MAP

function Pavel_MAP1_14

% test_MAP1_14 is a general purpose test routine that can be adjusted to

% test a number of different applications of MAP1_14

%

% A range of options are supplied in the early part of the program

%

% One use of the function is to create demonstrations; filenames <demoxx>

%  to illustrate particular features

%

% #1

% Identify the file (in 'MAPparamsName') containing the model parameters

%

% #2

% Identify the kind of model required (in 'AN_spikesOrProbability').

%  A full brainstem model (spikes) can be computed or a shorter model

%  (probability) that computes only so far as the auditory nerve

%

% #3

% Choose between a tone signal or file input (in 'signalType')

%

% #4

% Set the signal rms level (in leveldBSPL)

%

% #5

% Identify the channels in terms of their best frequencies in the vector

%  BFlist.

%

% Last minute changes to the parameters fetched earlier can be made using

%  the cell array of strings 'paramChanges'.

%  Each string must have the same format as the corresponding line in the

%  file identified in 'MAPparamsName'

%

% When the demonstration is satisfactory, freeze it by renaming it <demoxx>

restorePath=path;

addpath (['..' filesep 'MAP'],    ['..' filesep 'wavFileStore'], ...

    ['..' filesep 'utilities'])

%%  #1 parameter file name

MAPparamsName='Normal';

%% #2 probability (fast) or spikes (slow) representation

AN_spikesOrProbability='spikes';

% or

% AN_spikesOrProbability='probability';

% NB probabilities are not corrected for refractory effects

%% #3 pure tone, harmonic sequence or speech file input

signalType= 'tones';

sampleRate= 100000;

duration=0.1;                 % seconds

% toneFrequency= 250:250:8000;    % harmonic sequence (Hz)

toneFrequency= 1000;            % or a pure tone (Hz8

rampDuration=.005;              % seconds

% or

% signalType= 'file';

% fileName='twister_44kHz';

%% #4 rms level

% signal details

leveldBSPL= 30;                  % dB SPL

%% #5 number of channels in the model

%   21-channel model (log spacing)

% numChannels=21;

% lowestBF=250; 	highestBF= 8000;

% BFlist=round(logspace(log10(lowestBF), log10(highestBF), numChannels));

%   or specify your own channel BFs

numChannels=1;

BFlist=toneFrequency;

%% #6 change model parameters

paramChanges=[];

% or

% Parameter changes can be used to change one or more model parameters

%  *after* the MAPparams file has been read

% This example declares only one fiber type with a calcium clearance time

% constant of 80e-6 s (HSR fiber) when the probability option is selected.

% It also removes the speed up that normally takes place for AN spikes

% It also increases the number of AN fibers computed to 500.

paramChanges={...

    'AN_IHCsynapseParams.ANspeedUpFactor=1;', ...

    'IHCpreSynapseParams.tauCa=86e-6;',...

    'AN_IHCsynapseParams.numFibers=	500;' };

%% delare 'showMap' options to control graphical output

global showMapOptions

% or (example: show everything including an smoothed SACF output

showMapOptions.printModelParameters=1;   % prints all parameters

showMapOptions.showModelOutput=1;       % plot of all stages

showMapOptions.printFiringRates=1;      % prints stage activity levels

showMapOptions.showACF=0;               % shows SACF (probability only)

showMapOptions.showEfferent=0;          % tracks of AR and MOC

showMapOptions.surfProbability=0;       % 2D plot of HSR response 

if strcmp(AN_spikesOrProbability, 'spikes')

    % avoid nonsensical options

    showMapOptions.surfProbability=0;

    showMapOptions.showACF=0;

end

if strcmp(signalType, 'file')

    % needed for labeling plot

    showMapOptions.fileName=fileName;

else

    showMapOptions.fileName=[];

end

%% Generate stimuli

dbstop if error

restorePath=path;

addpath (['..' filesep 'MAP'],    ['..' filesep 'wavFileStore'])

switch signalType

    case 'tones'

        inputSignal=createMultiTone(sampleRate, toneFrequency, ...

            leveldBSPL, duration, rampDuration);

    case 'file'

        %% file input simple or mixed

        [inputSignal sampleRate]=wavread(fileName);

        dt=1/sampleRate;

        inputSignal=inputSignal(:,1);

        targetRMS=20e-6*10^(leveldBSPL/20);

        rms=(mean(inputSignal.^2))^0.5;

        amp=targetRMS/rms;

        inputSignal=inputSignal*amp;

        silence= zeros(1,round(0.1/dt));

        inputSignal= [silence inputSignal' silence];

end

%% run the model

tic

fprintf('\n')

disp(['Signal duration= ' num2str(length(inputSignal)/sampleRate)])

disp([num2str(numChannels) ' channel model'])

disp('Computing ...')

MAP1_14(inputSignal, sampleRate, BFlist, ...

    MAPparamsName, AN_spikesOrProbability, paramChanges);

toc

% the model run is now complete. Now display the results

% the model run is now complete. Now display the results

disp(' param changes to list of parameters below')

for i=1:length(paramChanges)

    disp(paramChanges{i})

end

UTIL_showMAP(showMapOptions)

toc

path(restorePath)

function inputSignal=createMultiTone(sampleRate, toneFrequency, ...

    leveldBSPL, duration, rampDuration)

% Create pure tone stimulus

dt=1/sampleRate; % seconds

time=dt: dt: duration;

inputSignal=sum(sin(2*pi*toneFrequency'*time), 1);

amp=10^(leveldBSPL/20)*28e-6;   % converts to Pascals (peak)

inputSignal=amp*inputSignal;

% apply ramps

% catch rampTime error

if rampDuration>0.5*duration, rampDuration=duration/2; end

rampTime=dt:dt:rampDuration;

ramp=[0.5*(1+cos(2*pi*rampTime/(2*rampDuration)+pi)) ...

    ones(1,length(time)-length(rampTime))];

inputSignal=inputSignal.*ramp;

ramp=fliplr(ramp);

inputSignal=inputSignal.*ramp;

% add 10 ms silence

silence= zeros(1,round(0.03/dt));

inputSignal= [silence inputSignal silence];

function pitchModel_RM

% Modification of testMAP_14 to replicate the pitch model published

%  in JASA 2006.

%

% test_MAP1_14 is a general purpose test routine that can be adjusted to

% test a number of different applications of MAP1_14

%

% A range of options are supplied in the early part of the program

%

% One use of the function is to create demonstrations; filenames <demoxx>

%  to illustrate particular features

%

% #1

% Identify the file (in 'MAPparamsName') containing the model parameters

%

% #2

% Identify the kind of model required (in 'AN_spikesOrProbability').

%  A full brainstem model (spikes) can be computed or a shorter model

%  (probability) that computes only so far as the auditory nerve

%

% #3

% Choose between a tone signal or file input (in 'signalType')

%

% #4

% Set the signal rms level (in leveldBSPL)

%

% #5

% Identify the channels in terms of their best frequencies in the vector

%  BFlist.

%

% Last minute changes to the parameters fetched earlier can be made using

%  the cell array of strings 'paramChanges'.

%  Each string must have the same format as the corresponding line in the

%  file identified in 'MAPparamsName'

%

% When the demonstration is satisfactory, freeze it by renaming it <demoxx>

dbstop if error

restorePath=path;

addpath (['..' filesep 'MAP'],    ['..' filesep 'wavFileStore'], ...

    ['..' filesep 'utilities'])

% Pitch model modification here

global ICrate           % used to collect rate profile from showMAP temporary

rates=[]; F0count=0;

% F0s=[150 200 250];          % fundamental frequency

% harmonics= 3:5;

% F0s=[3000];          % fundamental frequency

F0s=50:5:1000;

harmonics= 1;

% F0s=150;

for F0=F0s

    F0count=F0count+1;

%%  #1 parameter file name

MAPparamsName='Normal';

%% #2 probability (fast) or spikes (slow) representation

AN_spikesOrProbability='spikes';

% or

% NB probabilities are not corrected for refractory effects

% AN_spikesOrProbability='probability';

%% #3 pure tone, harmonic sequence or speech file input

signalType= 'tones';

sampleRate= 50000;

duration=0.50;                 % seconds

% toneFrequency= 1000;            % or a pure tone (Hz8

% F0=210;

toneFrequency= F0*harmonics;  % harmonic sequence (Hz)

rampDuration=.005;              % raised cosine ramp (seconds)

% or

% signalType= 'file';

% fileName='twister_44kHz';

%% #4 rms level

% signal details

leveldBSPL= 50;                  % dB SPL

%% #5 number of channels in the model

%   21-channel model (log spacing)

numChannels=21;

lowestBF=250; 	highestBF= 8000;

BFlist=round(logspace(log10(lowestBF), log10(highestBF), numChannels));

%   or specify your own channel BFs

% numChannels=1;

BFlist=toneFrequency;

% BFlist=500;

%% #6 change model parameters

paramChanges=[];

% or

% Parameter changes can be used to change one or more model parameters

%  *after* the MAPparams file has been read

% This example declares only one fiber type with a calcium clearance time

% constant of 80e-6 s (HSR fiber) when the probability option is selected.

% paramChanges={'AN_IHCsynapseParams.ANspeedUpFactor=5;', ...

%     'IHCpreSynapseParams.tauCa=86e-6;'};

% paramChanges={'DRNLParams.rateToAttenuationFactorProb = 0;'};

% paramChanges={'IHCpreSynapseParams.tauCa=86e-6;',

%     'AN_IHCsynapseParams.numFibers=	1000;'};

% fixed MOC attenuation(using negative factor)

% paramChanges={'DRNLParams.rateToAttenuationFactorProb=-0.005;'};

% slow the CN chopping rate

% paramChanges={'IHCpreSynapseParams.tauCa= 70e-6;'...'

%     'MacGregorMultiParams.tauGk=	[0.75e-3:.0001 : 3e-3];'...

%     ' MacGregorParams.dendriteLPfreq=4000;'...

%     'MacGregorParams.tauGk=	1e-4;'...

%     'MacGregorParams.currentPerSpike=220e-8;'...

% };

paramChanges={...

    'MacGregorMultiParams.currentPerSpike=25e-9;'...

    'MacGregorMultiParams.tauGk=	[0.1e-3:.00005 : 1e-3];'...

'MacGregorParams.currentPerSpike=40e-9;'...

};

%% delare 'showMap' options to control graphical output

showMapOptions.printModelParameters=0;   % prints all parameters

showMapOptions.showModelOutput=1;       % plot of all stages

showMapOptions.printFiringRates=1;      % prints stage activity levels

showMapOptions.showACF=0;               % shows SACF (probability only)

showMapOptions.showEfferent=0;          % tracks of AR and MOC

showMapOptions.surfProbability=0;       % 2D plot of HSR response 

showMapOptions.surfSpikes=0;            % 2D plot of spikes histogram

showMapOptions.ICrates=1;               % IC rates by CNtauGk

% disable certain silly options

if strcmp(AN_spikesOrProbability, 'spikes')

    % avoid nonsensical options

    showMapOptions.surfProbability=0;

    showMapOptions.showACF=0;

else

    showMapOptions.surfSpikes=0;

end

if strcmp(signalType, 'file')

    % needed for labeling plot

    showMapOptions.fileName=fileName;

else

    showMapOptions.fileName=[];

end

%% Generate stimuli

switch signalType

    case 'tones'

        inputSignal=createMultiTone(sampleRate, toneFrequency, ...

            leveldBSPL, duration, rampDuration);

    case 'file'

        %% file input simple or mixed

        [inputSignal sampleRate]=wavread(fileName);

        dt=1/sampleRate;

        inputSignal=inputSignal(:,1);

        targetRMS=20e-6*10^(leveldBSPL/20);

        rms=(mean(inputSignal.^2))^0.5;

        amp=targetRMS/rms;

        inputSignal=inputSignal*amp;

        silence= zeros(1,round(0.1/dt));

        inputSignal= [silence inputSignal' silence];

end

%% run the model

tic

fprintf('\n')

disp(['Signal duration= ' num2str(length(inputSignal)/sampleRate)])

disp([num2str(numChannels) ' channel model'])

disp([num2str(F0) ' F0'])

disp('Computing ...')

MAP1_14(inputSignal, sampleRate, BFlist, ...

    MAPparamsName, AN_spikesOrProbability, paramChanges);

% the model run is now complete. Now display the results

UTIL_showMAP(showMapOptions, paramChanges)

%% pitch model Collect and analyse data

% ICrate is global and computed in showMAP

%  a vector of 'stage4' rates; one value for each tauCNGk

rates=[rates; ICrate];

figure(92), imagesc(rates)

ylabel ('F0 no'), xlabel('tauGk')

% figure(92), plot(rates), ylim([0 inf])

h=figure(99); CNmovie(F0count)=getframe(h);

figure(91), plot(rates'),ylim([0 inf])

pause (0.1)

path(restorePath)

end

%% show results

toc

figure(91), plot(F0s,rates'), xlabel('F0'), ylabel('rate'),ylim([0 inf])

% figure(99),clf,movie(CNmovie,1,4)

function inputSignal=createMultiTone(sampleRate, toneFrequency, ...

    leveldBSPL, duration, rampDuration)

% Create pure tone stimulus

dt=1/sampleRate; % seconds

time=dt: dt: duration;

inputSignal=sum(sin(2*pi*toneFrequency'*time), 1);

amp=10^(leveldBSPL/20)*28e-6;   % converts to Pascals (peak)

inputSignal=amp*inputSignal;

% apply ramps

% catch rampTime error

if rampDuration>0.5*duration, rampDuration=duration/2; end

rampTime=dt:dt:rampDuration;

ramp=[0.5*(1+cos(2*pi*rampTime/(2*rampDuration)+pi)) ...

    ones(1,length(time)-length(rampTime))];

inputSignal=inputSignal.*ramp;

ramp=fliplr(ramp);

inputSignal=inputSignal.*ramp;

% add 10 ms silence

silence= zeros(1,round(0.005/dt));

inputSignal= [silence inputSignal silence];