaxVmSlopeMode'
[54] 'SpikeMaxVmSlopeSTD'
[55] 'SpikeMinTimeMean'
[56] 'SpikeMinTimeMode'
[57] 'SpikeMinTimeSTD'
[58] 'SpikeMinVmMean'
[59] 'SpikeMinVmMode'
[60] 'SpikeMinVmSTD'
[61] 'SpikePeakVmMean'
[62] 'SpikePeakVmMode'
[63] 'SpikePeakVmSTD'
[64] 'SpikeRiseTimeMean'
[65] 'SpikeRiseTimeMode'
[66] 'SpikeRiseTimeSTD'
[67] 'Spikes'
[68] 'ItemIndex'
Optional properties of tests_db:
ans =
doc: [1x1 doc_multi]
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_2_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(2) ( spike#34)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_3_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_4_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_5_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_6_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Elapsed time took 5.97 seconds.
params_tests_db, test w/o readgenesis
ans =
num_params: 12
tests_db: [1x1 tests_db]
tests_db, test w/o readgenesis
6 rows in database with 68 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morph'
[11] 'trial'
[12] 'pAcip'
[13] 'ISICV'
[14] 'SpikeRate'
[15] 'SpikeRateISI'
[16] 'avg'
[17] 'max'
[18] 'min'
[19] 'SpikeAmplitudeMean'
[20] 'SpikeAmplitudeMode'
[21] 'SpikeAmplitudeSTD'
[22] 'SpikeBaseWidthMean'
[23] 'SpikeBaseWidthMode'
[24] 'SpikeBaseWidthSTD'
[25] 'SpikeDAHPMagMean'
[26] 'SpikeDAHPMagMode'
[27] 'SpikeDAHPMagSTD'
[28] 'SpikeFallTimeMean'
[29] 'SpikeFallTimeMode'
[30] 'SpikeFallTimeSTD'
[31] 'SpikeFixVWidthMean'
[32] 'SpikeFixVWidthMode'
[33] 'SpikeFixVWidthSTD'
[34] 'SpikeHalfVmMean'
[35] 'SpikeHalfVmMode'
[36] 'SpikeHalfVmSTD'
[37] 'SpikeHalfWidthMean'
[38] 'SpikeHalfWidthMode'
[39] 'SpikeHalfWidthSTD'
[40] 'SpikeInitTimeMean'
[41] 'SpikeInitTimeMode'
[42] 'SpikeInitTimeSTD'
[43] 'SpikeInitVmBySlopeMean'
[44] 'SpikeInitVmBySlopeMode'
[45] 'SpikeInitVmBySlopeSTD'
[46] 'SpikeInitVmMean'
[47] 'SpikeInitVmMode'
[48] 'SpikeInitVmSTD'
[49] 'SpikeMaxAHPMean'
[50] 'SpikeMaxAHPMode'
[51] 'SpikeMaxAHPSTD'
[52] 'SpikeMaxVmSlopeMean'
[53] 'SpikeMaxVmSlopeMode'
[54] 'SpikeMaxVmSlopeSTD'
[55] 'SpikeMinTimeMean'
[56] 'SpikeMinTimeMode'
[57] 'SpikeMinTimeSTD'
[58] 'SpikeMinVmMean'
[59] 'SpikeMinVmMode'
[60] 'SpikeMinVmSTD'
[61] 'SpikePeakVmMean'
[62] 'SpikePeakVmMode'
[63] 'SpikePeakVmSTD'
[64] 'SpikeRiseTimeMean'
[65] 'SpikeRiseTimeMode'
[66] 'SpikeRiseTimeSTD'
[67] 'Spikes'
[68] 'ItemIndex'
Optional properties of tests_db:
ans =
doc: [1x1 doc_multi]
>> displayRows(t_db(6, :))
ans =
'NaF' [ 250]
'NaP' [ 1]
'Kv2' [ 0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [ 0.0800]
'SK' [ 2]
'CaHVA' [ 0.3000]
'HCN' [ 1]
'morph' [ 3]
'trial' [ 6]
'pAcip' [ 0]
'ISICV' [ 0.0065]
'SpikeRate' [ 66.9933]
'SpikeRateISI' [ 67.3263]
'avg' [ -53.4956]
'max' [ 37.4306]
'min' [ -60.7455]
'SpikeAmplitudeMean' [ 86.7655]
'SpikeAmplitudeMode' [ 86.8883]
'SpikeAmplitudeSTD' [ 0.2730]
'SpikeBaseWidthMean' [ 1.5364]
'SpikeBaseWidthMode' [ 1.5189]
'SpikeBaseWidthSTD' [ 0.0285]
'SpikeDAHPMagMean' [ NaN]
'SpikeDAHPMagMode' [ 0]
'SpikeDAHPMagSTD' [ NaN]
'SpikeFallTimeMean' [ 1.1000]
'SpikeFallTimeMode' [ 1.1000]
'SpikeFallTimeSTD' [2.2377e-16]
'SpikeFixVWidthMean' [ 0.7644]
'SpikeFixVWidthMode' [ 0.7561]
'SpikeFixVWidthSTD' [ 0.0055]
'SpikeHalfVmMean' [ -5.9379]
'SpikeHalfVmMode' [ -5.7069]
'SpikeHalfVmSTD' [ 0.2984]
'SpikeHalfWidthMean' [ 0.7126]
'SpikeHalfWidthMode' [ 0.7164]
'SpikeHalfWidthSTD' [ 0.0032]
'SpikeInitTimeMean' [ 6.6442]
'SpikeInitTimeMode' [ 6.6423]
'SpikeInitTimeSTD' [ 0.0052]
'SpikeInitVmBySlopeMean' [ -48.5184]
'SpikeInitVmBySlopeMode' [ -48.8366]
'SpikeInitVmBySlopeSTD' [ 0.2681]
'SpikeInitVmMean' [ -49.3261]
'SpikeInitVmMode' [ -49.3164]
'SpikeInitVmSTD' [ 0.3770]
'SpikeMaxAHPMean' [ 11.3669]
'SpikeMaxAHPMode' [ 11.4299]
'SpikeMaxAHPSTD' [ 0.3800]
'SpikeMaxVmSlopeMean' [ 365.3979]
'SpikeMaxVmSlopeMode' [ 383.2894]
'SpikeMaxVmSlopeSTD' [ 21.2558]
'SpikeMinTimeMean' [ 9.1031]
'SpikeMinTimeMode' [ 9.1005]
'SpikeMinTimeSTD' [ 0.0174]
'SpikeMinVmMean' [ -60.6838]
'SpikeMinVmMode' [ -60.6741]
'SpikeMinVmSTD' [ 0.0130]
'SpikePeakVmMean' [ 37.4395]
'SpikePeakVmMode' [ 37.6167]
'SpikePeakVmSTD' [ 0.2640]
'SpikeRiseTimeMean' [ 0.4364]
'SpikeRiseTimeMode' [ 0.4189]
'SpikeRiseTimeSTD' [ 0.0281]
'Spikes' [ 67]
'ItemIndex' [ 6]
>> displayRows(t_db(1, :))
ans =
'NaF' [ 125]
'NaP' [ 1]
'Kv2' [ 0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [ 0.0800]
'SK' [ 2]
'CaHVA' [ 0.3000]
'HCN' [ 1]
'morph' [ 3]
'trial' [ 1]
'pAcip' [ 0]
'ISICV' [ 0.7904]
'SpikeRate' [ 50.9949]
'SpikeRateISI' [ 50.1756]
'avg' [-57.2907]
'max' [ 32.3271]
'min' [-64.0950]
'SpikeAmplitudeMean' [ 77.7479]
'SpikeAmplitudeMode' [ 74.4354]
'SpikeAmplitudeSTD' [ 3.3077]
'SpikeBaseWidthMean' [ 1.6084]
'SpikeBaseWidthMode' [ 1.5500]
'SpikeBaseWidthSTD' [ 0.0860]
'SpikeDAHPMagMean' [ NaN]
'SpikeDAHPMagMode' [ 0]
'SpikeDAHPMagSTD' [ NaN]
'SpikeFallTimeMean' [ 1.1020]
'SpikeFallTimeMode' [ 1.0955]
'SpikeFallTimeSTD' [ 0.1584]
'SpikeFixVWidthMean' [ 0.7277]
'SpikeFixVWidthMode' [ 0.7402]
'SpikeFixVWidthSTD' [ 0.0159]
'SpikeHalfVmMean' [ -9.3919]
'SpikeHalfVmMode' [-10.6712]
'SpikeHalfVmSTD' [ 1.0918]
'SpikeHalfWidthMean' [ 0.7195]
'SpikeHalfWidthMode' [ 0.7194]
'SpikeHalfWidthSTD' [ 0.0031]
'SpikeInitTimeMean' [ 3.8440]
'SpikeInitTimeMode' [ 6.6231]
'SpikeInitTimeSTD' [ 2.7923]
'SpikeInitVmBySlopeMean' [-47.6048]
'SpikeInitVmBySlopeMode' [-48.4997]
'SpikeInitVmBySlopeSTD' [ 0.6384]
'SpikeInitVmMean' [-48.2659]
'SpikeInitVmMode' [-48.3615]
'SpikeInitVmSTD' [ 0.7566]
'SpikeMaxAHPMean' [ 11.8467]
'SpikeMaxAHPMode' [ 7.3180]
'SpikeMaxAHPSTD' [ 4.1740]
'SpikeMaxVmSlopeMean' [310.5354]
'SpikeMaxVmSlopeMode' [309.7685]
'SpikeMaxVmSlopeSTD' [ 23.5819]
'SpikeMinTimeMean' [ 12.9380]
'SpikeMinTimeMode' [ 9.0595]
'SpikeMinTimeSTD' [ 4.4528]
'SpikeMinVmMean' [-60.1126]
'SpikeMinVmMode' [-56.5479]
'SpikeMinVmSTD' [ 3.5690]
'SpikePeakVmMean' [ 29.4820]
'SpikePeakVmMode' [ 32.0717]
'SpikePeakVmSTD' [ 2.6985]
'SpikeRiseTimeMean' [ 0.4864]
'SpikeRiseTimeMode' [ 0.4502]
'SpikeRiseTimeSTD' [ 0.0367]
'Spikes' [ 51]
'ItemIndex' [ 1]
>> a_fs = params_tests_fileset('../../../data/*_0_pAcip.bin', 1e-4, 1e-3, 'test w/o readgenesis', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes', 'file_endian', 'b'))
params_tests_fileset, test w/o readgenesis
ans =
path: '../../../data'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, test w/o readgenesis
ans =
list: {1x6 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'test w/o readgenesis'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
file_endian: 'b'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 841827934361976490164224 Hz
{Warning: Error caught during database creation, before starting to read items:
Error using ==> readgenbin at 74
Frequency outside bounds 1 - 1,000,000 Hz. Make sure to select the correct
endian parameter!. Returning empty database.}
> In params_tests_dataset.readDBItems at 50
In params_tests_dataset.params_tests_db at 60
Stack trace:
/home/cengiz/work/pandora/functions/readgenbin.m at 74 (readgenbin).
/home/cengiz/work/pandora/classes/@trace/trace.m at 175 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/trace.m at 57 (trace).
/home/cengiz/work/pandora/classes/@params_tests_fileset/loadItemProfile.m at 35 (loadItemProfile).
/home/cengiz/work/pandora/classes/@params_tests_dataset/testNames.m at 40 (testNames).
/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m at 41 (readDBItems).
/home/cengiz/work/pandora/classes/@params_tests_dataset/params_tests_db.m at 60 (params_tests_db).
Error in ==> params_tests_dataset.readDBItems at 35
if ~ exist('items', 'var')
{??? Output argument "docs" (and maybe others) not assigned during call to
"/home/cengiz/work/pandora/classes/@params_tests_dataset/readDBItems.m>readDBItems".
Error in ==> params_tests_dataset.params_tests_db at 60
[params, param_names, tests, test_names, a_doc] = readDBItems(args{:});
}
>> a_fs = params_tests_fileset('../../../data/*_0_pAcip.bin', 1e-4, 1e-3, 'test w/o readgenesis', struct('trace_time_start', 10000, 'scale_y', 1e3, 'param_row_filename', 'naf_doublet.par', 'param_desc_filename', 'naf_doublet.txt', 'profile_method_name', 'getProfileAllSpikes'))
params_tests_fileset, test w/o readgenesis
ans =
path: '../../../data'
params_tests_dataset: [1x1 params_tests_dataset]
params_tests_dataset, test w/o readgenesis
ans =
list: {1x6 cell}
dt: 1.0000e-04
dy: 1.0000e-03
id: 'test w/o readgenesis'
props: [1x1 struct]
Optional properties of params_tests_dataset:
ans =
trace_time_start: 10000
scale_y: 1000
param_row_filename: 'naf_doublet.par'
param_desc_filename: 'naf_doublet.txt'
profile_method_name: 'getProfileAllSpikes'
param_rows: [6x11 double]
param_names: {1x11 cell}
>> t_db = params_tests_db(a_fs, 1:6)
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.testNames at 40
In params_tests_dataset.readDBItems at 41
In params_tests_dataset.params_tests_db at 60
Reading:
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_1_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Not a spike: test w/o readgenesis(1) ( spike#1).}
> In trace.analyzeSpikesInPeriod at 72
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#11)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(1) ( spike#45)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_2_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(2) ( spike#34)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_3_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#9)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: vPP curvature ignored, v' > 15 for test w/o readgenesis(3) ( spike#21)}
> In spike_shape.calcInitVmMaxCurvPhasePlane at 253
In spike_shape.calcInitVm at 117
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Warning: Max curv phase plane method signal failure, falling back to
supersampled threshold method.}
> In spike_shape.calcInitVm at 123
In spike_shape.getResults at 81
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_4_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_5_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Use flag 'exact' in place of 'pAcip'. Flag 'pAcip'
is not valid and will not be recognized in a future version of MATLAB.}
> In strmatch at 43
In params_tests_fileset.trace at 43
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Reading ../../../data/data_6_trial_0_pAcip.bin
File start time: 0 ms
Sampling frequency: 10000.0003 Hz
Number of data columns: 1
Length: 20001 data points, up to 2000.0999 ms
Reading 20001 points, or 2000.0999 ms of data.
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
{Warning: Spike failed to repolarize.}
> In spike_shape.calcWidthFall at 74
In spike_shape.getResults at 120
In trace.analyzeSpikesInPeriod at 61
In trace.getProfileAllSpikes at 36
In params_tests_fileset.loadItemProfile at 35
In params_tests_dataset.itemResultsRow at 42
In params_tests_dataset.readDBItems at 101
In params_tests_dataset.params_tests_db at 60
Elapsed time took 5.98 seconds.
params_tests_db, test w/o readgenesis
ans =
num_params: 12
tests_db: [1x1 tests_db]
tests_db, test w/o readgenesis
6 rows in database with 68 columns, and 1 pages.
Column names:
[ 1] 'NaF'
[ 2] 'NaP'
[ 3] 'Kv2'
[ 4] 'Kv3'
[ 5] 'Kv4'
[ 6] 'KCNQ'
[ 7] 'SK'
[ 8] 'CaHVA'
[ 9] 'HCN'
[10] 'morph'
[11] 'trial'
[12] 'pAcip'
[13] 'ISICV'
[14] 'SpikeRate'
[15] 'SpikeRateISI'
[16] 'avg'
[17] 'max'
[18] 'min'
[19] 'SpikeAmplitudeMean'
[20] 'SpikeAmplitudeMode'
[21] 'SpikeAmplitudeSTD'
[22] 'SpikeBaseWidthMean'
[23] 'SpikeBaseWidthMode'
[24] 'SpikeBaseWidthSTD'
[25] 'SpikeDAHPMagMean'
[26] 'SpikeDAHPMagMode'
[27] 'SpikeDAHPMagSTD'
[28] 'SpikeFallTimeMean'
[29] 'SpikeFallTimeMode'
[30] 'SpikeFallTimeSTD'
[31] 'SpikeFixVWidthMean'
[32] 'SpikeFixVWidthMode'
[33] 'SpikeFixVWidthSTD'
[34] 'SpikeHalfVmMean'
[35] 'SpikeHalfVmMode'
[36] 'SpikeHalfVmSTD'
[37] 'SpikeHalfWidthMean'
[38] 'SpikeHalfWidthMode'
[39] 'SpikeHalfWidthSTD'
[40] 'SpikeInitTimeMean'
[41] 'SpikeInitTimeMode'
[42] 'SpikeInitTimeSTD'
[43] 'SpikeInitVmBySlopeMean'
[44] 'SpikeInitVmBySlopeMode'
[45] 'SpikeInitVmBySlopeSTD'
[46] 'SpikeInitVmMean'
[47] 'SpikeInitVmMode'
[48] 'SpikeInitVmSTD'
[49] 'SpikeMaxAHPMean'
[50] 'SpikeMaxAHPMode'
[51] 'SpikeMaxAHPSTD'
[52] 'SpikeMaxVmSlopeMean'
[53] 'SpikeMaxVmSlopeMode'
[54] 'SpikeMaxVmSlopeSTD'
[55] 'SpikeMinTimeMean'
[56] 'SpikeMinTimeMode'
[57] 'SpikeMinTimeSTD'
[58] 'SpikeMinVmMean'
[59] 'SpikeMinVmMode'
[60] 'SpikeMinVmSTD'
[61] 'SpikePeakVmMean'
[62] 'SpikePeakVmMode'
[63] 'SpikePeakVmSTD'
[64] 'SpikeRiseTimeMean'
[65] 'SpikeRiseTimeMode'
[66] 'SpikeRiseTimeSTD'
[67] 'Spikes'
[68] 'ItemIndex'
Optional properties of tests_db:
ans =
doc: [1x1 doc_multi]
>> displayRows(t_db(1, :))
ans =
'NaF' [ 125]
'NaP' [ 1]
'Kv2' [ 0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [ 0.0800]
'SK' [ 2]
'CaHVA' [ 0.3000]
'HCN' [ 1]
'morph' [ 3]
'trial' [ 1]
'pAcip' [ 0]
'ISICV' [ 0.7904]
'SpikeRate' [ 50.9949]
'SpikeRateISI' [ 50.1756]
'avg' [-57.2907]
'max' [ 32.3271]
'min' [-64.0950]
'SpikeAmplitudeMean' [ 77.7479]
'SpikeAmplitudeMode' [ 74.4354]
'SpikeAmplitudeSTD' [ 3.3077]
'SpikeBaseWidthMean' [ 1.6084]
'SpikeBaseWidthMode' [ 1.5500]
'SpikeBaseWidthSTD' [ 0.0860]
'SpikeDAHPMagMean' [ NaN]
'SpikeDAHPMagMode' [ 0]
'SpikeDAHPMagSTD' [ NaN]
'SpikeFallTimeMean' [ 1.1020]
'SpikeFallTimeMode' [ 1.0955]
'SpikeFallTimeSTD' [ 0.1584]
'SpikeFixVWidthMean' [ 0.7277]
'SpikeFixVWidthMode' [ 0.7402]
'SpikeFixVWidthSTD' [ 0.0159]
'SpikeHalfVmMean' [ -9.3919]
'SpikeHalfVmMode' [-10.6712]
'SpikeHalfVmSTD' [ 1.0918]
'SpikeHalfWidthMean' [ 0.7195]
'SpikeHalfWidthMode' [ 0.7194]
'SpikeHalfWidthSTD' [ 0.0031]
'SpikeInitTimeMean' [ 3.8440]
'SpikeInitTimeMode' [ 6.6231]
'SpikeInitTimeSTD' [ 2.7923]
'SpikeInitVmBySlopeMean' [-47.6048]
'SpikeInitVmBySlopeMode' [-48.4997]
'SpikeInitVmBySlopeSTD' [ 0.6384]
'SpikeInitVmMean' [-48.2659]
'SpikeInitVmMode' [-48.3615]
'SpikeInitVmSTD' [ 0.7566]
'SpikeMaxAHPMean' [ 11.8467]
'SpikeMaxAHPMode' [ 7.3180]
'SpikeMaxAHPSTD' [ 4.1740]
'SpikeMaxVmSlopeMean' [310.5354]
'SpikeMaxVmSlopeMode' [309.7685]
'SpikeMaxVmSlopeSTD' [ 23.5819]
'SpikeMinTimeMean' [ 12.9380]
'SpikeMinTimeMode' [ 9.0595]
'SpikeMinTimeSTD' [ 4.4528]
'SpikeMinVmMean' [-60.1126]
'SpikeMinVmMode' [-56.5479]
'SpikeMinVmSTD' [ 3.5690]
'SpikePeakVmMean' [ 29.4820]
'SpikePeakVmMode' [ 32.0717]
'SpikePeakVmSTD' [ 2.6985]
'SpikeRiseTimeMean' [ 0.4864]
'SpikeRiseTimeMode' [ 0.4502]
'SpikeRiseTimeSTD' [ 0.0367]
'Spikes' [ 51]
'ItemIndex' [ 1]
>> displayRows(t_db(6, :))
ans =
'NaF' [ 250]
'NaP' [ 1]
'Kv2' [ 0.1000]
'Kv3' [ 10]
'Kv4' [ 10]
'KCNQ' [ 0.0800]
'SK' [ 2]
'CaHVA' [ 0.3000]
'HCN' [ 1]
'morph' [ 3]
'trial' [ 6]
'pAcip' [ 0]
'ISICV' [ 0.0065]
'SpikeRate' [ 66.9933]
'SpikeRateISI' [ 67.3263]
'avg' [ -53.4956]
'max' [ 37.4306]
'min' [ -60.7455]
'SpikeAmplitudeMean' [ 86.7655]
'SpikeAmplitudeMode' [ 86.8883]
'SpikeAmplitudeSTD' [ 0.2730]
'SpikeBaseWidthMean' [ 1.5364]
'SpikeBaseWidthMode' [ 1.5189]
'SpikeBaseWidthSTD' [ 0.0285]
'SpikeDAHPMagMean' [ NaN]
'SpikeDAHPMagMode' [ 0]
'SpikeDAHPMagSTD' [ NaN]
'SpikeFallTimeMean' [ 1.1000]
'SpikeFallTimeMode' [ 1.1000]
'SpikeFallTimeSTD' [2.2377e-16]
'SpikeFixVWidthMean' [ 0.7644]
'SpikeFixVWidthMode' [ 0.7561]
'SpikeFixVWidthSTD' [ 0.0055]
'SpikeHalfVmMean' [ -5.9379]
'SpikeHalfVmMode' [ -5.7069]
'SpikeHalfVmSTD' [ 0.2984]
'SpikeHalfWidthMean' [ 0.7126]
'SpikeHalfWidthMode' [ 0.7164]
'SpikeHalfWidthSTD' [ 0.0032]
'SpikeInitTimeMean' [ 6.6442]
'SpikeInitTimeMode' [ 6.6423]
'SpikeInitTimeSTD' [ 0.0052]
'SpikeInitVmBySlopeMean' [ -48.5184]
'SpikeInitVmBySlopeMode' [ -48.8366]
'SpikeInitVmBySlopeSTD' [ 0.2681]
'SpikeInitVmMean' [ -49.3261]
'SpikeInitVmMode' [ -49.3164]
'SpikeInitVmSTD' [ 0.3770]
'SpikeMaxAHPMean' [ 11.3669]
'SpikeMaxAHPMode' [ 11.4299]
'SpikeMaxAHPSTD' [ 0.3800]
'SpikeMaxVmSlopeMean' [ 365.3979]
'SpikeMaxVmSlopeMode' [ 383.2894]
'SpikeMaxVmSlopeSTD' [ 21.2558]
'SpikeMinTimeMean' [ 9.1031]
'SpikeMinTimeMode' [ 9.1005]
'SpikeMinTimeSTD' [ 0.0174]
'SpikeMinVmMean' [ -60.6838]
'SpikeMinVmMode' [ -60.6741]
'SpikeMinVmSTD' [ 0.0130]
'SpikePeakVmMean' [ 37.4395]
'SpikePeakVmMode' [ 37.6167]
'SpikePeakVmSTD' [ 0.2640]
'SpikeRiseTimeMean' [ 0.4364]
'SpikeRiseTimeMode' [ 0.4189]
'SpikeRiseTimeSTD' [ 0.0281]
'Spikes' [ 67]
'ItemIndex' [ 6]
>> exit
Process MATLAB finished
