File content as of revision 27:c53dd84c38aa:

#include "mbed.h"
#include "HIDScope.h"
#include "BiQuad.h"
Serial pc(USBTX, USBRX);
InterruptIn but1(PTC6);

BiQuad bq1 (0.881889334678067,  -1.76377866935613,   0.8818893346780671,  -1.77069673005903,   0.797707797506027);

BiQuad bq2 (0.000198358203463849,    0.000396716406927699,    0.000198358203463849, -1.96262073248799,   0.963423352820821);


BiQuadChain bqc;


//Define objects
AnalogIn    emg0( A0 );
AnalogIn    emg1( A1 );

Ticker      sample_timer;
Ticker      calibration_timer;
HIDScope    scope( 3 );
DigitalOut  led(LED2);

/** Sample function
 * this function samples the emg and sends it to HIDScope
 **/
float filter_value;

void sample()
{
    /* Set the sampled emg values in channel 0 (the first channel) and 1 (the second channel) in the 'HIDScope' instance named 'scope' */
    float emg0_value = emg0.read();
    float emg1_value = emg1.read();


    float filter_value = fabs(bq2.step(fabs(bq1.step(emg0_value - emg1_value))));

    //scope.set(0, emg0.read() );
    //scope.set(1, emg1.read() );
    //scope.set(2, filter_value);
    
    /* Repeat the step above if required for more channels of required (channel 0 up to 5 = 6 channels)
    *  Ensure that enough channels are available (HIDScope scope( 2 ))
    *  Finally, send all channels to the PC at once */
    
    //scope.send();
    
    /* To indicate that the function is working, the LED is toggled */
    led = !led;
}

const int length = 1000;
int i;
float sample_array[length] = {};

void calibration()
{
    i = 0;
    while (i < (length-1)) {
        sample();
        pc.printf("I can reach this point\r\n");
        sample_array[i] = filter_value;
        pc.printf("The filter_value is %f\r\n",filter_value);
        i++;
        wait(0.001);
    }
}

int main()
{
    pc.baud(115200);
    pc.printf("Running main");
    bqc.add( &bq1);
    /**Attach the 'sample' function to the timer 'sample_timer'.
    * this ensures that 'sample' is executed every... 0.002 seconds = 500 Hz
    */

    calibration();

    sample_timer.attach(&sample, 0.001);

    /*empty loop, sample() is executed periodically*/
    while(1) {}
}