Atlas Scientific EZO logging program

By process of elimination the the compile error seems to be related to

#include <SoftwareSerial.h</ul

…and I assume this is where the code goes.

/* This example sketch puts the Mayfly board into sleep mode. It wakes up at specific times, records the temperature and battery voltage onto the microSD card, prints the data string to the serial port, and goes back to sleep. JOM 2/9/17 added power on/off to EZO board */ #include <Wire.h> #include <avr/sleep.h> #include <avr/wdt.h> #include <SPI.h> #include <SD.h> #include <SoftwareSerial.h> //we have to include the SoftwareSerial library, or else we can't use it. #include <RTCTimer.h> #include <Sodaq_DS3231.h> #include <Sodaq_PcInt.h> RTCTimer timer; #define rx 7 //D7 to Tx on EZO (white on Grove conn) #define tx 6 //D6 to Rx on EZO (yellow on Grove conn) SoftwareSerial myserial(rx, tx); //define how the soft serial port is going to work. String dataRec = ""; String sensorstring = "EZO data"; //a string to hold the data from the EZO product int currentminute; long currentepochtime = 0; float boardtemp; int batteryPin = A6; // select the input pin for the potentiometer int batterysenseValue = 0; // variable to store the value coming from the sensor float batteryvoltage; boolean sensor_stringcomplete = false; //have we received all the data from the EZO product unsigned long previousMillis = 0; // will store last time EZO was read const long interval = 5000; //RTC Interrupt pin #define RTC_PIN A7 #define RTC_INT_PERIOD EveryMinute #define SD_SS_PIN 12 //orig had pin 11 //The data log file #define FILE_NAME "datafile.txt" //Data header #define LOGGERNAME "SampleLogger" #define DATA_HEADER "DateTime_EST,Loggertime,BoardTemp_C,Battery_V" void setup() { //Initialise the serial connection Serial.begin(9600); myserial.begin(9600); //set baud rate for software serial port_3 to 9600 rtc.begin(); delay(100); pinMode(8, OUTPUT); pinMode(9, OUTPUT); pinMode(22, OUTPUT); //Power to Grove connectors sensorstring.reserve(30); //set aside some bytes for receiving data from EZO product greenred4flash(); //blink the LEDs to show the board is on setupLogFile(); setupTimer(); //Setup timer events setupSleep(); //Setup sleep mode Serial.println("Power On, running: mayfly_sleep_sample1.ino"); showTime(getNow()); } void loop() { //Update the timer timer.update(); if (currentminute % 1 == 0) // change "2" to "5" to wake up logger every 5 minutes instead { Serial.println("Multiple of 2! Initiating sensor reading and logging data to SDcard...."); recieveSensorData(); //recieve data from EZO sensor to log on sd card and display on monitor //add loop here to run n times unsigned long currentMillis = millis(); if (currentMillis - previousMillis >= interval) { previousMillis = currentMillis; // save the last time you blinked the LED myserial.print("r\r"); // if its time then send "r \r" to the EZO product // digitalWrite(greenPin, LEDstate); // LEDstate = !LEDstate; // digitalWrite(redPin, LEDstate); } /* dataRec = createDataRecord(); //Save the data record to the log file logData(dataRec); //Echo the data to the serial connection //Serial.println(); Serial.print("Data Record: "); Serial.println(dataRec); String dataRec = ""; */ } delay(1000); //Sleep systemSleep(); } void showTime(uint32_t ts) { //Retrieve and display the current date/time String dateTime = getDateTime(); //Serial.println(dateTime); } void setupTimer() { //Schedule the wakeup every minute timer.every(1, showTime); //Instruct the RTCTimer how to get the current time reading timer.setNowCallback(getNow); } void wakeISR() { //Leave this blank } void setupSleep() { pinMode(RTC_PIN, INPUT_PULLUP); PcInt::attachInterrupt(RTC_PIN, wakeISR); //Setup the RTC in interrupt mode rtc.enableInterrupts(RTC_INT_PERIOD); //Set the sleep mode set_sleep_mode(SLEEP_MODE_PWR_DOWN); } void systemSleep() { //This method handles any sensor specific sleep setup sensorsSleep(); //Wait until the serial ports have finished transmitting Serial.flush(); // Serial1.flush(); //The next timed interrupt will not be sent until this is cleared rtc.clearINTStatus(); //Disable ADC ADCSRA &= ~_BV(ADEN); //Sleep time noInterrupts(); sleep_enable(); interrupts(); sleep_cpu(); sleep_disable(); //Enbale ADC ADCSRA |= _BV(ADEN); //This method handles any sensor specific wake setup sensorsWake(); } void sensorsSleep() { digitalWrite(22, false); //Turn off power to EZO ckt } void sensorsWake() { digitalWrite(22, true); //Turn on power to EZO ckt delay(10000); //replace with EZO code for auto r\r n times } String getDateTime() { String dateTimeStr; //Create a DateTime object from the current time DateTime dt(rtc.makeDateTime(rtc.now().getEpoch())); currentepochtime = (dt.get()); //Unix time in seconds currentminute = (dt.minute()); //Convert it to a String dt.addToString(dateTimeStr); return dateTimeStr; } uint32_t getNow() { currentepochtime = rtc.now().getEpoch(); return currentepochtime; } void greenred4flash() { for (int i = 1; i <= 4; i++) { digitalWrite(8, HIGH); digitalWrite(9, LOW); delay(50); digitalWrite(8, LOW); digitalWrite(9, HIGH); delay(50); } digitalWrite(9, LOW); } void setupLogFile() { //Initialise the SD card if (!SD.begin(SD_SS_PIN)) { Serial.println("Error: SD card failed to initialise or is missing."); //Hang // while (true); } //Check if the file already exists bool oldFile = SD.exists(FILE_NAME); //Open the file in write mode File logFile = SD.open(FILE_NAME, FILE_WRITE); //Add header information if the file did not already exist if (!oldFile) { logFile.println(LOGGERNAME); logFile.println(DATA_HEADER); } //Close the file to save it logFile.close(); } void logData(String rec) { //Re-open the file File logFile = SD.open(FILE_NAME, FILE_WRITE); //Write the CSV data logFile.println(rec); //Close the file to save it logFile.close(); } void recieveSensorData() { if (myserial.available() > 0) { //if we see that the EZO product has sent a character. char inchar = (char)myserial.read(); //get the char we just received sensorstring += inchar; if (inchar == '\r') { sensor_stringcomplete = true; //if the incoming character is a <CR>, set the flag } } if (sensor_stringcomplete) { //if a string from the EZO product has been received //in its entirety dataRec = createDataRecord(); logData(dataRec); //Save the data record to the log file Serial.print(" "); Serial.println(dataRec); sensorstring = ""; //clear the string: sensor_stringcomplete = false; //reset the flag used to tell if we have received a } } String createDataRecord() { //Create a String type data record in csv format //TimeDate, Loggertime,Temp_DS, Diff1, Diff2, boardtemp String data = getDateTime(); data += ","; rtc.convertTemperature(); //convert current temperature into registers boardtemp = rtc.getTemperature(); //Read temperature sensor value batterysenseValue = analogRead(batteryPin); batteryvoltage = (3.3 / 1023.) * 1.47 * batterysenseValue; data += currentepochtime; data += ","; addFloatToString(data, boardtemp, 3, 1); //float data += ","; addFloatToString(data, batteryvoltage, 4, 2); data += " , "; //adds a comma between values data += sensorstring; //adds pH to the data string return data; } static void addFloatToString(String & str, float val, char width, unsigned char precision) { char buffer[10]; dtostrf(val, width, precision, buffer); str += buffer; }

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/*   This example sketch puts the Mayfly board into sleep mode.  It wakes up at specific times,   records the temperature and battery voltage onto the microSD card, prints the data string   to the serial port, and goes back to sleep.   JOM 2/9/17 added power on/off to EZO board   */   #include <Wire.h> #include <avr/sleep.h> #include <avr/wdt.h> #include <SPI.h> #include <SD.h> #include <SoftwareSerial.h>  //we have to include the SoftwareSerial library, or else we can't use it.   #include <RTCTimer.h> #include <Sodaq_DS3231.h> #include <Sodaq_PcInt.h>   RTCTimer timer;   #define rx 7                 //D7 to Tx on EZO (white on Grove conn) #define tx 6                 //D6 to Rx on EZO (yellow on Grove conn) SoftwareSerial myserial(rx, tx);   //define how the soft serial port is going to work. String dataRec = ""; String sensorstring = "EZO data";            //a string to hold the data from the EZO product   int currentminute; long currentepochtime = 0; float boardtemp;   int batteryPin = A6;    // select the input pin for the potentiometer int batterysenseValue = 0;  // variable to store the value coming from the sensor float batteryvoltage; boolean sensor_stringcomplete = false; //have we received all the data from the EZO product unsigned long previousMillis = 0;       // will store last time EZO was read const long interval = 5000;   //RTC Interrupt pin #define RTC_PIN A7 #define RTC_INT_PERIOD EveryMinute   #define SD_SS_PIN 12  //orig had pin 11   //The data log file #define FILE_NAME "datafile.txt"   //Data header #define LOGGERNAME "SampleLogger" #define DATA_HEADER "DateTime_EST,Loggertime,BoardTemp_C,Battery_V"   void setup() {   //Initialise the serial connection   Serial.begin(9600);   myserial.begin(9600);            //set baud rate for software serial port_3 to 9600   rtc.begin();   delay(100);   pinMode(8, OUTPUT);   pinMode(9, OUTPUT);   pinMode(22, OUTPUT);            //Power to Grove connectors   sensorstring.reserve(30);         //set aside some bytes for receiving data from EZO product     greenred4flash();    //blink the LEDs to show the board is on     setupLogFile();     setupTimer();        //Setup timer events     setupSleep();        //Setup sleep mode     Serial.println("Power On, running: mayfly_sleep_sample1.ino");   showTime(getNow()); }   void loop() {   //Update the timer   timer.update();     if (currentminute % 1 == 0)  // change "2" to "5" to wake up logger every 5 minutes instead   { Serial.println("Multiple of 2!   Initiating sensor reading and logging data to SDcard....");     recieveSensorData(); //recieve data from EZO sensor to log on sd card and display on monitor   //add loop here to run n times   unsigned long currentMillis = millis();   if (currentMillis - previousMillis >= interval)   {     previousMillis = currentMillis;   // save the last time you blinked the LED     myserial.print("r\r");             // if its time then send "r \r" to the EZO product //    digitalWrite(greenPin, LEDstate); //    LEDstate = !LEDstate; //    digitalWrite(redPin, LEDstate);   }   /*         dataRec = createDataRecord();         //Save the data record to the log file         logData(dataRec);           //Echo the data to the serial connection         //Serial.println();         Serial.print("Data Record: ");         Serial.println(dataRec);         String dataRec = "";    */   }     delay(1000);   //Sleep   systemSleep(); }   void showTime(uint32_t ts) {   //Retrieve and display the current date/time   String dateTime = getDateTime();   //Serial.println(dateTime); }   void setupTimer() {     //Schedule the wakeup every minute   timer.every(1, showTime);     //Instruct the RTCTimer how to get the current time reading   timer.setNowCallback(getNow);   }   void wakeISR() {   //Leave this blank }   void setupSleep() {   pinMode(RTC_PIN, INPUT_PULLUP);   PcInt::attachInterrupt(RTC_PIN, wakeISR);     //Setup the RTC in interrupt mode   rtc.enableInterrupts(RTC_INT_PERIOD);     //Set the sleep mode   set_sleep_mode(SLEEP_MODE_PWR_DOWN); }   void systemSleep() {   //This method handles any sensor specific sleep setup   sensorsSleep();     //Wait until the serial ports have finished transmitting   Serial.flush();   //  Serial1.flush();     //The next timed interrupt will not be sent until this is cleared   rtc.clearINTStatus();     //Disable ADC   ADCSRA &= ~_BV(ADEN);     //Sleep time   noInterrupts();   sleep_enable();   interrupts();   sleep_cpu();   sleep_disable();     //Enbale ADC   ADCSRA |= _BV(ADEN);     //This method handles any sensor specific wake setup   sensorsWake(); }   void sensorsSleep() {   digitalWrite(22, false);         //Turn off power to EZO ckt }   void sensorsWake() {   digitalWrite(22, true);         //Turn on power to EZO ckt   delay(10000);  //replace with EZO code for auto r\r n times   }   String getDateTime() {   String dateTimeStr;     //Create a DateTime object from the current time   DateTime dt(rtc.makeDateTime(rtc.now().getEpoch()));     currentepochtime = (dt.get());    //Unix time in seconds     currentminute = (dt.minute());   //Convert it to a String   dt.addToString(dateTimeStr);   return dateTimeStr; }   uint32_t getNow() {   currentepochtime = rtc.now().getEpoch();   return currentepochtime; }   void greenred4flash() {   for (int i = 1; i <= 4; i++) {     digitalWrite(8, HIGH);     digitalWrite(9, LOW);     delay(50);     digitalWrite(8, LOW);     digitalWrite(9, HIGH);     delay(50);   }   digitalWrite(9, LOW); }     void setupLogFile() {   //Initialise the SD card   if (!SD.begin(SD_SS_PIN))   {     Serial.println("Error: SD card failed to initialise or is missing.");     //Hang     //  while (true);   }     //Check if the file already exists   bool oldFile = SD.exists(FILE_NAME);     //Open the file in write mode   File logFile = SD.open(FILE_NAME, FILE_WRITE);     //Add header information if the file did not already exist   if (!oldFile)   {     logFile.println(LOGGERNAME);     logFile.println(DATA_HEADER);   }     //Close the file to save it   logFile.close(); }     void logData(String rec) {   //Re-open the file   File logFile = SD.open(FILE_NAME, FILE_WRITE);     //Write the CSV data   logFile.println(rec);     //Close the file to save it   logFile.close(); }     void recieveSensorData() {   if (myserial.available() > 0) {        //if we see that the EZO product has sent a character.     char inchar = (char)myserial.read(); //get the char we just received     sensorstring += inchar;     if (inchar == '\r') {       sensor_stringcomplete = true;     //if the incoming character is a <CR>, set the flag     }   }   if (sensor_stringcomplete) {          //if a string from the EZO product has been received     //in its entirety     dataRec = createDataRecord();     logData(dataRec);            //Save the data record to the log file     Serial.print("  ");     Serial.println(dataRec);     sensorstring = "";    //clear the string:     sensor_stringcomplete = false;       //reset the flag used to tell if we have received a   } }   String createDataRecord() {   //Create a String type data record in csv format   //TimeDate, Loggertime,Temp_DS, Diff1, Diff2, boardtemp   String data = getDateTime();   data += ",";       rtc.convertTemperature();          //convert current temperature into registers   boardtemp = rtc.getTemperature(); //Read temperature sensor value     batterysenseValue = analogRead(batteryPin);   batteryvoltage = (3.3 / 1023.) * 1.47 * batterysenseValue;     data += currentepochtime;   data += ",";     addFloatToString(data, boardtemp, 3, 1);    //float   data += ",";   addFloatToString(data, batteryvoltage, 4, 2);   data += " , ";                 //adds a comma between values   data += sensorstring;     //adds pH to the data string     return data; }     static void addFloatToString(String & str, float val, char width, unsigned char precision) {   char buffer[10];   dtostrf(val, width, precision, buffer);   str += buffer; }

Maybe I should put all of my code in the sensorWake() function…

I tried the NewSoftSerial.h library, which I understand uses interupts instead of polling, and still no joy.

I think I have run out of options so any suggestions would be appreciated!

I have version 0.3 and it looks like I would cut the trace at JP1 but would then have to wire the int pin to D10 since there is only two pads at JP1. I think I can add the wire with out making too much of a mess. Will this work? I’ll also give the software fix a try.

Any updates on Amazon stock and protoshield availability?

Thanks for all your help!

Thanks, that’s what I did and my program now compiles but doesn’t work but its progress and I’m learning.

Btw, the libraries.zip gave me a corrupt file error but loading the two _Mod libraries separately worked.

Is the Decagon code that was used in the seminar available? That might help me understand the deep sleep mode better.

I would appreciate help on a problem with my code derived from the Mayfly-sleep.ino example. I am using the SoftwareSerialMod.h library as recommended to resolve a pin conflict. However, when I activate myserial.begin(9600) the program does

not

go into sleep mode.

attached is my code:

You assume correctly. When operating correctly the red power LED3 is off during sleep mode. I just retested with my sensor disconnected and works properly with myserial.begin(9600) active. Therefor my problem seems to be when the sensor is connected and returning data.

I need to do a bit more trouble shooting. The objective is to wake the mayfly, turn on the sensor and let it collect n samples of data (1 per second) then go to sleep. A possible related problem is that the tx pin (10) needs to be set low when in sleep mode otherwise it feeds Vcc to the sensor.

I’ll report back after some further testing.

Thanks, Shannon

I finally solved the never-sleep problem. The problem seems to be related to the slow decay of the power to the Grove connector. With the sensor connected the decay is approximately 50ms. In the senosrSleep() function the power and rx/tx are turned off but the Vcc voltage doesn’t get a chance to decay before this function is exited which seems to cause an immediate wakeup. I added a 100ms delay to that function and now seems to work as planned.

I am not sure what causes the immediate wake up but must be related to the residual voltage on the pwr pin. With the sensor disconnected the code works with out the delay probably because there is no capacitance to hold up the voltage.

I cleaned up the code a bit and here is rev 1.0