classdef ECGtask_ECG_delineation_corrector < ECGtask
% ECGtask for ECGwrapper (for Matlab)
% ---------------------------------
%
% Description:
%
% Abstract class for defining ECGtask interface
%
%
% Author: Mariano Llamedo Soria (llamedom at {electron.frba.utn.edu.ar; unizar.es}
% Version: 0.1 beta
% Birthdate : 18/2/2013
% Last update: 18/2/2013
properties(GetAccess = public, Constant)
name = 'ECG_delineation_corrector';
% Require the parent Wrapper object to this task
target_units = 'Wrapper';
doPayload = true;
end
properties( GetAccess = public, SetAccess = private)
% if user = memory;
% memory_constant is the fraction respect to user.MaxPossibleArrayBytes
% which determines the maximum input data size.
% Size > 1 means that this task can handle big data structures, as
% this case.
memory_constant = realmax;
started = false;
end
properties( Access = private, Constant)
fig_hdl = 1;
cAnnotationOutputFields = { 'Pon' 'P' 'Poff' 'QRSon' 'Q' 'R' 'S' 'QRSoff' 'Ton' 'T' 'Toff'};
end
properties( Access = private )
end
properties
progress_handle
caller_variable = 'payload';
tmp_path
payload
end
methods
function obj = ECGtask_ECG_delineation_corrector(obj)
end
function Start(obj, ECG_header, ECG_annotations)
obj.started = true;
end
function payload = Process(obj, ECG, ECG_start_offset, ECG_sample_start_end_idx, ECG_header, ECG_annotations, ECG_annotations_start_end_idx )
payload = [];
obj.progress_handle.hide()
% if( ~obj.started )
% obj.Start(ECG_header);
% if( ~obj.started )
% cprintf('*[1,0.5,0]', 'Task %s unable to be started for %s.\n', obj.name, ECG_header.recname);
% return
% end
% end
this_start_end = (ECG_sample_start_end_idx + ECG_start_offset - 1);
aux_val = this_start_end ./ ECG_header.freq;
% disp_string_title(1, sprintf( 'Correcting from %s to %s', Seconds2HMS(aux_val(1)), Seconds2HMS(aux_val(2)) ) );
if( isempty(obj.payload) )
Ann_struct2 = ECG_annotations;
elseif( isstruct(obj.payload) )
if( isfield(obj.payload, 'series_quality') )
% previous cached results used as payload
Ann_struct2 = obj.payload;
else
Ann_struct = obj.payload;
AnnNames = {};
kk = 1;
for delineator_name = rowvec(fieldnames(Ann_struct))
for lead_name = rowvec(fieldnames(Ann_struct.(delineator_name{1})))
for wave_name = rowvec(fieldnames(Ann_struct.(delineator_name{1}).(lead_name{1})))
if( strcmpi(wave_name{1}, 'qrs') )
aux_val2 = diff(Ann_struct.(delineator_name{1}).(lead_name{1}).qrs) * 1/ECG_header.freq;
aux_val2 = [aux_val2(1); colvec(aux_val2) ];
bAux = Ann_struct.(delineator_name{1}).(lead_name{1}).qrs >= this_start_end(1) & Ann_struct.(delineator_name{1}).(lead_name{1}).qrs <= this_start_end(2);
aux_str = [ wave_name{1} '_' lead_name{1} '_' delineator_name{1} ];
Ann_struct2.(aux_str).time = [ colvec(Ann_struct.(delineator_name{1}).(lead_name{1}).qrs(bAux) - ECG_start_offset + 1) colvec(aux_val2(bAux))];
AnnNames(kk,:) = { aux_str 'time' };
else
switch(wave_name{1})
case 'Ptipo'
% apply a scale factor to convert a categorical value (1:N) to an interval
% of milliseconds. Then change the reference aux_val in order to deal with
% the internal treatment of QRScorrector function.
aux_val2 = Ann_struct.(delineator_name{1}).(lead_name{1}).(wave_name{1})*0.01;
aux_val = Ann_struct.(delineator_name{1}).(lead_name{1}).P - aux_val2*ECG_header.freq;
case 'Ttipo'
aux_val2 = Ann_struct.(delineator_name{1}).(lead_name{1}).(wave_name{1})*0.01;
aux_val = Ann_struct.(delineator_name{1}).(lead_name{1}).T - aux_val2*ECG_header.freq;
otherwise
aux_val2 = ( Ann_struct.(delineator_name{1}).(lead_name{1}).(wave_name{1}) - Ann_struct.(delineator_name{1}).(lead_name{1}).qrs ) * 1/ECG_header.freq;
aux_val = Ann_struct.(delineator_name{1}).(lead_name{1}).qrs;
end
bAux = Ann_struct.(delineator_name{1}).(lead_name{1}).qrs >= this_start_end(1) & Ann_struct.(delineator_name{1}).(lead_name{1}).qrs <= this_start_end(2);
aux_str = [ wave_name{1} '_' lead_name{1} '_' delineator_name{1} ];
Ann_struct2.(aux_str).time = [ colvec(aux_val(bAux) - ECG_start_offset + 1) colvec(aux_val2(bAux))];
AnnNames(kk,:) = { aux_str 'time' };
end
kk = kk + 1;
end
end
end
[~, aux_idx] = sort(AnnNames(:,1));
AnnNames = AnnNames(aux_idx,:);
% info about the series, requiered by the corrector
% software.
Ann_struct2.series_quality.AnnNames = AnnNames;
Ann_struct2.series_quality.ratios = zeros(size(AnnNames,1),1);
Ann_struct2.series_quality.estimated_labs = [];
end
else
Ann_struct2 = [];
end
if( ~isempty(ECG_start_offset) || ECG_start_offset > 1)
[~, iHours, iMins, iSeconds, iMilli ] = Seconds2HMS(ECG_start_offset/ECG_header.freq);
ECG_header.btime = datestr([2014,1,1,iHours, iMins,iSeconds], 'HH:MM:SS');
end
QRScorrector('ECG', ECG, 'QRS_annotations', Ann_struct2, 'Figure', figure(obj.fig_hdl) );
disp_string_framed('*Blue', 'User interaction required' );
aux_str = ['<a href="matlab:figure(' num2str(obj.fig_hdl) ')">figure ' num2str(obj.fig_hdl) '</a>'];
aux_str2 = '<a href="matlab:dbcont">F5 (Run)</a>';
fprintf(1, 'This ECGtask allow user interaction. Press [CTRL + G] in %s to save results and press %s to continue.\n', aux_str, aux_str2)
keyboard
% last chance to save results
if( ishandle(obj.fig_hdl) && (isempty(payload) || ~isstruct(payload)) )
disp_string_framed('*[1,0.5,0]', 'Payload variable not saved' );
fprintf(1, 'Press [CTRL + G] in %s to save results and press %s to continue.\n', aux_str, aux_str2)
keyboard
if( ~isempty(payload) && isstruct(payload) )
% save work done, to further improve in following
% invocations.
disp_string_framed('*Magenta', 'Corrections saved' );
else
disp_string_framed('*[1,0.5,0]', 'Data not saved' );
end
else
disp_string_framed('*Magenta', 'Corrections saved' );
end
if(ishandle(obj.fig_hdl))
delete(obj.fig_hdl)
end
if(~(isempty(payload) || ~isstruct(payload)))
% move QRS corrections according to the input offset
for fn = rowvec(fieldnames(payload))
if( isfield(payload.(fn{1}), 'time' ) )
payload.(fn{1}).time = payload.(fn{1}).time + ECG_start_offset - 1;
end
end
end
obj.progress_handle.show()
end
function payload = Finish(obj, payload, ECG_header)
end
function payload = Concatenate(obj, plA, plB)
if( isempty(plA) )
payload = plB;
else
fields = rowvec(unique( [rowvec(fieldnames(plA)) rowvec(fieldnames(plB))] ));
diff_fields = setdiff(fields, {'series_quality'});
for fn = diff_fields
if( isfield(plA, fn{1}) && isfield(plB, fn{1}) )
payload.(fn{1}).time = [ colvec(plA.(fn{1}).time); colvec(plB.(fn{1}).time) ];
elseif( ~isfield(plA, fn{1}) && isfield(plB, fn{1}) )
payload.(fn{1}).time = colvec(plB.(fn{1}).time);
end
end
aux_idx = find(strcmpi(fields, 'series_quality'));
if( ~isempty(aux_idx) )
if( isfield(plA, 'series_quality') && isfield(plB, 'series_quality') )
payload.series_quality.ratios = [plA.series_quality.ratios plB.series_quality.ratios];
payload.series_quality.estimated_labs = cellfun(@(a,b)( [colvec(a);colvec(b)] ) , plA.series_quality.estimated_labs, plB.series_quality.estimated_labs, 'UniformOutput', false);
payload.series_quality.AnnNames = plA.series_quality.AnnNames;
end
end
end
end
%% property restriction functions
end
methods ( Access = private )
end
end