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Breath Plot: COVID-19 Respiration Analysis Software
Copyright (C) 2020 Robert L. Read
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<title>Public Invention Respiration Analysis</title>
</head>
<style>
#timetop {
display: flex;
flex-direction:row;
justify-content: space-between;
background: AliceBlue;
}
#leftjustify {
display: flex;
flex-direction:row;
justify-content: flex-start;
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button {
margin-left: 10px;
margin-right: 10px;
}
#calcarea {
flex-direction:column;
background: AliceBlue;
}
.calcnum {
color: blue;
font-size: xx-large;
}
.fence {
width: 3em;
}
.value_and_fences {
display: flex;
flex-direction: row;
justify-content: space-between;
}
.limit {
display: flex;
flex-direction: row;
}
.limit label {
width: 1em;
}
.alarmred {
background: red;
}
#control-area {
background:aliceblue;
padding:1em;
margin-bottom: 1em;
}
</style>
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<style>
.switch {
position: relative;
display: inline-block;
width: 60px;
height: 34px;
}
.switch input {
opacity: 0;
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}
.slider {
position: absolute;
cursor: pointer;
top: 0;
left: 0;
right: 0;
bottom: 0;
background-color: #ccc;
-webkit-transition: .4s;
transition: .4s;
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.slider:before {
position: absolute;
content: "";
height: 26px;
width: 26px;
left: 4px;
bottom: 4px;
background-color: white;
-webkit-transition: .4s;
transition: .4s;
}
input:checked + .slider {
background-color: #2196F3;
}
input:focus + .slider {
box-shadow: 0 0 1px #2196F3;
}
input:checked + .slider:before {
-webkit-transform: translateX(26px);
-ms-transform: translateX(26px);
transform: translateX(26px);
}
/* Rounded sliders */
.slider.round {
border-radius: 34px;
}
.slider.round:before {
border-radius: 50%;
}
</style>
<body>
<div class="container-fluid">
<div class="jumbotron">
<h1 class="display-4">VentMon Respiration Analysis</h1>
<p class="lead">This is a work in progress of <a href="https://www.pubinv.org">Public Invention</a>. It can be attached to a data server to produce
an interactive or static analysis of a respiration. It's primary purpose is to test pandemic ventilators, but it is free software meant to be reused for other purposes.
</p>
</div>
<div class="input-group mb-3">
<div class="input-group-prepend">
<span class="input-group-text" id="basic-addon3">PIRDS data server url:</span>
</div>
<input type="text" class="form-control" id="dserverurl" aria-describedby="basic-addon3">
<div class="input-group-append">
<a class="btn btn-outline-dark btn-sm" href="#" role="button" id="useofficial">Use Ventmon Data Lake: ventmon.coslabs.com</a>
</div>
</div>
<div class="input-group mb-3">
<div class="input-group-prepend">
<span class="input-group-text" id="basic-addon3">Trace ID:</span>
</div>
<input type="text" class="form-control" id="traceid" aria-describedby="basic-addon3">
</div>
<div class="input-group mb-3">
<div class="input-group-prepend">
<span class="input-group-text" for="samples_to_plot">Number of Samples (~10s per 15000 samples):</span>
</div>
<input type="text" class="form-control" id="samples_to_plot" aria-describedby="samples_to_plot">
</div>
<div>
<label for="livetoggle">Plot Live:</label>
<label class="switch">
<input type="checkbox" id="livetoggle" checked>
<span class="slider round"></span>
</label>
<div id="leftjustify">
<button type="button" class="btn btn-primary">5s</button>
<button type="button" class="btn btn-primary">10s</button>
<button type="button" class="btn btn-primary">15s</button>
<button type="button" class="btn btn-primary">30s</button>
<button type="button" class="btn btn-primary">60s</button>
<button type="button" class="btn btn-primary">120s</button>
<button type="button" class="btn btn-primary">180s</button>
<button type="button" class="btn btn-primary">300s</button>
</div>
</div>
<div class="container-fluid">
<div class="row">
<div class="col-9">
<div id="timetop">
<div class="alert alert-info" role="alert" id="time_start">
Time of first sample
</div>
<div class="alert alert-info" role="alert" id="time_finish">
Time of last sample
</div>
</div>
<div id='PFGraph'><!-- Pressure and Flow Graph --></div>
<div id='EventsGraph'><!-- Events --></div>
</div>
<div class="col-3">
<div class="alert alert-danger" role="alert" id="main_alert">
Danger! Flow limits exceeded; volumes will be incorrect.
</div>
<div class="container" id="calcarea">
<div>
<label for="max">PIP (max): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="max"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="max_h">H:</label>
<input class="fence" id="max_h" type='text'> </input>
</div>
<div class="limit min">
<label for="max_l">L:</label>
<input class="fence" id="max_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="avg">P. Mean: </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="avg"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="avg_h">H:</label>
<input class="fence" id="avg_h" type='text'> </input>
</div>
<div class="limit min">
<label for="avg_l">L:</label>
<input class="fence" id="avg_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="min">PEEP (min): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="min"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="min_h">H:</label>
<input class="fence" id="min_h" type='text'> </input>
</div>
<div class="limit min">
<label for="min_l">L:</label>
<input class="fence" id="min_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="mv">MVs (l/min): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="mv"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="mv_h">H:</label>
<input class="fence" id="mv_h" type='text'> </input>
</div>
<div class="limit min">
<label for="mv_l">L:</label>
<input class="fence" id="mv_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="bpm">RR: </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="bpm"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="bmp_h">H:</label>
<input class="fence" id="bpm_h" type='text'> </input>
</div>
<div class="limit min">
<label for="bpm_l">L:</label>
<input class="fence" id="bpm_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="ier">I:E ratio: </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="ier"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="ier_h">H:</label>
<input class="fence" id="ier_h" type='text'> </input>
</div>
<div class="limit min">
<label for="ier_l">L:</label>
<input class="fence" id="ier_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="tv">VTd (ml): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="tv"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="tv_h">H:</label>
<input class="fence" id="tv_h" type='text'> </input>
</div>
<div class="limit min">
<label for="tv_l">L:</label>
<input class="fence" id="tv_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="fio2">FiO2 Mean (%): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="fio2"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="fio2_h">H:</label>
<input class="fence" id="fio2_h" type='text'> </input>
</div>
<div class="limit min">
<label for="fio2_l">L:</label>
<input class="fence" id="fio2_l" type='text'> </input>
</div>
</div>
</div>
<div>
<label for="taip">Rise Time (ms): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="taip"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="taip_h">H:</label>
<input class="fence" id="taip_h" type='text'> </input>
</div>
<div class="limit min">
<label for="taip_l">L:</label>
<input class="fence" id="taip_l" type='text'> </input>
</div>
</div>
</div>
</div>
<div>
<label for="taip">Fall Time (ms): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="trip"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="trip_h">H:</label>
<input class="fence" id="trip_h" type='text'> </input>
</div>
<div class="limit min">
<label for="trip_l">L:</label>
<input class="fence" id="trip_l" type='text'> </input>
</div>
</div>
</div>
<div>
<label for="wob">W. of B. (J/L): </label>
<div class="value_and_fences">
<div class="calcnum">
<label id="wob"> </label>
</div>
<div class="vertical_alarms">
<div class="limit max">
<label for="wob_h">H:</label>
<input class="fence" id="wob_h" type='text'> </input>
</div>
<div class="limit min">
<label for="wob_l">L:</label>
<input class="fence" id="wob_l" type='text'> </input>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div> <!-- end main area -->
</div>
<!-- CONTROL PANEL START -->
<div class="container-fluid" id="control-area">
<button id="show_controls" type="button" class="btn btn-primary">EPAND/COLLAPSE CONTROLS</button>
<div id="control-slot">
<div class="row">
<div class="col-6">
<div class="control-wrapper row">
<label class="col-2" for="control-mode">Mode:</label>
<input class="col-9" type="range" id="control-mode" name="control-mode" min="0" max="2" value="0"/>
<label class="col-1" id="control-mode-val">PCV</label>
</div>
<div class="control-wrapper row">
<label class="col-2" for="control-rr">RR:</label>
<input class="col-9" type="range" id="control-rr" name="control-rr" min="1" max="30" value="12"/>
<label class="col-1" id="control-rr-val">12</label>
</div>
<div class="control-wrapper row">
<label class="col-2" for="control-ie">EI (x10) :</label>
<input class="col-9" type="range" id="control-ie" name="control-ie" min="5" max="50" step="1" value="30"/>
<label class="col-1" id="control-ie-val">30</label>
</div>
<div class="control-wrapper row">
<label class="col-2" for="control-pinsp">Pinsp (cmH20):</label>
<input class="col-9" type="range" id="control-pinsp" name="control-pinsp" min="10" max="50" value="35"/>
<label class="col-1" id="control-pinsp-val">35</label>
</div>
<div class="control-wrapper row">
<label class="col-2" for="control-vinsp">Vinsp:</label>
<input class="col-9" type="range" id="control-vinsp" name="control-vinsp" min="200" max="800" step="20" value="500"/>
<label class="col-1" id="control-vinsp-val">500</label>
</div>
<div class="control-wrapper row">
<label class="col-2" for="control-peep">PEEP (cmH20):</label>
<input class="col-9" type="range" id="control-peep" name="control-peep" min="0" max="15" value="5"/>
<label class="col-1" id="control-peep-val">5</label>
</div>
<button id="control-start" type="button" class="btn btn-primary">START</button>
</div>
</div>
<div class="col-6">
<div>
<b>Status:</b> no device connected
</div>
<div>
<b>Log:</b> some log info
</div>
</div>
</div>
</div>
<!-- CONTROL PANEL END -->
<div>
Parameters:
<div>
<label for="tarip_h">Rise/Fall High Pressure (cm H2O):</label>
<input class="fence" id="tarip_h" type='text'> </input>
</div>
<div>
<label for="tarip_l">Rise/Fall Low Pressure (cm H2O):</label>
<input class="fence" id="tarip_l" type='text'> </input>
</div>
</div>
<div>
<button id="import">Import Trace</button>
<button id="export">Export Trace</button>
</div>
<div>
<textarea id="json_trace" rows="30" cols="80"></textarea>
</div>
<p>
This is a work in progress of <a href="https://www.pubinv.org">Public Invention</a>.
<p>
This is a tester tool for open-source ventilators.
It uses the <a href="https://github.com/PubInv/respiration-data-standard">PIRDS data format</a>.
<p>
The basic operation is receive data from web server specified in the URL above.
Probably for now that will be the VentMon Python web server that
listens on a serial port for the VentMon device or any other
device that streams PIRDS events.
</div>
</body>
<script src="https://ajax.googleapis.com/ajax/libs/jquery/3.4.1/jquery.min.js"></script>
<script>
// I want a function to print times without milliseconds!!!!
if (!Date.prototype.toISOStringSeconds) {
(function() {
function pad(number) {
if (number < 10) {
return '0' + number;
}
return number;
}
Date.prototype.toISOStringSeconds = function() {
return this.getUTCFullYear() +
'-' + pad(this.getUTCMonth() + 1) +
'-' + pad(this.getUTCDate()) +
'T' + pad(this.getUTCHours()) +
':' + pad(this.getUTCMinutes()) +
':' + pad(this.getUTCSeconds()) +
'Z';
};
})();
}
var TAIP_AND_TRIP_MIN = 2;
var TAIP_AND_TRIP_MAX = 8;
function getParameterByName(name, url) {
if (!url) url = window.location.href;
name = name.replace(/[\[\]]/g, '\\$&');
var regex = new RegExp('[?&]' + name + '(=([^&#]*)|&|#|$)'),
results = regex.exec(url);
if (!results) return null;
if (!results[2]) return '';
return decodeURIComponent(results[2].replace(/\+/g, ' '));
}
// These are defined in PIRDS.h as "constant" key words of special meaning...
var FLOW_LIMITS_EXCEEDED = false;
const FLOW_TOO_HIGH = "FLOW OUT OF RANGE HIGH";
const FLOW_TOO_LOW = "FLOW OUT OF RANGE LOW";
const SAMPLES_BETWEEN_FIO2_REPORTS = 30000;
const VENTMON_DATA_LAKE = "http://ventmon.coslabs.com";
const queryString = window.location.search;
const urlParams = new URLSearchParams(queryString);
var TRACE_ID = urlParams.get('i')
// This was problematic when the data server was in a different place...
// var DSERVER_URL = window.location.protocol + "//" + window.location.host;
var DSERVER_URL = "";
var NUM_TO_READ = 500;
var DESIRED_DURATION_S = 30;
var DATA_RETRIEVAL_PERIOD = 500;
var RESPIRATION_RATE_WINDOW_SECONDS = 60;
var intervalID = null;
// This sould be better as time, but is easier
// to do as number of samples.
var MAX_SAMPLES_TO_STORE_S = 160;
var MAX_REFRESH = false;
var samples = [];
var INITS_ONLY = true;
// This is just to get the party started!
function init_samples() {
return [
{
"event": "M",
"type": "P",
"ms": 19673310,
"loc": "A",
"num": "0",
"val": 10111
},
{
"event": "M",
"type": "D",
"ms": 19673310,
"loc": "A",
"num": "0",
"val": 4
},
{
"event": "M",
"type": "F",
"ms": 19673310,
"loc": "A",
"num": "0",
"val": 0
},
{
"event": "M",
"type": "P",
"ms": 19673376,
"loc": "A",
"num": "0",
"val": 10111
},
{
"event": "M",
"type": "D",
"ms": 19673376,
"loc": "A",
"num": "0",
"val": 4
},
{
"event": "M",
"type": "F",
"ms": 19673376,
"loc": "A",
"num": "0",
"val": 0
},
{
"event": "M",
"type": "P",
"ms": 19673442,
"loc": "A",
"num": "0",
"val": 10110
},
{
"event": "M",
"type": "D",
"ms": 19673442,
"loc": "A",
"num": "0",
"val": 3
},
];
}
function unpack(rows, key) {
return rows.map(function(row) { return row[key]; });
}
// const CONVERT_PIRDS_TO_SLM = 1/1000;
// we have now changed this, there will be flow and
// pressure in the same samples, and we should filter.
// TODO: I need to add maximal start and end
// samples to equalize all the plots.
function samplesToLine(samples) {
var flows = samples.filter(s => s.event == 'M' && s.type == 'F');
// These are slm/1000, or ml/minute...
// so we multiply by 1000 to get liters per minute
var flow_values = unpack(flows,"val").map(v => v * CONVERT_PIRDS_TO_SLM);
var fmillis = unpack(flows, 'ms');
// Convert to seconds...
var fmin = Math.min(...fmillis);
var fzeroed = fmillis.map(m =>(m-fmin)/1000.0);
var pressures = samples.filter(s => s.event == 'M' && s.type == 'D' && (s.loc == 'A' || s.loc == 'I'));
var pmillis = unpack(pressures, 'ms');
var pmin = Math.min(...pmillis);
var pzeroed = pmillis.map(m =>(m-pmin)/1000.0);
// the PIRDS standard is integral mm H2O, so we divide by 10
var delta_p = unpack(pressures, 'val').map(p => p / 10);
var diff_p = {type: "scatter", mode: "lines",
name: "pressure",
x: pzeroed,
y: delta_p,
line: {color: "#FF0000"}
};
var flow = {type: "scatter", mode: "lines",
name: "flow",
x: fzeroed,
y: flow_values,
xaxis: 'x2',
yaxis: 'y2',
fill: 'tozeroy',
line: {color: '#0000FF'}
};
var max_flow = flow_values.reduce(
function(a, b) {
return Math.max(Math.abs(a), Math.abs(b));
}
,0);
var scaled_flow = flow_values.map(f => 100.0 * (f / max_flow));
var flow_hollow = {type: "scatter", mode: "lines",
name: "flow ghost",
x: fzeroed,
// Convert to a percentage
y: scaled_flow,
line: {color: '#8888FF'}
};
return [diff_p,flow,flow_hollow];
}
function plot(samples, trans, breaths) {
var new_data = samplesToLine(samples);
var millis = unpack(samples, 'ms');
var min = Math.min(...millis);
var zeroed = millis.map(m =>(m-min)/1000.0);
{
var layout = {
title: 'VentMon Breath Analysis',
showlegend: false,
xaxis: {domain: [0.0,1.0]},
yaxis: {
title: 'Airway P(cm H2O)',
titlefont: {color: 'red'},
tickfont: {color: 'red'},
},
xaxis2: {domain: [0.0,1.0]},
yaxis2: {
title: 'Flow l/minute',
titlefont: {color: 'blue'},
tickfont: {color: 'blue'}
},
grid: {
rows: 2,
columns: 1,
pattern: 'independent',
roworder: 'top to bottom'}
}
var double_plot = [new_data[0],new_data[1]];
Plotly.newPlot('PFGraph', double_plot, layout);
}
// The Y-axis for the events will be percentage.
// This is somewhat abstract; each trace has
// a different meaning. In general it will be
// % as a function of some known value, which
// will be either a limit or a min or max.
{
var event_graph = [];
if (trans) {
// Transitions are simply scaled to 50%.
var tmillis = unpack(trans, 'ms');
var tzeroed = tmillis.map(m =>(m-min)/1000.0);
var tstates = unpack(trans, 'state');
var tstates_amped = tstates.map(m =>m*50);
var transPlot = {type: "scatter",
mode: "lines+markers",
name: "trans",
x: tzeroed,
y: tstates_amped,
line: {shape: 'hv',
color: 'dkGreen'},
};
// We add a hollow flow line to see in position..
event_graph.push(new_data[2]);
event_graph.push(transPlot);
}
if (breaths) {
var bmillis = unpack(breaths, 'ms');
var bzeroed = bmillis.map(m =>(m-min)/1000.0);
// I'm goint to a add start and end transition to make the plot
// come out right
var ys = breaths.map( b => 0);
var breathPlot = {type: "scatter", mode: "markers",
name: "Transitions",
x: bzeroed,
y: ys,
marker: { size: 8, color: "red",symbol: "diamond" },
textposition: 'bottom center',
text: bzeroed
};
event_graph.push(breathPlot);
// Now I attempt to extract volumes...
// Our breaths mark the END of a breath..
// so we want to draw the volumes that way.
const volume_ht_factor = 20;
var max_exh = unpack(breaths,'vol_e').reduce(
function(a, b) {
return Math.max(Math.abs(a), Math.abs(b));
}
,0);
var max_inh = unpack(breaths,'vol_i').reduce(
function(a, b) {
return Math.max(Math.abs(a), Math.abs(b));
}
,0);
var max_v = Math.max(max_inh,max_exh);
// not sure why I have null work, have to understand.
var max_work_per_liter = 0;
var work_per_liter = [];
for(var i = 0; i < breaths.length; i++) {
var b = breaths[i];
if (b.work != null) {
var wpl = b.work / b.vol_i;
if (wpl > max_work_per_liter)
max_work_per_liter = wpl;
var center = ((trans[b.trans_begin_inhale].ms + trans[b.trans_cross_zero].ms) - 2*min) / (2.0 * 1000.0);
work_per_liter.push({ wpl: wpl, center: center });
}
}
var exh_v = unpack(breaths, 'vol_e').map(e => 100 * e / max_v);
var t_exh_v = unpack(breaths, 'vol_e').map(e => Math.round(e*1000.0)+"ml exh");
var inh_v = unpack(breaths, 'vol_i').map(i => 100 * i / max_v);
var t_inh_v = unpack(breaths, 'vol_i').map(e => Math.round(e*1000.0)+"ml inh");
var work_v = work_per_liter.map(w => (1/3) * (100 * w.wpl / max_work_per_liter));
var t_work = work_per_liter.map(w => w.wpl.toFixed(2)+"J/L");
var work_centers = unpack(work_per_liter, 'center');
// now to graph properly, I must find the center of an inhalation.
// I have packed these into the breaths...
var inhale_centers = breaths.map(b => ((trans[b.trans_begin_inhale].ms + trans[b.trans_cross_zero].ms) - 2*min) / (2.0 * 1000.0));
var exhale_centers = breaths.map(b => ((trans[b.trans_cross_zero].ms + trans[b.trans_end_exhale].ms) - 2*min) / (2.0 * 1000.0));
var inhPlot = {type: "scatter", mode: "markers+text",
name: "Inh. ml",
textposition: 'bottom center',
x: inhale_centers,
y: inh_v,
text: t_inh_v,
marker: { size: 8,
color: 'black',
symbol: 'triangle-down'}
};
var exhPlot = {type: "scatter", mode: "markers+text",
name: "Exh. ml",
textposition: 'top center',
marker : {
sizer: 12,
color: 'green',
symbol: 'triangle-up' },
x: exhale_centers,
y: exh_v,
text: t_exh_v,
};
var workPlot = {type: "scatter", mode: "markers+text",
name: "WoB J",
textposition: 'bottom center',
x: work_centers,
y: work_v,
text: t_work,
marker: { size: 8,
color: 'blue',
symbol: 'triangle-right'}
};
event_graph.push(workPlot);
event_graph.push(inhPlot);
event_graph.push(exhPlot);
}
// Now I will attempt to add other markers, such as Humidity, Altitude, and other events,
// including possible warning events.
function gen_graph_measurement(samples, name, color, textposition, tp, lc0, lc1, vf, tf) {
var selected = samples.filter(s => s.event == 'M' && s.type == tp && (s.loc == lc0 || s.loc == lc1));
return gen_graph(selected, name, color, textposition, vf, tf);
}
function gen_graph_measurement_timed(samples, name, color, textposition, tp, lc0, lc1, vf, tf,time_window_ms) {
var messages = samples.filter(s => s.event == 'M' && s.type == tp && (s.loc == lc0 || s.loc == lc1));
var separated = [];
for(var i = 0; i < messages.length; i++) {
var m = messages[i];
if ((separated.length == 0) || ((separated.length > 0) && (separated[separated.length-1].ms < (m.ms - time_window_ms))))
separated.push(m);
}
return gen_graph_measurement(separated, name, color, textposition, tp, lc0, lc1, vf, tf);
}
function gen_graph(selected,name,color, textposition, vf, tf) {
var millis = unpack(selected, 'ms');
var zeroed = millis.map(m =>(m-min)/1000.0);
var vs = selected.map(vf);
var vs_t = vs.map(tf);
var plot = {type: "scatter", mode: "markers+text",
name: name,
textposition: textposition,
x: zeroed,
y: vs,
text: vs_t,
marker: { size: 10, color: color }
};
return plot;
}
function gen_message_events(samples,name,color, textposition) {
var messages = samples.filter(s => s.event == 'E' && s.type == 'M');
// Now I want to filter our all flow error messages...
// There are two special ones, "FLOW OUT OF RANGE LOW" and
// "FLOW OUT OF RANGE HIGH"
// Basically, we will show only the first of these in a "run"
// This is rather difficult; we will instead just use 200 ms
// as a window.
const TIME_WINDOW_MS = 400;
var lows = [];
var highs = [];
var others = [];
for(var i = 0; i < messages.length; i++) {
var m = messages[i];
if (m.buff == FLOW_TOO_LOW) {
if ((lows.length == 0) || ((lows.length > 0) && (lows[lows.length-1].ms < (m.ms - TIME_WINDOW_MS))))
lows.push(m);
} else if (m.buff == FLOW_TOO_HIGH) {
if ((highs.length == 0) || ((highs.length > 0) && (highs[highs.length-1].ms < (m.ms - TIME_WINDOW_MS))))
highs.push(m);
} else {
others.push(m);
}
}
if (lows.length > 0 || highs.length > 0) {
set_flow_alert();
} else {
unset_flow_alert();
}
var lowsPlot = gen_graph(lows,"Low Range","blue",'top center',
(s => -90.0),
(v => "LOW"));
var highsPlot = gen_graph(highs,"High Range","red",'bottom center',
(s => 90.0),
(v => "HIGH"));
var othersPlot = gen_graph(others,"messages","Aqua",'top center',
(s => -75.0),
(v => v.buff));
return [lowsPlot,highsPlot,othersPlot];
}
{
var fio2AirwayPlot = gen_graph_measurement_timed(samples,
"FiO2 (%)",
"Black",'top center','O','I','A',
(s => s.val),
(v => "FiO2 : "+v.toFixed(1)+"%"),
// O2 reported only once every 10 seconds
SAMPLES_BETWEEN_FIO2_REPORTS);
event_graph.push(fio2AirwayPlot);
}
{
var humAirwayPlot = gen_graph_measurement(samples,"Hum (%)","Aqua",'top center','H','I','A',
(s => s.val/100.0),
(v => "H2O : "+v.toFixed(0)+"%"));
event_graph.push(humAirwayPlot);
}
{
// "null" here will never be matched, which is correct
var humAmbientPlot = gen_graph_measurement(samples,"Hum (%)","CornflowerBlue",'bottom center','H','B',null,
(s => -s.val/100.0),
(v => "H2O (B): "+(-v).toFixed(0)+"%"));
event_graph.push(humAmbientPlot);
}
{
var tempAirwayPlot = gen_graph_measurement(samples,"Temp A","red",'bottom center','T','I','A',
(s => s.val/100.0),
(v => "T (I): "+v.toFixed(1)+"C"));
event_graph.push(tempAirwayPlot);
}
{
var tempAmbientPlot = gen_graph_measurement(samples,"Temp B","orange",'top center','T','B',null,
(s => -s.val/100.0),
(v => "T (B): "+(-v).toFixed(1)+"C"));
event_graph.push(tempAmbientPlot);
}
// Altitude is really just a check that the system is working
{
var altAmbientPlot = gen_graph_measurement(samples,"Altitude","purple",'right','I','B',null,
(s => s.val/20.0),
(v => "Alt: "+(v*20.0).toFixed(0)+"m"));
event_graph.push(altAmbientPlot);
}
{
var [l,h,o] = gen_message_events(samples,"Message","red",'right');
event_graph.push(l);
event_graph.push(h);
event_graph.push(o);
}
// I'm going to try putting the pressure
// in faintly to make the graphs match
var event_layout = {
title: 'Events',
showlegend: false,
xaxis: {domain: [0.0,1.0]},
yaxis: {
range: [-100.0, 100.0]
},
};
Plotly.newPlot('EventsGraph', event_graph,event_layout);
}
}
function set_flow_alert() {
$("#main_alert").show();
}
function unset_flow_alert() {
$("#main_alert").hide();
}
function check_alarms(limits,key,limit,val,f,ms) {
var alarms = [];
if (limits[key][limit] && (f(val,limits[key][limit]))) {
alarms.push({param: key,
limit: limit,
val: val,
ms: ms});
}
return alarms;
}
var LIMITS = {
max: { h: 40,
l: 0},
avg: { h: 30,
l: 0},
min: { h: 10,
l: -10},
mv: { h: 10,
l: 1},
bpm: { h: 40,
l: 5},
ier: { h: 4,
l: 0.25},
tv: { h: 1000,
l: 200},
fio2: { h: 100,
l: 18},
taip: { h: 100, // These are in ms
l: 0},
trip: { h: 100, // These are in ms
l: 0},
wob: { h: 3,
l: 0.2},
}
function load_ui_with_defaults(limits) {
var Lkeys = Object.keys(limits);
Lkeys.forEach((key,index) => {
["h","l"].forEach(limit => {
$("#"+key+"_"+limit).val(limits[key][limit]);
})
});
}
function set_rise_time_pressures()
{
$("#tarip_l").val(TAIP_AND_TRIP_MIN);
$('#tarip_l').change(function () {
TAIP_AND_TRIP_MIN = $("#tarip_l").val();
});
$("#tarip_h").val(TAIP_AND_TRIP_MAX);
$('#tarip_h').change(function () {
TAIP_AND_TRIP_MAX = $("#tarip_h").val();
});
}
function reflectAlarmsInGUI(alarms) {
var Lkeys = Object.keys(LIMITS);
Lkeys.forEach((key,index) => {
["h","l"].forEach(limit => {
var alarms_for_key = alarms.filter(s => s.param == key && s.limit == limit);
if (alarms_for_key.length > 0) {
$("#"+key).addClass("alarmred");
$("#"+key+"_"+limit).addClass("alarmred");
} else {
$("#"+key).removeClass("alarmred");
$("#"+key+"_"+limit).removeClass("alarmred");
}
})
});
}
const d = new Date();
const TZ_OFFSET_MS = d.getTimezoneOffset()*60*1000;
var LAST_SAMPLE_DATE;
function get_date_of_sample(timestring,time_mark,ms) {
var d = new Date(timestring);
var t = d.getTime();
var tm = t - TZ_OFFSET_MS + (ms - time_mark);
return new Date(tm);
}
// epoch_ms is the milliseconds since the beginning of UNIX epoch
function get_date_of_sample_simple(epoch_ms) {
var d = new Date();
var s = Math.floor(epoch_ms/1000);
var ms_in_s = epoch_ms-s;
var t = d.setTime(s);
d.setUTCMilliseconds(ms_in_s);
return d;
}
function process(samples) {
const t = 200; // size of the window is 200ms
const v = 50; // min volume in ml
var [transitions,breaths] = computeMovingWindowTrace(samples,t,v);
plot(samples,transitions,breaths);
// How many seconds backwards should we look? Perhaps 20?
var [bpm,tv,mv,EIratio,wob] = compute_respiration_rate(RESPIRATION_RATE_WINDOW_SECONDS,samples,transitions,breaths);
var alarms = [];
$("#bpm").text(bpm.toFixed(1));
$("#tv").text(tv.toFixed(0));
$("#mv").text(mv.toFixed(2));
if (wob == "NA") {
$("#wob").text("NA");
} else {
$("#wob").text(wob.toFixed(2));
}
if (EIratio == "NA") {
$("#ier").text("NA");
} else {
$("#ier").text((1.0 / EIratio).toFixed(1));
}
var final_ms = samples[samples.length -1].ms;
var b_ms = 0;
if (breaths.length > 0) {
b_ms = breaths[breaths.length -1].ms;
} else {
b_ms = final_ms;
}
function check_high_and_low(limits,key,v,ms) {
var al1 = check_alarms(limits,key,"h",v,(a,b) =>(a > b),ms);
var al2 = check_alarms(limits,key,"l",v,(a,b) =>(a < b),ms);
return al1.concat(al2);
}
alarms = alarms.concat(check_high_and_low(LIMITS,"bpm",bpm.toFixed(1),b_ms));
alarms = alarms.concat(check_high_and_low(LIMITS,"tv",tv.toFixed(0),b_ms));
alarms = alarms.concat(check_high_and_low(LIMITS,"mv",mv.toFixed(2),b_ms));
alarms = alarms.concat(check_high_and_low(LIMITS,"ier",(1.0 / EIratio).toFixed(1),b_ms));
if (wob != "NA")
alarms = alarms.concat(check_high_and_low(LIMITS,"wob",wob.toFixed(2),b_ms));
// These must be moved out; in fact,
// they must be made configurable!
var taip = compute_mean_TRIP_or_TAIP(
TAIP_AND_TRIP_MIN,
TAIP_AND_TRIP_MAX,
samples,
true);
if (taip != "NA") {
$("#taip").text(taip.toFixed(1));
alarms = alarms.concat(
check_high_and_low(LIMITS,"taip",taip,b_ms));
} else {
$("#taip").text("NA");
}
var trip = compute_mean_TRIP_or_TAIP(
TAIP_AND_TRIP_MIN,
TAIP_AND_TRIP_MAX,
samples,
false);
if (trip != "NA") {
$("#trip").text(trip.toFixed(1));
alarms = alarms.concat(
check_high_and_low(LIMITS,"trip",trip,b_ms));
} else {
$("#trip").text("NA");
}
var [min,avg,max,palarms] = compute_pressures(RESPIRATION_RATE_WINDOW_SECONDS,samples,alarms,LIMITS);
alarms = alarms.concat(palarms);
$("#min").text(min.toFixed(1));
$("#avg").text(avg.toFixed(1));
$("#max").text(max.toFixed(1));
var fio2 = compute_fio2_mean(RESPIRATION_RATE_WINDOW_SECONDS,samples);
if(fio2 == null){
$("#fio2").text("NA");
} else {
alarms = alarms.concat(check_high_and_low(LIMITS,"fio2",fio2.toFixed(1),b_ms));
$("#fio2").text(fio2.toFixed(1));
}
reflectAlarmsInGUI(alarms);
// Return date in UTC time (as it comes to us)
function time_of_extreme_samples(samples) {
// var messages = samples.filter(s => s.event == 'E' && s.type == 'C');
// if our traces don't have monotone ms fields, this is an
// unrecoverable error...
var cur = 0;
for(var i = 0; i < samples.length; i++) {
if (samples[i].ms <= 0) { // This is an error!!!
console.log("error, non-monotonic ms times");
return [null,null];
}
cur = samples[i].ms;
}
var first_ms = samples[0].ms;
var last_ms = samples[samples.length-1].ms;
return [get_date_of_sample_simple(first_ms),
get_date_of_sample_simple(last_ms)];
}
var [start,finish] = time_of_extreme_samples(samples);
$("#time_start").text((start) ? start.toISOStringSeconds() : null);
$("#time_finish").text((finish) ? finish.toISOStringSeconds() : null);
LAST_SAMPLE_DATE = finish;
// console.log("process",start);
// console.log("process",finish);
}
// WARNING: This is a hack...if the timestamp is negative,
// we treat it as a limited (beyond range of sensor) measurement.
// Our goal is to warn about this, but for now we will just
// ignore and correct.
function sanitize_samples(samples) {
samples.forEach(s =>
{
if (s.event == "M") {
if ("string" == (typeof s.ms))
s.ms = parseInt(s.ms);
if ("string" == (typeof s.val))
s.val = parseInt(s.val);
if ("string" == (typeof s.num))
s.num = parseInt(s.num);
if (s.ms < 0) {
s.ms = -s.ms;
} else if (s.event == "E") {
}
}
});
return samples;
}
// TODO: This is bad when it fires another request while a request is in play.
function retrieveAndPlot(){
var trace_piece = (TRACE_ID) ? "/" + TRACE_ID : "";
DSERVER_URL = $("#dserverurl").val();
var url;
var TREAT_LIVE_AND_OVERRIDE_TIME = true;
if (TREAT_LIVE_AND_OVERRIDE_TIME || (MAX_REFRESH || samples.length == 0) || !LAST_SAMPLE_DATE) {
url = DSERVER_URL + trace_piece + "/json?n="+ MAX_SAMPLES_TO_STORE_S;
} else {
url = DSERVER_URL + trace_piece + "/json?n="+ NUM_TO_READ +
"&t=" + encodeURIComponent(LAST_SAMPLE_DATE.toUTCString());
}
//
// Our basic rule is:
// if we are live and we have samples,
// we always set z= to the last sample.
if (!TREAT_LIVE_AND_OVERRIDE_TIME) {
var REQUEST_FINAL_SAMPLE;
if (intervalID && LAST_SAMPLE_DATE) {
var currentDate = new Date();
var t = currentDate.getTime();
var tm = t - DESIRED_DURATION_S*1000;
var t_max = Math.max(tm,LAST_SAMPLE_DATE.getTime());
var date_minus_duration = new Date(t_max);
url = DSERVER_URL + trace_piece + "/json?n="+ NUM_TO_READ +
"&a=" + encodeURIComponent(date_minus_duration.toUTCString()) +
"&z=" + encodeURIComponent(currentDate.toUTCString());
REQUEST_FINAL_SAMPLE = currentDate;
// console.log("A",date_minus_duration);
// console.log("Z",currentDate);
} else {
}
}
console.log("url =",decodeURI(url));
$.ajax({url: url,
success: function(cur_sam){
// WARNING: This is a hack...if the timestamp is negative,
// we treat it as a limited (beyond range of sensor) measurement.
// Our goal is to warn about this, but for now we will just
// ignore and correct.
MAX_REFRESH = false;
if (cur_sam == null) {
console.log("No return");
return;
}
// console.log("returned ",cur_sam.length,cur_sam);
if (cur_sam && cur_sam.length == 0) {
// This is no longer true now that we are asking for time...
// console.log("no samples; potential misconfiguration!");
LAST_SAMPLE_DATE = REQUEST_FINAL_SAMPLE;
} else {
if (typeof(cur_sam) == "string") {
console.log("Error!",cur_sam);
stop_interval_timer();
$("#livetoggle").prop("checked",false);
console.log(cur_sam);
} else {
cur_sam = sanitize_samples(cur_sam);
if (INITS_ONLY) {
samples = cur_sam;
INITS_ONLY = false;
} else {
console.log("cursuam: a,z : ",cur_sam[0].ms,cur_sam[cur_sam.length-1].ms);
var first_new_ms = cur_sam[0].ms;
// var cur_first_ms = samples[0].ms;
// THIS IS WRONG
// if (first_new_ms < cur_first_ms) { // This means a reset of the Arduino, we will dump samples..
// samples = [];
// console.log("DETECTED ARDUINO RESET, DUMPING CURRENT SAMPLES");
// }
var discard = Math.max(0,
samples.length + cur_sam.length - MAX_SAMPLES_TO_STORE_S);
samples = samples.slice(discard);
}
// This is leading to an inconsistency!!
samples = samples.concat(cur_sam);
samples.sort((a,b) => a.ms < b.ms);
// We are not guaranteeed to get samples in order
// we sort them....
// We also need to de-dup them.
// This would be more efficient if done after sorting..
var n = samples.length;
// I think this is de-dupeing code...
samples = samples.filter((s, index, self) =>
self.findIndex(t => t.ms === s.ms
&& t.type === s.type
&& t.loc === s.loc
&& t.num === s.num
&& t.event === s.event
&& t.val === s.val) === index);
}
if (n != samples.length) {
console.log("deduped:",n-samples.length);
}
// Now we will trim off samples if we are live...
if (intervalID) {
var last_ms = samples[samples.length-1].ms
samples = samples.filter((s, index, self) =>
s.ms >= (last_ms - DESIRED_DURATION_S*1000));
}
console.log(samples);
if (samples.length > 0)
process(samples);
console.log("END",LAST_SAMPLE_DATE);
}
},
error: function(xhr, ajaxOptions, thrownError) {
console.log("Error!" + xhr.status);
console.log(thrownError);
stop_interval_timer();
$("#livetoggle").prop("checked",false);
}
});
}
$("#useofficial").click(function() {
DSERVER_URL = VENTMON_DATA_LAKE;
$("#dserverurl").val(DSERVER_URL);
});
$("#import").click(function() {
var input_trace = $("#json_trace").val();
samples = JSON.parse(input_trace);
});
$("#export").click(function() {
$("#json_trace").val(JSON.stringify(samples,null,2));
});
// Experimental timing against the data server
function stop_interval_timer() {
clearInterval(intervalID);
intervalID = null;
$("#livetoggle").prop("checked",false);
}
function start_interval_timer() {
if (intervalID) {
stop_interval_timer();
}
intervalID = setInterval(
function() {
retrieveAndPlot();
},
DATA_RETRIEVAL_PERIOD);
$("#livetoggle").prop("checked",true);
}
function toggle_interval_timer() {
if (intervalID) {
stop_interval_timer();
} else {
start_interval_timer();
}
}
function setLimit(ed) {
if(ed.which == 13) {
var id = ed.target.id;
var v = $("#"+id).val();
var vf = parseFloat(v);
var destruct = id.split("_");
LIMITS[destruct[0]][destruct[1]] = isNaN(vf) ? null : vf;
}
}
// CONTROL PANEL FUNCTIONS START
// CONTROL PANEL FUNCTIONS END
$(".fence").keypress(setLimit);
$("#livetoggle").change(toggle_interval_timer);
$("#startoperation").click(start_interval_timer);
$("#stopoperation").click(stop_interval_timer);
// Send PIRCS commands when START button is pressed
$("#control-start").click(
async function(event) {
// Send a command to a connected device via serial port
console.log("Sending PIRCS...");
//Note: PIRCS uses specific units,
// which are designed to provide the right
// amount of precision without using
// floating point numbers.
// Often this means multiplying the
// common medical units by 10 to be the
// PIRCS units.
var dict = {
M: $("#control-mode").val(),
B: $("#control-rr").val()*10,
I: $("#control-ie").val(),
P: $("#control-pinsp").val()*10,
E: $("#control-peep").val()*10,
}
function sleep(ms) {
return new Promise(resolve => setTimeout(resolve, ms));
}
for (var k in dict){
// WARNING!!!!
// This is a workaround because we can easily create
// buffer overruns on the serial port of the an ESP32
// or Arduino. This really needs to be addressed in
// our Node Server, AND also made more robust in VentOS.
await sleep(500);
$.ajax({
//url: lh+"/api/pircs?com=C&par="+parName+"&int="+interp+"&mod="+modifier+"&val="+val,
type: 'GET',
url: 'http://localhost:5000/api/pircs/',
dataType: 'json',
data: { com: "C", par: k, int: "T", mod: "A", val: dict[k] }
}).done(function(result) {
console.log("result: " + JSON.stringify(result));
}).fail(function(xhr, ajaxOptions, thrownError) {
console.log("Error! " + xhr.status);
console.log(thrownError);
})
}
});
// Update values on slider change
$("#control-mode").on("input", () => {
var m = $("#control-mode").val();
if (m === "0"){
$("#control-mode-val").html("PCV");
} else if (m === "1"){
$("#control-mode-val").html("VCV");
} else {
$("#control-mode-val").html("PSV");
}
});
$("#control-rr").on("input", () => {
$("#control-rr-val").html($("#control-rr").val());
});
$("#control-ie").on("input", () => {
$("#control-ie-val").html($("#control-ie").val());
});
$("#control-pinsp").on("input", () => {
$("#control-pinsp-val").html($("#control-pinsp").val());
});
$("#control-vinsp").on("input", () => {
$("#control-vinsp-val").html($("#control-vinsp").val());
});
$("#control-peep").on("input", () => {
$("#control-peep-val").html($("#control-peep").val());
});
$( document ).ready(function() {
// CONTROL PANEL INIT START
$("#show_controls").click(function() {
$("#control-slot").toggle();
});
// CONTROL PANEL INIT END
$("#leftjustify button").click(function(event)
{
var a = event.currentTarget.innerText.split("s");
console.log(a[0]);
DESIRED_DURATION_S = a[0];
console.dir(DESIRED_DURATION_S);
});
$( "#dserverurl" ).val( DSERVER_URL );
$('#dserverurl').change(function () {
samples = [];
DSERVER_URL = $("#dserverurl").val();
start_interval_timer();
});
$( "#traceid" ).val( TRACE_ID );
$('#traceid').change(function () {
samples = [];
TRACE_ID = $("#traceid").val();
start_interval_timer();
});
$( "#samples_to_plot" ).val( MAX_SAMPLES_TO_STORE_S );
$('#samples_to_plot').change(function () {
samples = [];
MAX_SAMPLES_TO_STORE_S = $("#samples_to_plot").val();
MAX_REFRESH = true;
});
samples = init_samples();
process(samples);
start_interval_timer();
load_ui_with_defaults(LIMITS);
set_rise_time_pressures(
TAIP_AND_TRIP_MIN,
TAIP_AND_TRIP_MAX,
);
});
</script>