POC Breath using SMD commercial sensors
Dependencies: iAQ_Core Adafruit_SGP30_mbed mbed BME680
main.cpp
- Committer:
- christodoulos
- Date:
- 2020-05-01
- Revision:
- 6:f6faf142e5fc
- Parent:
- 5:646a7e58989e
- Child:
- 7:f37620a76a1d
File content as of revision 6:f6faf142e5fc:
#include "mbed.h" #include "flow.h" #include <math.h> ///////////////////////// // In this version of the program developed for the Breath project, flow and CO2, as well as 8 channel sensors, // are measured in a separate .h file called: "flow.h" which is included in the // main code. So 10 sets of data is streamed using a serial connection (TTL cable or Bluetooth) // without any intruption. // This version is especially suitable to be used for KST. // Also, a solenoid would be turned on and off based on calculating the standard deviation in CO2 profile. // // START POINT: calculates SD for 9 samples of CO2, if it's grater than 0.02 it enables the solenoid. // END POINT: calculates SD for 9 samples of CO2, if it's grater thatn 0.05 it disables the solenoid. // // You can easily change the threshold of Standard deviation to detect plateau // // Generated by: Mehrnaz Javadipour ////////////////////////// Serial ttl(PC_12,PD_2); //TTL cable TX,RX DigitalOut sol(PC_5); //Solenoid: Digital Output PwmOut led(PB_6); Timer stream; int main() { ttl.baud(115200); //baudrate for the serial connection, 9600 for hc05 115200 for rn ttl.printf("$");//enter command mode only for rn wait(0.1); ttl.printf("$$");//enter command mode wait(0.5); ttl.printf("SN,POC Breath\r");//set new name wait(0.5); ttl.printf("SS,C0\r");//set transparent uart wait(0.5); ttl.printf("&,6146DB234067\r");//Assign mac wait(0.5); ttl.printf("---\r");//enter data mode wait(0.5); flow(); //calling flow from flow.h carbon(); //calling CO2 from flow.h s1(); //calling 8 channels from flow.h s2(); s3(); s4(); s5(); s6(); s7(); s8(); getTemp(); //calling Temperature from flow.h ////////////////////////////// // I defined a flag for each section of specific functions, so by enabling the // flag the section starts and by disabling the flag it finishes the section. // at the end of the program, I reset the flags so it would be ready for the next loop. ///////////////////////////// int bf=0; //FLAG for detecting base flow int i=0; float bfArray[4]; //sampling flow for finding the average base flow float sf=0; //sum of flow samples for calculating base flow float fv=0; //final value of base flow int measurement_started=0; //FLAG for starting calculations after detecting breath int solstart=0; //FLAG for starting calculations for detecting plateau int m=0; int myArray[9]; //sampling 9 values of CO2 unsigned int sum=0; //sum of 9 samples of CO2 int avg=0; //average of 9 samples of CO2 int difSum=0; //used for the Standard deviation algorithm long double var=0.0; //used for the Standard deviation algorithm float sigma=0.0; //final value for standar deviation int flags=0; //FLAG for keep taking samples from CO2 profile when it's too early to detect plateau int solend=0; //FLAG for ending calculations for detecting plateau unsigned int sum2=0; //same as before; used for finding standard deviation long double var2=0.0; float sigma2=0.0; int difSum2=0; int avg2=0; int flage=0; //FLAG for keep taking samples from CO2 profile when it's too early to finish plateau int fin=0; wait(1); sol=1;//sol off 1 while(1) { //led=0.4f; //an LED is fully turned on at the beginning, the brightness will be reduced when the plateau is detected. //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor wait(0.01); if (bf==0) { //finding base flow before breath for(i=0; i<4; i++) { bfArray[i]=flow(); sf+=bfArray[i]; } fv=sf/4; //fv=fv+0.2; fv=0.4; //ttl.printf("set\n"); bf=1; } //Starts calculations when it detects breathing into the device: if ((flow()>fv) and (measurement_started ==0)) { stream.start(); measurement_started = 1; } //Starts detecting plateau: if ((measurement_started == 1) and (solstart==0)) { //Takes 9 samples of CO2: //I have also included printing the values inside the loops so we don't loose any data during calculatins. for(m=0; m<9; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor myArray[m]=carbon(); wait(0.1); } while(flags==0) { //While "flags" is enabled, keeps calculating the standard deviation. for(int m=0; m<9; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor sum+=myArray[m]; wait(0.1); } avg=sum/9; for(int m=0; m<9; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor difSum+=(myArray[m]-avg)*(myArray[m]-avg); //Find sum of difference between value X and mean wait(0.1); } var=difSum/9; sigma=sqrt(var); if (sigma<0.02) { //if SD is less than 0.02 it means that it is too early to start the plateau //So we shift all but the first sample and define the new set of arrays: for(int m=0; m<8; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor myArray[m]=myArray[m+1]; //Shift all CO2 values to the left by 1 value wait(0.1); } myArray[8]=carbon(); //assign a new value for the 9th sample } //The new set of arrays are now generated and is sent back to be used for preveious SD calculations. //If sigma for the new set is still small, a newer set will be generated and replaced //Otherwise, it's accepted and will turn on the solenoid: else { sol=0; //Solenoid is ON 0 //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), 100.00,s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), 0.00,s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor, CHANGED CO2 TO 0 //led=0.4f; //The brightness is reduced to half during the plateau wait(0.1); flags=1; //breakes the while loop } } solend=1; //prepares the next section for finishing the plateau solstart =1; } if ((measurement_started == 1) and (solend==1)) { // same process happens for finishing the plateau: for(m=0; m<9; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor myArray[m]=carbon(); wait(0.1); } while(flage==0) { for(int m=0; m<9; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor sum2+=myArray[m]; wait(0.1); } avg2=sum2/9; for(int m=0; m<9; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor difSum2+=(myArray[m]-avg2)*(myArray[m]-avg2); wait(0.1); } var2=difSum2/9; sigma2=sqrt(var2); if (sigma2<0.05) { // here we defined the end threshold to be 0.05, it can be changed later based on experiment results for(int m=0; m<8; m++) { //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor, CHANGEC CO2 TO 0 myArray[m]=myArray[m+1]; wait(0.1); } myArray[8]=carbon(); } else { sol=1; //Solenoid is OFF 1 //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(), 100.00,s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), 0.00,s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor wait(0.1); flage=1; //breakes the loop } } //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(),carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor solend =0; //end of this section //led=0.4f; //LED is back to full brightness bf=0; //reset the detecting base flow flag fin=1; //enables the next section flag } if(carbon()<2.00 && fin ==1) { //User has to wait for the CO2 level to drop less than 1% before testing again. //Once it is less than 1%, all the flags and parameters used in calculations are reset //ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",getTemp(),flow(),carbon(),s1(),s2(),s3(),s4(),s5(),s6(),s7(),s8(),stream.read()); //chemical sensor ttl.printf("tt%.2f,ff%.2f,cc%.2f,sa%i,sb%i,sc%i,sd%i,se%i,sf%i,sg%i,sh%i,ti%.2f\n",0.00,flow(), carbon(),s1(),s2(),s3(),s4(),c2612S1(),c2610S1(),c2620S1(),c2602S1(),stream.read()); //commercial sensor solend =0; //end of this section stream.reset(); stream.stop(); measurement_started =0; solstart=0; sum=0; var=0.0; sigma=0.0; difSum=0; sum2=0; var2=0.0; sigma2=0.0; difSum2=0; avg2=0; avg=0; flags=0; flage=0; fin=0; } } }