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MatclustAndFilter.m
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MatclustAndFilter.m
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clear; close all;
exit_status=true;
throw_errors=true;
commonfilter='(.*)(?<animal>[A-Z]{2,12}[0-9]{0,2})_?';
if ~exist('animaldef.m','file')
warning('animaldef.m not found! asking user where to put files');
destination=input('Please provide a folder destination for output: ',...
's');
end
if ~exist('createAllMatclustFiles.m','file')
error('TrodesToMatlab not in path!!! ... exiting');
end
%% Process all .SPIKES folders in directory to generate matlab files
spikefiles = subdir('*.spikes');
curr_dir = pwd;
fprintf('Found %d potential spike folders! ...\n',...
numel(spikefiles));
for d = 1:numel(spikefiles)
if spikefiles(d).isdir
try
fprintf('About to process %s matclust files ...\n',...
spikefiles(d).name);
[where_to_proces, ~] = fileparts(spikefiles(d).name);
cd(where_to_proces);
% Processes the matclust files into the same .spikes folder
createAllMatclustFiles;
catch ME
processError(ME,'Matclust');
if throw_errors
rethrow(ME);
end
end
end
end
cd(curr_dir);
%% Process all .LFP into filter framework files
LFPfiles = subdir('*.LFP');
fprintf('Found %d potential LFP folders! ...\n',...
numel(LFPfiles));
if ~isempty(LFPfiles)
for d = 1:numel(LFPfiles)
if LFPfiles(d).isdir
try
fprintf('About to process %s into filter framework ...\n', ...
LFPfiles(d).name);
[where_to_proces, ~] = fileparts(LFPfiles(d).name);
cd(where_to_proces);
session = getSession(LFPfiles(d).name);
animalfilter = [commonfilter '(.*).LFP$'];
filteredstring = regexp(LFPfiles(d).name,animalfilter,'names');
animalinfo = animaldef(filteredstring.animal);
warning off; mkdir([animalinfo{2} 'EEG/']); warning on;
if exist('createNQLFPFiles.m','file')
createNQLFPFiles([animalinfo{2} 'EEG/'], animalinfo{3}, session);
elseif exist('createFilterFrameworkLFPFiles.m','file')
createFilterFrameworkLFPFiles([animalinfo{2} 'EEG/'], animalinfo{3},...
session);
else
warning('createNQLFPFiles DNE ... TrodesToMatlab potentially not on path.');
end
catch ME
processError(ME,'LFP');
if throw_errors
rethrow(ME);
end
end
end
end
end
cd(curr_dir);
%% Process all .DIO into filter framework files
DIOfiles = subdir('*.DIO');
if ~isempty(DIOfiles)
for d = 1:numel(DIOfiles)
if DIOfiles(d).isdir
try
fprintf('About to process %s into filter framework ...\n', ...
DIOfiles(d).name);
[where_to_proces, ~] = fileparts(DIOfiles(d).name);
cd(where_to_proces);
session = getSession(DIOfiles(d).name);
animalfilter = [commonfilter '(.*).DIO$'];
filteredstring = regexp(DIOfiles(d).name,animalfilter,'names');
animalinfo = animaldef(filteredstring.animal);
if exist('createNQDioFiles.m','file')
createNQDioFiles(animalinfo{2}, animalinfo{3}, session);
elseif exist('createFilterFrameworkDioFiles.m','file')
createFilterFrameworkDioFiles(animalinfo{2}, animalinfo{3}, ...
session);
else
warning('createNQDioFiles DNE ... TrodesToMatlab potentially not on path.');
end
catch ME
processError(ME,'DIO');
if throw_errors
rethrow(ME);
end
end
end
end
end
cd(curr_dir);
%% Process all .trodeComments into filter framework files
% TODO make only process once per session!
commentFiles = subdir('*.trodesComments');
fprintf('Found %d potential comment files! ...\n',...
numel(commentFiles));
if ~isempty(commentFiles)
for d = 1:numel(commentFiles)
if ~commentFiles(d).isdir
try
fprintf('About to process %s into filter framework ...\n', ...
commentFiles(d).name);
[where_to_proces, ~] = fileparts(commentFiles(d).name);
cd(where_to_proces);
session = getSession(commentFiles(d).name);
animalfilter = [commonfilter '(.*).trodesComments$'];
filteredstring = regexp(commentFiles(d).name,animalfilter,'names');
animalinfo = animaldef(filteredstring.animal);
if exist('createNQTaskFile.m','file')
createNQTaskFile(animalinfo{2}, animalinfo{3}, session);
if ~isempty(dir(['*_scLog.txt']))
createNQTrialFiles(animalinfo{2}, animalinfo{3}, session);
end
elseif exist('createFilterFrameworkTaskFile.m','file')
createFilterFrameworkTaskFile(animalinfo{2}, animalinfo{3},...
session);
if ~isempty(dir(['*_scLog.txt']))
createFilterFrameworkTrialFiles(animalinfo{2},animalinfo{3},...
session);
end
else
warning('createNQTaskFile DNE ... TrodesToMatlab potentially not on path.');
end
catch ME
processError(ME,'TaskTrial');
if throw_errors
rethrow(ME);
end
end
end
end
else
warning('No trodeComments files found!');
end
cd(curr_dir);
%% Process all .videoPositionTracking into filter framework files
% TODO make only process once per session!
videoTrackingFiles = subdir('*.videoPositionTracking');
fprintf('Found %d potential video tracking files! ...\n',...
numel(videoTrackingFiles));
if ~isempty(videoTrackingFiles)
for d = 1:numel(videoTrackingFiles)
if ~videoTrackingFiles(d).isdir
try
fprintf('About to process %s into filter framework ...\n', ...
videoTrackingFiles(d).name);
[where_to_proces, ~] = fileparts(videoTrackingFiles(d).name);
cd(where_to_proces);
session = getSession(videoTrackingFiles(d).name);
animalfilter = [commonfilter '(.*).videoPositionTracking$'];
filteredstring = regexp(videoTrackingFiles(d).name,animalfilter,'names');
animalinfo = animaldef(filteredstring.animal);
if exist('createNQPosFiles.m','file')
createNQPosFiles(animalinfo{2}, animalinfo{3}, session);
elseif exist('createFilterFrameworkPosFiles.m','file')
createFilterFrameworkPosFiles(animalinfo{2}, animalinfo{3}, ...
session);
else
warning('createNQPosFiles DNE ... TrodesToMatlab potentially not on path.');
end
catch ME
processError(ME,'PositionTracking');
if throw_errors
rethrow(ME);
end
end
end
end
else
warning('No video tracking files found!');
end
%% Terminate
% Compute exit status
if ~exist('ME','var') || isempty(ME)
exit_status = 0;
else
exit_status = 0;
end