PanTompkinsCMD.c

/*************************************************************************
This helper function reads in a column only input ECG file and runs the 
Pan-Tompkins algorithm on it. The output with all the details is printed in
a csv file.

Dependencies :
				- PanTompkins.h
				- PanTompkins.c

Hooman Sedghamiz, 

Jan, 2020
Updated, Feb 2021

MIT License

Copyright (c) 2022 Hooman Sedghamiz

Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal
in the Software without restriction, including without limitation the rights
to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
copies of the Software, and to permit persons to whom the Software is
furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in all
copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
SOFTWARE.
*************************************************************************/

#include <stdio.h>
#include <stdlib.h> // For exit() function
#include "PanTompkins.h"

int main(int argc, char* argv[]) {

	// --------------Input Arguments ------------------ //
	if (argc == 1 || argc > 3)
	{
		printf("\nProvide an input ecg filename!\n");
		printf("=================================\n");
		printf("Usage: PanTompkinsCMD FILENAME VERBOSITY\n\n");
		printf("Example: PanTompkinsCMD ecg.txt 1\n");
		printf("Reads ecg.txt and prints the results to both console and output file.\n\n");
		printf("Example: PanTompkinsCMD ecg.txt \n");
		printf("Reads ecg.txt but does not print to console and only prints to the file.\n");
		printf("Program prints the results in output.csv\n");
		exit(1);
	}


	int16_t delay, Rcount,s1, s2, s3, s4, s5, ThF1;
	uint16_t ThI1, SPKI, NPKI;
	int32_t RLoc, c, SampleCount;
	SampleCount = 0;

	Rcount = 0;
	errno_t err, err1;


	// -------------- Reading Input File ------------------ //
	FILE *fptr, *fptr_out;
	err  = fopen_s(&fptr, argv[1], "r");
	err1  = fopen_s(&fptr_out, "output.csv", "w");
	if( err == 0 || err1 == 0)
	{
      printf( "The file %s was opened\n", argv[1]);

	  // -------header --------//
	  fprintf_s(fptr_out, "Input,LPFilter,HPFilter,DerivativeF,SQRFilter,MVAFilter,RBeat,RunningThI1,SignalLevel,NoiseLevel,RunningThF\n");
	}
	else
	{
      printf( "The file %s was not opened\n", argv[1]);
	  exit(1);
	}



	int verbosity = atoi(argv[2]);

	
	PT_init();															// Always Initialize the Algorithm before use ---> This prepares all filters and parameters

	// ------ Pass the signal sample by sample mimicing a real-time scenario ----------- //
	while (fscanf_s(fptr, "%ld", &c) != EOF) {
		++SampleCount;
		
		delay = PT_StateMachine((int16_t) c);							// This is the main function of the algorithm

		// ------- A positive delay to current sample is returned in case of beat detection ----------- //
		if (delay != 0)
		{
			RLoc = SampleCount - (int32_t) delay;
			++Rcount;
		}
		else
		{
			RLoc = 0;
		}

		// -------- Toolbox comes with many helper functions for debugging, see PanTompkins.c for more details ---------- //
		s1 = PT_get_LPFilter_output();
		s2 = PT_get_HPFilter_output();
		s3 = PT_get_DRFilter_output();
		s4 = PT_get_SQRFilter_output();
		s5 = PT_get_MVFilter_output();

		ThI1 = PT_get_ThI1_output();
		SPKI = PT_get_SKPI_output();
		NPKI = PT_get_NPKI_output();
		ThF1 = PT_get_ThF1_output();
		
		if (verbosity)
			printf("%d,%d,%d,%d,%d,%d,%d,%d,%d,%d,%d\n", c, s1, s2, s3, s4, s5, RLoc, ThI1, SPKI, NPKI, ThF1);

		fprintf_s(fptr_out, "%d,%d,%d,%d,%d,%d,%d,%d,%d,%d,%d\n", c, s1, s2, s3, s4, s5, RLoc, ThI1, SPKI, NPKI, ThF1);
		
	}
	printf("%d beats detected\n", Rcount);
	fclose(fptr);
	fclose(fptr_out);
	return 0;
}