NPQ with recovery


5 mins NPQ with 250 uE and 5 mins recovery
//============================================
// Macro for data evaluation on PhotosynQ.org
// created: 13.11.2017
//============================================

var data = json.data_raw;
var output = {};
var Fs = {};
var Fm1P = {};
var Fm2P = {};
var Fm3P = {};
var Fm4P = {};
var PhiII = {};
var baseline = 0;
var f0p = {};
var qL = {};
var NPQ1 = {};
var light_intensity =  {};

// retrieve the baseline information from the data JSON and save 

var sample_cal = json.detector_read1;//es para la luz 940

var shinyness = (sample_cal-json.recall["ir_baseline_yint[5]"])/json.recall["ir_baseline_slope[5]"]; // where 0 is dull black electrical tape, and 1 is shiny aluminum
var baseline = json.recall["ir_baseline_slope[3]"]*shinyness+json.recall["ir_baseline_yint[3]"];

if (!baseline || !json.recall["ir_baseline_yint[5]"] || sample_cal == 65535) {						// if it hasn't been calibrated or there's an error or it's maxed, set baseline == 0
  baseline = 0;
}



// initial values of F0 and Fm from dark adapted state.

var F0 = MathMEAN(data.slice(32,38)) - baseline;
var Fm = MathMEAN(data.slice(43,48));
var fvfm = (Fm-F0)/Fm;
output ["F0"] = MathROUND(F0,0);
output ["Fm"] = MathROUND(Fm,0);
output ["Fv/Fm"] = MathROUND(fvfm,3);

// illumination period

     
    
var Fm1P = MathMEAN(data.slice(203,209)) - baseline;

var Fm2P = MathMEAN(data.slice(303,309)) - baseline;
     
var Fm3P = MathMEAN(data.slice(603,609)) - baseline;    

var Fm4P = MathMEAN(data.slice(1503,1509)) - baseline;

var Fm5P = MathMEAN(data.slice(1570,1580)) - baseline;

var Fm6P = MathMEAN(data.slice(1640,1649)) - baseline;

var Fm7P = MathMEAN(data.slice(1710,1719)) - baseline;

var FmD1 = MathMEAN(data.slice(1720,1727)) - baseline;

var FmD2 = MathMEAN(data.slice(1730,1737)) - baseline;

var FmD3 = MathMEAN(data.slice(1740,1747)) - baseline;
  
var NPQ1 = ((Fm - Fm1P ) / Fm1P );   
var NPQ2 = ((Fm - Fm2P ) / Fm2P );   
var NPQ3 = ((Fm - Fm3P ) / Fm3P );   
var NPQ4 = ((Fm - Fm4P ) / Fm4P );
var NPQ5 = ((Fm - Fm5P ) / Fm5P );   
var NPQ6 = ((Fm - Fm6P ) / Fm6P );   
var NPQ7 = ((Fm - Fm7P ) / Fm7P );   
var RecD1 = ((Fm - FmD1 ) / FmD1 );   
var RecD2 = ((Fm - FmD2 ) / FmD2 ); 
var RecD3 = ((Fm - FmD3 ) / FmD3 ); 

  
    
 //output ["Fs " + i] = MathROUND(Fs [i], 0);
 //output ["Fm' " + i] = MathROUND(FmP [i],0);
 //output ["F0' calc " + i] = MathROUND(f0p [i],0);
 //output ["PhiII " + i] = MathROUND(PhiII [i],3);
 //output ["qL " + i] = MathROUND(qL [i],4);
//output ["NPQ " + i] = MathROUND(NPQ [i],4);

          


output ["FmP1"] = MathROUND(Fm1P,0);
output ["FmP2"] = MathROUND(Fm2P,0);
output ["FmP3"] = MathROUND(Fm3P,0);
output ["FmP4"] = MathROUND(Fm4P,0);
output ["FmP5"] = MathROUND(Fm5P,0);
output ["FmP6"] = MathROUND(Fm6P,0);
output ["FmP7"] = MathROUND(Fm7P,0);
output ["FmD1"] = MathROUND(FmD1,0);
output ["FmD2"] = MathROUND(FmD2,0);
output ["FmD3"] = MathROUND(FmD3,0);

output ["NPQ1"] = MathROUND(NPQ1,3);
output ["NPQ2"] = MathROUND(NPQ2,3);
output ["NPQ3"] = MathROUND(NPQ3,3);
output ["NPQ4"] = MathROUND(NPQ4,3);
output ["NPQ5"] = MathROUND(NPQ5,3);
output ["NPQ6"] = MathROUND(NPQ6,3);
output ["NPQ7"] = MathROUND(NPQ7,3);
output ["RecD1"] = MathROUND(RecD1,3);
output ["RecD2"] = MathROUND(RecD2,3);
output ["RecD3"] = MathROUND(RecD3,3);


var thickness = json.thickness;
output ["thickness - mm "] = MathROUND(thickness , 4);

output ["baseline" ] = baseline;

output["Light Intensity (PAR)"] = json.light_intensity;
output["Temperature"] = json.temperature;
output["Humidity"] = json.humidity;
output["Pressure"] = json.pressure;
return output;
{
  "time_offset": -60,
  "time": 1510580259377,
  "device_name": "MultispeQ",
  "device_version": "1",
  "device_id": "01:06:11:94",
  "device_battery": 86,
  "device_firmware": 1.17,
  "sample": [
    {
      "time": 1510580259398,
      "protocol_id": 1,
      "detector_read1": 13183,
      "light_intensity": 15,
      "r": 11,
      "g": 5,
      "b": 4,
      "light_intensity_raw": 18,
      "temperature": 24.76,
      "humidity": 33.193359,
      "pressure": 999.040222,
      "temperature2": 25.15,
      "humidity2": 34.37207,
      "pressure2": 1000.125488,
      "contactless_temp": 25.32,
      "thickness": 0.04,
      "compass_direction": "E",
      "compass": "90.00",
      "angle": 2.98,
      "angle_direction": "S",
      "pitch": 2.91,
      "roll": 0.64,
      "recall": {
        "time": 1510580889904,
        "colorcal_blank1[1]": 22499.5,
        "colorcal_blank1[2]": 25554,
        "colorcal_blank1[3]": 31458,
        "colorcal_blank1[4]": 38876.5,
        "colorcal_blank1[6]": 34085.5,
        "colorcal_blank1[8]": 33723,
        "colorcal_blank1[9]": 30423.5,
        "colorcal_blank1[10]": 36190,
        "colorcal_blank2[1]": 21669.5,
        "colorcal_blank2[2]": 18635,
        "colorcal_blank2[3]": 22455,
        "colorcal_blank2[4]": 19658.5,
        "colorcal_blank2[6]": 16528,
        "colorcal_blank2[8]": 17891.5,
        "colorcal_blank2[9]": 18626,
        "colorcal_blank2[10]": 16696,
        "colorcal_blank3[1]": 20402,
        "colorcal_blank3[2]": 10194,
        "colorcal_blank3[3]": 19539.5,
        "colorcal_blank3[4]": 14416,
        "colorcal_blank3[6]": 5821.5,
        "colorcal_blank3[8]": 6505,
        "colorcal_blank3[9]": 5453.5,
        "colorcal_blank3[10]": 5999,
        "colorcal_intensity1_slope[2]": 2.626,
        "colorcal_intensity1_yint[2]": 0.7,
        "colorcal_intensity2_slope[2]": 2.605,
        "colorcal_intensity2_yint[2]": -2.1,
        "colorcal_intensity3_slope[2]": 2.666,
        "colorcal_intensity3_yint[2]": -19.700001,
        "ir_baseline_slope[5]": 13602,
        "ir_baseline_yint[5]": 20124,
        "ir_baseline_slope[3]": 564,
        "ir_baseline_yint[3]": 751
      },
      "data_raw": [
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    }
  ],
  "app_os": "win",
  "app_name": "PhotosynQ",
  "app_version": "0.3.9",
  "app_device": "x86-32",
  "location": [
    "50.1563532",
    "8.6352638"
  ],
  "ConsoleMacro": null
}
Default avatar
Created by

Lars Dietzel


Protocol connections:
0
Latest Update:
Nov 2017