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planktoscope/flows/flows.json

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Add files via upload
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[
{
Update flows.json
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"id": "ff9251a5.9c5e18",
Add files via upload
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"type": "tab",
Update flows.json
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"label": "Main",
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"disabled": false,
"info": ""
},
{
Update flows.json
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"id": "bba19d97.b32b1",
"type": "subflow",
"name": "Acquisition actuation",
"info": "",
"category": "",
"in": [],
"out": [],
"env": [],
"color": "#A6BBCF"
Add files via upload
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},
{
Update flows.json
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"id": "c1d3ff7c.4384f",
"type": "subflow",
"name": "MQQT Cmds",
"info": "",
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}
]
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"color": "#DDAA99"
Add files via upload
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},
{
Update flows.json
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"id": "c10e968b.87e488",
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Add files via upload
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},
{
Update flows.json
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"id": "863e8384.56889",
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Add files via upload
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},
{
Update flows.json
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"id": "68d72e45.e7d58",
Add files via upload
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"type": "ui_base",
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Update flows.json
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"baseColor": "#5900ce",
Add files via upload
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"baseFont": "-apple-system,BlinkMacSystemFont,Segoe UI,Roboto,Oxygen-Sans,Ubuntu,Cantarell,Helvetica Neue,sans-serif",
Update flows.json
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"edited": true,
Add files via upload
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"reset": false
},
"darkTheme": {
"default": "#097479",
Update flows.json
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"baseColor": "#059276",
Add files via upload
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"baseFont": "-apple-system,BlinkMacSystemFont,Segoe UI,Roboto,Oxygen-Sans,Ubuntu,Cantarell,Helvetica Neue,sans-serif",
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Update flows.json
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"value": "#059276",
"edited": true
Add files via upload
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},
"page-titlebar-backgroundColor": {
Update flows.json
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"value": "#059276",
Add files via upload
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"edited": false
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Update flows.json
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"value": "#ffffff",
Add files via upload
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"edited": false
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"group-textColor": {
Update flows.json
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"value": "#08dcb2",
Add files via upload
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"edited": false
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Update flows.json
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"value": "#059276",
Add files via upload
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"edited": false
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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}
}
},
{
Update flows.json
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"id": "44986592.b84004",
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Add files via upload
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"z": "",
Update flows.json
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Add files via upload
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},
{
Update flows.json
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"id": "d4efe27d.5af0e",
Add files via upload
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"type": "ui_group",
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Update flows.json
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Add files via upload
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"order": 1,
Update flows.json
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Add files via upload
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"collapse": false
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{
Update flows.json
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Add files via upload
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"type": "ui_group",
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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"type": "function",
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"name": "image.js",
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"info": "### Focusing\n##### focus.py `nb_step` `orientation`\n\n- `nb_step` : **integer** (from 1 to 100000) - number of step to perform by the stage (about 31um/step)\n- `orientation` : **string** - orientation of the focus either `up` or `down`\n\nExample:\n\n python3.7 $HOME/PlanktonScope/scripts/focus.py 650 up\n"
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Update flows.json
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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"passthru": false,
Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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"name": "",
Update flows.json
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Add files via upload
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Update flows.json
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Add files via upload
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Update flows.json
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"id": "68aace8d.6bf5",
"type": "function",
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"name": "",
"func": "d = new Date();\n//get weekday\nvar weekday = new Array(7);\nweekday[0] = \"Sun\";\nweekday[1] = \"Mon\";\nweekday[2] = \"Tue\";\nweekday[3] = \"Wed\";\nweekday[4] = \"Thu\";\nweekday[5] = \"Fri\";\nweekday[6] = \"Sat\";\nvar w = weekday[d.getUTCDay()];\n//get Month\nvar month = new Array(12);\nmonth[0] = \"Jan\";\nmonth[1] = \"Feb\";\nmonth[2] = \"Mar\";\nmonth[3] = \"Apr\";\nmonth[4] = \"May\";\nmonth[5] = \"Jun\";\nmonth[6] = \"Jul\";\nmonth[7] = \"Aug\";\nmonth[8] = \"Sep\";\nmonth[9] = \"Oct\";\nmonth[10] = \"Nov\";\nmonth[11] = \"Dec\";\nvar n = month[d.getUTCMonth()];\n \n//get day\nvar day = d.getUTCDay()\n\n//get Hours\nvar Hours = d.getUTCHours();\n//get Minutes\nvar Minutes = d.getUTCMinutes();\n//get Seconds\nvar Seconds = d.getUTCSeconds();\n//get FullYear\nvar FullYear = d.getUTCFullYear();\n\n//Thu Aug 09 2012 23:34:04 GMT+0200 (GMT+02:00)\n\n//Thu Aug 9 21:31:26 UTC 2012\n\n//msg.payload = \"Thu Aug 9 21:31:26 UTC 2012\"\n\nmsg.payload = '\"'+w+\" \"+n+\" \"+day+\" \"+Hours+\":\"+Minutes+\":\"+Seconds+\" UTC \"+FullYear+'\"';\nreturn msg;",
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{
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Add files via upload
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Update flows.json
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Update flows.json
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"group": "9c86b3b7.54841",
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"order": 8,
"width": 4,
"height": 1,
Add files via upload
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"passthru": false,
Update flows.json
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"label": "Update",
Add files via upload
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"tooltip": "",
Update flows.json
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"color": "black",
"bgcolor": "white",
Add files via upload
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"icon": "",
"payload": "",
"payloadType": "str",
Update flows.json
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"topic": "",
"x": 640,
"y": 320,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
[
Update flows.json
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Add files via upload
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]
]
},
{
Update flows.json
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"id": "aa948c91.3895a",
Add files via upload
2020-01-08 14:32:46 +01:00
"type": "function",
Update flows.json
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"z": "c10e968b.87e488",
"name": "update datetime",
"func": "var FullYear= global.get(\"year\");\nvar Month= global.get(\"month\");\nvar day= global.get(\"day\");\nvar Hours= global.get(\"hour\");\nvar Minutes= global.get(\"minute\");\nvar Seconds= global.get(\"second\");\n\nmsg.payload = new Date();\n//get Month\nvar month = new Array(12);\nmonth[1] = \"Jan\";\nmonth[2] = \"Feb\";\nmonth[3] = \"Mar\";\nmonth[4] = \"Apr\";\nmonth[5] = \"May\";\nmonth[6] = \"Jun\";\nmonth[7] = \"Jul\";\nmonth[8] = \"Aug\";\nmonth[9] = \"Sep\";\nmonth[10] = \"Oct\";\nmonth[11] = \"Nov\";\nmonth[12] = \"Dec\";\nvar n = month[Month];\n \nmsg.payload = '\"'+day+\" \"+n+\" \"+FullYear+\" \"+Hours+\":\"+Minutes+\":\"+Seconds+'\"';\n\n\nreturn msg;",
Add files via upload
2020-01-08 14:32:46 +01:00
"outputs": 1,
"noerr": 0,
Update flows.json
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"x": 800,
"y": 320,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
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Update flows.json
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Add files via upload
2020-01-08 14:32:46 +01:00
]
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},
{
Update flows.json
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"id": "8de4b398.3c755",
"type": "function",
"z": "c10e968b.87e488",
"name": "set global",
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"outputs": 1,
"noerr": 0,
"x": 840,
"y": 60,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
[]
]
},
{
Update flows.json
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"id": "3b7403cb.d33394",
"type": "debug",
"z": "c10e968b.87e488",
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{
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Add files via upload
2020-01-08 14:32:46 +01:00
"type": "function",
Update flows.json
2020-07-14 18:22:31 +02:00
"z": "c10e968b.87e488",
"name": "",
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Add files via upload
2020-01-08 14:32:46 +01:00
"outputs": 1,
"noerr": 0,
Update flows.json
2020-07-14 18:22:31 +02:00
"x": 490,
"y": 80,
Add files via upload
2020-01-08 14:32:46 +01:00
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Update flows.json
2020-07-14 18:22:31 +02:00
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Add files via upload
2020-01-08 14:32:46 +01:00
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Update flows.json
2020-07-14 18:22:31 +02:00
"id": "93b9f3cd.759688",
"type": "function",
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Add files via upload
2020-01-08 14:32:46 +01:00
"name": "",
Update flows.json
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"func": "d = new Date();\nmsg.payload = d\nreturn msg;",
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"noerr": 0,
"x": 310,
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Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
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Update flows.json
2020-07-14 18:22:31 +02:00
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Add files via upload
2020-01-08 14:32:46 +01:00
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Update flows.json
2020-07-14 18:22:31 +02:00
"id": "922cecc2.dc7f68",
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Add files via upload
2020-01-08 14:32:46 +01:00
"name": "",
Update flows.json
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"func": "d = msg.payload;\n\nvar val = d.getUTCMonth();\n\nmsg.payload = val+1;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 490,
"y": 120,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
Update flows.json
2020-07-14 18:22:31 +02:00
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Add files via upload
2020-01-08 14:32:46 +01:00
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{
Update flows.json
2020-07-14 18:22:31 +02:00
"id": "c2aa11f2.0fdee8",
Add files via upload
2020-01-08 14:32:46 +01:00
"type": "function",
Update flows.json
2020-07-14 18:22:31 +02:00
"z": "c10e968b.87e488",
"name": "",
"func": "d = msg.payload;\n\nvar val = d.getUTCDay();\n\nmsg.payload = val;\nreturn msg;",
Add files via upload
2020-01-08 14:32:46 +01:00
"outputs": 1,
"noerr": 0,
Update flows.json
2020-07-14 18:22:31 +02:00
"x": 490,
"y": 160,
Add files via upload
2020-01-08 14:32:46 +01:00
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Update flows.json
2020-07-14 18:22:31 +02:00
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Add files via upload
2020-01-08 14:32:46 +01:00
]
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{
Update flows.json
2020-07-14 18:22:31 +02:00
"id": "915b7162.7a73e",
"type": "function",
"z": "c10e968b.87e488",
Add files via upload
2020-01-08 14:32:46 +01:00
"name": "",
Update flows.json
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"func": "d = msg.payload;\n\nvar val = d.getUTCHours();\n\nmsg.payload = val;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 490,
"y": 200,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
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Update flows.json
2020-07-14 18:22:31 +02:00
"ee1e92f8.a01bb8"
Add files via upload
2020-01-08 14:32:46 +01:00
]
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},
{
Update flows.json
2020-07-14 18:22:31 +02:00
"id": "b57fe145.320d28",
"type": "function",
"z": "c10e968b.87e488",
Add files via upload
2020-01-08 14:32:46 +01:00
"name": "",
Update flows.json
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"func": "d = msg.payload;\n\nvar val = d.getUTCMinutes();\n\nmsg.payload = val;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 490,
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Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
Update flows.json
2020-07-14 18:22:31 +02:00
[
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Add files via upload
2020-01-08 14:32:46 +01:00
]
},
{
Update flows.json
2020-07-14 18:22:31 +02:00
"id": "d3f45b98.f05a58",
Add files via upload
2020-01-08 14:32:46 +01:00
"type": "function",
Update flows.json
2020-07-14 18:22:31 +02:00
"z": "c10e968b.87e488",
"name": "",
"func": "d = msg.payload;\n\nvar val = d.getUTCSeconds();\n\nmsg.payload = val;\nreturn msg;",
Add files via upload
2020-01-08 14:32:46 +01:00
"outputs": 1,
"noerr": 0,
Update flows.json
2020-07-14 18:22:31 +02:00
"x": 490,
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Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
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Update flows.json
2020-07-14 18:22:31 +02:00
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Add files via upload
2020-01-08 14:32:46 +01:00
]
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},
{
Update flows.json
2020-07-14 18:22:31 +02:00
"id": "c4527705.33a84",
"type": "ui_text_input",
"z": "863e8384.56889",
"name": "custom_nb_step",
"label": "Number of steps in between two images",
"tooltip": "",
"group": "48649115.fcd01",
"order": 2,
Add files via upload
2020-01-08 14:32:46 +01:00
"width": 0,
"height": 0,
Update flows.json
2020-07-14 18:22:31 +02:00
"passthru": true,
"mode": "number",
"delay": 300,
"topic": "custom_nb_step",
"x": 540,
"y": 80,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
Update flows.json
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[]
Add files via upload
2020-01-08 14:32:46 +01:00
]
},
{
Update flows.json
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"id": "582e21b2.ad67a8",
"type": "ui_text_input",
"z": "863e8384.56889",
"name": "custom_nb_frame",
"label": "Number of images per acquisition",
"tooltip": "",
"group": "48649115.fcd01",
"order": 3,
"width": 0,
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"passthru": true,
"mode": "number",
"delay": 300,
"topic": "custom_nb_frame",
"x": 530,
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Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
[]
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{
Update flows.json
2020-07-14 18:22:31 +02:00
"id": "3eaf4c98.d94b54",
Add files via upload
2020-01-08 14:32:46 +01:00
"type": "function",
Update flows.json
2020-07-14 18:22:31 +02:00
"z": "863e8384.56889",
"name": "get custom_nb_step",
"func": "msg.payload = msg.payload.custom_nb_step;\nreturn msg;",
Add files via upload
2020-01-08 14:32:46 +01:00
"outputs": 1,
"noerr": 0,
"x": 220,
Update flows.json
2020-07-14 18:22:31 +02:00
"y": 80,
"wires": [
[
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{
"id": "8eeb9e9e.a50d7",
"type": "function",
"z": "863e8384.56889",
"name": "get custom_nb_frame",
"func": "msg.payload = msg.payload.custom_nb_frame;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 220,
"y": 120,
Add files via upload
2020-01-08 14:32:46 +01:00
"wires": [
[
Update flows.json
2020-07-14 18:22:31 +02:00
"582e21b2.ad67a8"
Add files via upload
2020-01-08 14:32:46 +01:00
]
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Update flows.json
2020-07-14 18:22:31 +02:00
},
{
"id": "e4e16eb9.5296c",
"type": "function",
"z": "863e8384.56889",
"name": "get custom_segmentation",
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"noerr": 0,
"x": 230,
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{
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"type": "function",
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"name": "get custom_sleep_before",
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"outputs": 1,
"noerr": 0,
"x": 230,
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"wires": [
[
"f648e44.94e3998"
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{
"id": "f648e44.94e3998",
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"z": "863e8384.56889",
"name": "custom_sleep_before",
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"tooltip": "",
"group": "48649115.fcd01",
"order": 1,
"width": 0,
"height": 0,
"passthru": true,
"mode": "number",
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"topic": "custom_sleep_before",
"x": 520,
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"wires": [
[]
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{
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{
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"x": 200,
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},
{
"id": "3777e513.35c3fa",
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{
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{
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},
{
"t": "cont",
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"t": "eq",
"v": "Start",
"vt": "str"
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{
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},
{
"t": "eq",
"v": "Interrompted",
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}
],
"checkall": "true",
"repair": false,
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{
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{
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{
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"lon": "1.5",
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{
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"z": "b45c6fb6.f6dfa8",
"name": "set object_date",
"func": "var date = new Date(msg.payload);\n\nvar year = date.getUTCFullYear();\nvar month = date.getUTCMonth()+1;\nif (month<10){month = \"0\"+month;}\nvar day = date.getUTCDate();\nif (day<10){day = \"0\"+day;}\n\nvar date_UTC = \"\"+year+month+day;\nglobal.set('object_date',date_UTC);\n\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 804,
"y": 40,
"wires": [
[]
]
},
{
"id": "edee5fda.673ae",
"type": "debug",
"z": "b45c6fb6.f6dfa8",
"name": "",
"active": true,
"tosidebar": true,
"console": false,
"tostatus": false,
"complete": "true",
"targetType": "full",
"x": 280,
"y": 360,
"wires": []
},
{
"id": "5a5fcc9a.9ede14",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "set optical config",
"func": "global.set(msg.topic,msg.payload);\nvar acq_fnumber_objective = String(global.get(msg.topic));\n\nswitch(acq_fnumber_objective) {\n case \"25\":\n global.set(\"acq_magnification\",0.6);\n global.set(\"process_pixel\",1.86);\n global.set(\"sug_min\",60);\n global.set(\"sug_max\",670);\n global.set(\"sug_flowrate\",3);\n break;\n case \"16\":\n global.set(\"acq_magnification\",0.94);\n global.set(\"process_pixel\",1.19);\n global.set(\"sug_min\",40);\n global.set(\"sug_max\",430);\n global.set(\"sug_flowrate\",2.4);\n break;\n case \"12\":\n global.set(\"acq_magnification\",1.20);\n global.set(\"process_pixel\",0.94);\n global.set(\"sug_min\",30);\n global.set(\"sug_max\",340);\n global.set(\"sug_flowrate\",1.25);\n break;\n case \"8\":\n global.set(\"acq_magnification\",1.78);\n global.set(\"process_pixel\",0.63);\n global.set(\"sug_min\",20);\n global.set(\"sug_max\",230);\n global.set(\"sug_flowrate\",0.42);\n break;\n case \"6\":\n global.set(\"acq_magnification\",2.36);\n global.set(\"process_pixel\",0.48);\n global.set(\"sug_min\",15);\n global.set(\"sug_max\",170);\n global.set(\"sug_flowrate\",0.32);\n break;\n}\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 750,
"y": 360,
"wires": [
[]
]
},
{
"id": "3d3aafbf.e907a8",
"type": "ui_dropdown",
"z": "6ca1a253.126bb4",
"name": "acq_fnumber_objective",
"label": "M12 Lens*",
"tooltip": "",
"place": "Select option",
"group": "60b93a5.a032344",
"order": 3,
"width": 0,
"height": 0,
"passthru": true,
"options": [
{
"label": "f 25mm 1/2\" 5MP IR",
"value": 25,
"type": "num"
},
{
"label": "f 16mm 1/2.5\" 5MP IR",
"value": 16,
"type": "num"
},
{
"label": "f 12mm 1/2.5\" 5MP IR",
"value": 12,
"type": "num"
},
{
"label": "f 8mm 1/2.5\" 5MP IR",
"value": 8,
"type": "num"
},
{
"label": "f 6mm 1/2.5\" 5MP IR",
"value": 6,
"type": "num"
}
],
"payload": "",
"topic": "acq_fnumber_objective",
"x": 526,
"y": 360,
"wires": [
[
"5a5fcc9a.9ede14"
]
]
},
{
"id": "12e818fa.b7301f",
"type": "ui_numeric",
"z": "6ca1a253.126bb4",
"name": "acq_minimum_mesh",
"label": "Min fraction size (μm)",
"tooltip": "",
"group": "60b93a5.a032344",
"order": 8,
"width": 0,
"height": 0,
"wrap": false,
"passthru": true,
"topic": "acq_minimum_mesh",
"format": "{{value}}",
"min": 0,
"max": "300",
"step": "10",
"x": 536,
"y": 160,
"wires": [
[]
]
},
{
"id": "b577dcd2.8d2c88",
"type": "ui_numeric",
"z": "6ca1a253.126bb4",
"name": "acq_maximum_mesh",
"label": "Max fraction size (μm)",
"tooltip": "",
"group": "60b93a5.a032344",
"order": 4,
"width": 0,
"height": 0,
"wrap": false,
"passthru": true,
"topic": "acq_maximum_mesh",
"format": "{{value}}",
"min": "200",
"max": "2000",
"step": "100",
"x": 536,
"y": 200,
"wires": [
[]
]
},
{
"id": "21b35429.fe43a4",
"type": "ui_text_input",
"z": "6ca1a253.126bb4",
"name": "acq_id",
"label": "Acquisition unique ID*",
"tooltip": "",
"group": "60b93a5.a032344",
"order": 1,
"width": 0,
"height": 0,
"passthru": true,
"mode": "number",
"delay": 300,
"topic": "acq_id",
"x": 586,
"y": 40,
"wires": [
[]
]
},
{
"id": "c4e69883.a0f3d",
"type": "ui_dropdown",
"z": "6ca1a253.126bb4",
"name": "acq_celltype",
"label": "Thickness flowcell*",
"tooltip": "",
"place": "Select option",
"group": "60b93a5.a032344",
"order": 7,
"width": 0,
"height": 0,
"passthru": true,
"options": [
{
"label": "200 μm µ-Slide I Luer",
"value": 200,
"type": "num"
},
{
"label": "400 μm µ-Slide I Luer",
"value": 400,
"type": "num"
},
{
"label": "600 μm µ-Slide I Luer",
"value": 600,
"type": "num"
},
{
"label": "800 μm µ-Slide I Luer",
"value": 800,
"type": "num"
}
],
"payload": "",
"topic": "acq_celltype",
"x": 566,
"y": 120,
"wires": [
[]
]
},
{
"id": "f7f5ccc1.29a41",
"type": "ui_text_input",
"z": "6ca1a253.126bb4",
"name": "acq_volume",
"label": "Volume to pass (ml)",
"tooltip": "",
"group": "60b93a5.a032344",
"order": 2,
"width": 0,
"height": 0,
"passthru": true,
"mode": "number",
"delay": 300,
"topic": "acq_volume",
"x": 566,
"y": 240,
"wires": [
[]
]
},
{
"id": "f0595ff1.c4d568",
"type": "ui_text_input",
"z": "6ca1a253.126bb4",
"name": "acq_instrument",
"label": "Acquisition instrument",
"tooltip": "PlanktonScope V2.1",
"group": "60b93a5.a032344",
"order": 6,
"width": 0,
"height": 0,
"passthru": true,
"mode": "text",
"delay": 300,
"topic": "acq_instrument",
"x": 556,
"y": 80,
"wires": [
[]
]
},
{
"id": "93a3fd29.c55938",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_id",
"func": "msg.payload = msg.payload.acq_id+1;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 210,
"y": 40,
"wires": [
[
"21b35429.fe43a4"
]
]
},
{
"id": "9e9e7f8a.b66d4",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_instrument",
"func": "msg.payload = msg.payload.acq_instrument;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 230,
"y": 80,
"wires": [
[
"f0595ff1.c4d568"
]
]
},
{
"id": "b1105180.b4b78",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_celltype",
"func": "msg.payload = msg.payload.acq_celltype;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 220,
"y": 120,
"wires": [
[
"c4e69883.a0f3d"
]
]
},
{
"id": "ec403304.e34c58",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_minimum_mesh",
"func": "msg.payload = msg.payload.acq_minimum_mesh;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 250,
"y": 160,
"wires": [
[
"12e818fa.b7301f"
]
]
},
{
"id": "7aac5c46.0669ec",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_maximum_mesh",
"func": "msg.payload = msg.payload.acq_maximum_mesh;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 250,
"y": 200,
"wires": [
[
"b577dcd2.8d2c88"
]
]
},
{
"id": "c491cf7.36957b",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_volume",
"func": "msg.payload = msg.payload.acq_volume;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 220,
"y": 240,
"wires": [
[
"f7f5ccc1.29a41"
]
]
},
{
"id": "31d58fcd.ede758",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_fnumber_objective",
"func": "msg.payload = msg.payload.acq_fnumber_objective;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 260,
"y": 360,
"wires": [
[
"3d3aafbf.e907a8"
]
]
},
{
"id": "bd733bef.7efd08",
"type": "ui_numeric",
"z": "6ca1a253.126bb4",
"name": "acq_min_esd",
"label": "Minimum size to segment (μm)",
"tooltip": "",
"group": "60b93a5.a032344",
"order": 9,
"width": 0,
"height": 0,
"wrap": false,
"passthru": true,
"topic": "acq_min_esd",
"format": "{{value}}",
"min": 0,
"max": "300",
"step": "5",
"x": 566,
"y": 280,
"wires": [
[]
]
},
{
"id": "a6057924.bc14",
"type": "ui_numeric",
"z": "6ca1a253.126bb4",
"name": "acq_max_esd",
"label": "Maximum size to segment (μm)",
"tooltip": "",
"group": "60b93a5.a032344",
"order": 5,
"width": 0,
"height": 0,
"wrap": false,
"passthru": true,
"topic": "acq_max_esd",
"format": "{{value}}",
"min": "100",
"max": "2000",
"step": "5",
"x": 556,
"y": 320,
"wires": [
[]
]
},
{
"id": "e0644195.305068",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_min_esd",
"func": "msg.payload = msg.payload.acq_min_esd;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 230,
"y": 280,
"wires": [
[
"bd733bef.7efd08"
]
]
},
{
"id": "e3fe6242.bfaf18",
"type": "function",
"z": "6ca1a253.126bb4",
"name": "get acq_max_esd",
"func": "msg.payload = msg.payload.acq_max_esd;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 230,
"y": 320,
"wires": [
[
"a6057924.bc14"
]
]
},
{
"id": "edfb5b10.95636",
"type": "function",
"z": "626459d2.f9c98",
"name": "pump.js",
"func": "state = global.get(\"state\");\n\nif (state == null){state=\"free\"}\n\nvar manual_volume= global.get(\"pump_manual_volume\");\nvar flowrate= global.get(\"pump_flowrate\");\n\nif (manual_volume === undefined || manual_volume === \"\" || manual_volume === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Volume to pass\";\n \n}else if (flowrate === undefined || flowrate === \"\" || flowrate === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Flowrate\";\n \n}else {\n volume = global.get(\"pump_manual_volume\");\n nb_step=volume*507\n msg.volume = volume;\n flowrate = global.get(\"pump_flowrate\");\n duration=(volume*60)/flowrate\n delay=(duration/nb_step)-0.005\n msg.topic = \"actuator/pump\";\n \n if(msg.payload === \"FORWARD\" & state===\"free\"){\n msg.payload='FORWARD '+delay+' '+nb_step;\n }\n if(msg.payload === \"BACKWARD\" & state===\"free\"){\n msg.payload='BACKWARD '+delay+' '+nb_step;\n }\n}\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 640,
"y": 140,
"wires": [
[
"fb35e49.f64de18"
]
],
"info": "### Focusing\n##### focus.py `nb_step` `orientation`\n\n- `nb_step` : **integer** (from 1 to 100000) - number of step to perform by the stage (about 31um/step)\n- `orientation` : **string** - orientation of the focus either `up` or `down`\n\nExample:\n\n python3.7 $HOME/PlanktonScope/scripts/focus.py 650 up\n"
},
{
"id": "26686514.749b4a",
"type": "ui_button",
"z": "626459d2.f9c98",
"name": "BACKWARD",
"group": "4153382f.45437",
"order": 2,
"width": 6,
"height": 1,
"passthru": false,
"label": "",
"tooltip": "",
"color": "",
"bgcolor": "",
"icon": "arrow_back",
"payload": "BACKWARD",
"payloadType": "str",
"topic": "actuator/pump",
"x": 470,
"y": 120,
"wires": [
[
"edfb5b10.95636"
]
]
},
{
"id": "bee2fd6d.cffb28",
"type": "ui_button",
"z": "626459d2.f9c98",
"name": "FORWARD",
"group": "4153382f.45437",
"order": 4,
"width": 6,
"height": 1,
"passthru": true,
"label": "",
"tooltip": "",
"color": "",
"bgcolor": "",
"icon": "arrow_forward",
"payload": "FORWARD",
"payloadType": "str",
"topic": "actuator/pump",
"x": 470,
"y": 160,
"wires": [
[
"edfb5b10.95636"
]
]
},
{
"id": "fb35e49.f64de18",
"type": "switch",
"z": "626459d2.f9c98",
"name": "",
"property": "topic",
"propertyType": "msg",
"rules": [
{
"t": "eq",
"v": "actuator/pump",
"vt": "str"
},
{
"t": "eq",
"v": "Missing entry :",
"vt": "str"
}
],
"checkall": "true",
"repair": false,
"outputs": 2,
"x": 770,
"y": 140,
"wires": [
[
"f6aa3e03.85018"
],
[
"f6dcda51.633398"
]
]
},
{
"id": "f6dcda51.633398",
"type": "ui_toast",
"z": "626459d2.f9c98",
"position": "dialog",
"displayTime": "3",
"highlight": "",
"sendall": true,
"outputs": 1,
"ok": "OK",
"cancel": "",
"raw": false,
"topic": "",
"name": "",
"x": 930,
"y": 160,
"wires": [
[]
]
},
{
"id": "c3edd9e7.1ac36",
"type": "ui_button",
"z": "626459d2.f9c98",
"name": "stop pump",
"group": "4153382f.45437",
"order": 5,
"width": 4,
"height": 1,
"passthru": true,
"label": "STOP PUMP",
"tooltip": "",
"color": "",
"bgcolor": "#AD1625",
"icon": "",
"payload": "off",
"payloadType": "str",
"topic": "actuator/wait",
"x": 470,
"y": 200,
"wires": [
[
"2521ba15.88a58e"
]
]
},
{
"id": "f6aa3e03.85018",
"type": "mqtt out",
"z": "626459d2.f9c98",
"name": "",
"topic": "",
"qos": "",
"retain": "",
"broker": "e8ab36cc.74d77",
"x": 910,
"y": 120,
"wires": []
},
{
"id": "2521ba15.88a58e",
"type": "mqtt out",
"z": "626459d2.f9c98",
"name": "",
"topic": "",
"qos": "",
"retain": "",
"broker": "e8ab36cc.74d77",
"x": 610,
"y": 200,
"wires": []
},
{
"id": "2f9ec1a6.d5fb66",
"type": "ui_text_input",
"z": "626459d2.f9c98",
"name": "pump_manual_volume",
"label": "Volume to pass (ml)",
"tooltip": "",
"group": "4153382f.45437",
"order": 3,
"width": 8,
"height": 1,
"passthru": true,
"mode": "number",
"delay": 300,
"topic": "pump_manual_volume",
"x": 480,
"y": 80,
"wires": [
[]
]
},
{
"id": "50093f5.8e35ec",
"type": "function",
"z": "626459d2.f9c98",
"name": "get pump_manual_volume",
"func": "msg.payload = msg.payload.pump_manual_volume;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 220,
"y": 80,
"wires": [
[
"2f9ec1a6.d5fb66"
]
]
},
{
"id": "fa485315.928ae",
"type": "ui_slider",
"z": "626459d2.f9c98",
"name": "pump_flowrate",
"label": "Flowrate (ml/min)*",
"tooltip": "",
"group": "4153382f.45437",
"order": 1,
"width": 0,
"height": 0,
"passthru": true,
"outs": "end",
"topic": "pump_flowrate",
"min": 0,
"max": "20",
"step": "0.1",
"x": 500,
"y": 40,
"wires": [
[]
]
},
{
"id": "f7b6f5e7.7b7ca",
"type": "function",
"z": "626459d2.f9c98",
"name": "get pump_flowrate",
"func": "msg.payload = msg.payload.pump_flowrate;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 190,
"y": 40,
"wires": [
[
"fa485315.928ae"
]
]
},
{
"id": "7297e2f7.dce564",
"type": "ui_text_input",
"z": "5c516299.73e054",
"name": "focus_nb_step",
"label": "Number of step(s)",
"tooltip": "",
"group": "69433259.f306fc",
"order": 2,
"width": 8,
"height": 1,
"passthru": true,
"mode": "number",
"delay": 300,
"topic": "focus_nb_step",
"x": 540,
"y": 40,
"wires": [
[]
]
},
{
"id": "60dc5851.6962b",
"type": "function",
"z": "5c516299.73e054",
"name": "get focus_nb_step",
"func": "msg.payload = msg.payload.focus_nb_step;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 230,
"y": 40,
"wires": [
[
"7297e2f7.dce564"
]
]
},
{
"id": "7200408d.a1be4",
"type": "ui_button",
"z": "5c516299.73e054",
"name": "DOWN",
"group": "69433259.f306fc",
"order": 3,
"width": 6,
"height": 1,
"passthru": true,
"label": "",
"tooltip": "",
"color": "",
"bgcolor": "",
"icon": "arrow_downward",
"payload": "DOWN",
"payloadType": "str",
"topic": "actuator/focus",
"x": 520,
"y": 120,
"wires": [
[
"2e2a455b.5ff4fa"
]
]
},
{
"id": "7f823e6.d3bcfc",
"type": "ui_button",
"z": "5c516299.73e054",
"name": "UP",
"group": "69433259.f306fc",
"order": 1,
"width": 6,
"height": 1,
"passthru": false,
"label": "",
"tooltip": "",
"color": "",
"bgcolor": "",
"icon": "arrow_upwards",
"payload": "UP",
"payloadType": "str",
"topic": "actuator/focus",
"x": 530,
"y": 81,
"wires": [
[
"2e2a455b.5ff4fa"
]
]
},
{
"id": "54482c7a.a384ac",
"type": "switch",
"z": "5c516299.73e054",
"name": "",
"property": "topic",
"propertyType": "msg",
"rules": [
{
"t": "eq",
"v": "actuator/focus",
"vt": "str"
},
{
"t": "eq",
"v": "Missing entry :",
"vt": "str"
}
],
"checkall": "true",
"repair": false,
"outputs": 2,
"x": 810,
"y": 100,
"wires": [
[
"2a7a3d34.08e2a2"
],
[
"4277442b.04d1b4"
]
]
},
{
"id": "4277442b.04d1b4",
"type": "ui_toast",
"z": "5c516299.73e054",
"position": "dialog",
"displayTime": "3",
"highlight": "",
"sendall": true,
"outputs": 1,
"ok": "OK",
"cancel": "",
"raw": false,
"topic": "",
"name": "",
"x": 970,
"y": 140,
"wires": [
[]
]
},
{
"id": "2e2a455b.5ff4fa",
"type": "function",
"z": "5c516299.73e054",
"name": "focus.js",
"func": "state = global.get(\"state\");\n\nif (state == null){state=\"free\"}\n\nvar nb_step= global.get(\"focus_nb_step\");\n\nif (nb_step === undefined || nb_step === \"\" || nb_step === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Number of steps\";\n \n}else {\n nb_step= global.get(\"focus_nb_step\");\n if(msg.payload === \"UP\" & state===\"free\"){\n msg.payload=\"FORWARD \"+nb_step;\n }\n if(msg.payload === \"DOWN\" & state===\"free\"){\n msg.payload=\"BACKWARD \"+nb_step;\n }\n}\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 660,
"y": 100,
"wires": [
[
"54482c7a.a384ac"
]
],
"info": "### Focusing\n##### focus.py `nb_step` `orientation`\n\n- `nb_step` : **integer** (from 1 to 100000) - number of step to perform by the stage (about 31um/step)\n- `orientation` : **string** - orientation of the focus either `up` or `down`\n\nExample:\n\n python3.7 $HOME/PlanktonScope/scripts/focus.py 650 up\n"
},
{
"id": "73e0d0c.c07ab3",
"type": "ui_button",
"z": "5c516299.73e054",
"name": "stop focus",
"group": "69433259.f306fc",
"order": 4,
"width": 4,
"height": 1,
"passthru": true,
"label": "STOP FOCUS",
"tooltip": "",
"color": "",
"bgcolor": "#AD1625",
"icon": "",
"payload": "off",
"payloadType": "str",
"topic": "actuator/wait",
"x": 510,
"y": 160,
"wires": [
[
"8e86348d.69657"
]
]
},
{
"id": "2a7a3d34.08e2a2",
"type": "mqtt out",
"z": "5c516299.73e054",
"name": "",
"topic": "",
"qos": "",
"retain": "",
"broker": "e8ab36cc.74d77",
"x": 950,
"y": 80,
"wires": []
},
{
"id": "8e86348d.69657",
"type": "mqtt out",
"z": "5c516299.73e054",
"name": "",
"topic": "",
"qos": "",
"retain": "",
"broker": "e8ab36cc.74d77",
"x": 650,
"y": 160,
"wires": []
},
{
"id": "10f1e5c1.3cb69a",
"type": "ui_text_input",
"z": "efeebffd.34c7e",
"name": "sample_ship",
"label": "Name of the ship",
"tooltip": "",
"group": "417f91c9.193ab",
"order": 2,
"width": 0,
"height": 0,
"passthru": true,
"mode": "text",
"delay": 300,
"topic": "sample_ship",
"x": 590,
"y": 120,
"wires": [
[]
]
},
{
"id": "da0c5a96.74c0e",
"type": "ui_dropdown",
"z": "efeebffd.34c7e",
"name": "sample_sampling_gear",
"label": "Sampling gear",
"tooltip": "",
"place": "Select",
"group": "417f91c9.193ab",
"order": 4,
"width": 0,
"height": 0,
"passthru": true,
"options": [
{
"label": "Plankton net",
"value": "net",
"type": "str"
},
{
"label": "Niskin bottle 12L",
"value": "niskin_12L",
"type": "str"
},
{
"label": "Niskin bottle 24L",
"value": "niskin_24L",
"type": "str"
},
{
"label": "Pass Hull",
"value": "pass_hull",
"type": "str"
},
{
"label": "Flask",
"value": "flask",
"type": "str"
}
],
"payload": "",
"topic": "sample_sampling_gear",
"x": 550,
"y": 200,
"wires": [
[]
]
},
{
"id": "aa90b06d.ca78e",
"type": "ui_text_input",
"z": "efeebffd.34c7e",
"name": "sample_operator",
"label": "Name of the operator",
"tooltip": "",
"group": "417f91c9.193ab",
"order": 3,
"width": 0,
"height": 0,
"passthru": true,
"mode": "text",
"delay": 300,
"topic": "sample_operator",
"x": 570,
"y": 160,
"wires": [
[]
]
},
{
"id": "1cb896c7.6dfc11",
"type": "ui_text_input",
"z": "efeebffd.34c7e",
"name": "sample_project",
"label": "Name of the project*",
"tooltip": "",
"group": "417f91c9.193ab",
"order": 1,
"width": 0,
"height": 0,
"passthru": true,
"mode": "text",
"delay": 300,
"topic": "sample_project",
"x": 580,
"y": 40,
"wires": [
[]
]
},
{
"id": "288ba4b3.a9a2cc",
"type": "ui_text_input",
"z": "efeebffd.34c7e",
"name": "sample_id",
"label": "ID of the station*",
"tooltip": "",
"group": "417f91c9.193ab",
"order": 5,
"width": 0,
"height": 0,
"passthru": true,
"mode": "number",
"delay": 300,
"topic": "sample_id",
"x": 590,
"y": 80,
"wires": [
[]
]
},
{
"id": "78f5791d.946bd8",
"type": "function",
"z": "efeebffd.34c7e",
"name": "get sample_projet",
"func": "msg.payload = msg.payload.sample_project;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 250,
"y": 40,
"wires": [
[
"1cb896c7.6dfc11"
]
]
},
{
"id": "2a09d440.119154",
"type": "function",
"z": "efeebffd.34c7e",
"name": "get sample_ship",
"func": "msg.payload = msg.payload.sample_ship;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 240,
"y": 120,
"wires": [
[
"10f1e5c1.3cb69a"
]
]
},
{
"id": "346d141f.ebab3c",
"type": "function",
"z": "efeebffd.34c7e",
"name": "get sample_id",
"func": "msg.payload = msg.payload.sample_id+1;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 240,
"y": 80,
"wires": [
[
"288ba4b3.a9a2cc"
]
]
},
{
"id": "2d438355.ed942c",
"type": "function",
"z": "efeebffd.34c7e",
"name": "get sample_operator",
"func": "msg.payload = msg.payload.sample_operator;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 260,
"y": 160,
"wires": [
[
"aa90b06d.ca78e"
]
]
},
{
"id": "ac4a71a.c35309",
"type": "function",
"z": "efeebffd.34c7e",
"name": "get sample_sampling_gear",
"func": "msg.payload = msg.payload.sample_sampling_gear;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 280,
"y": 200,
"wires": [
[
"da0c5a96.74c0e"
]
]
},
{
"id": "45482528.43f93c",
"type": "function",
"z": "ff9251a5.9c5e18",
"name": "get global",
"func": "msg.payload={\n \n \"sample_project\":global.get(\"sample_project\"),\n \"sample_id\":global.get(\"sample_id\"),\n \"sample_ship\":global.get(\"sample_ship\"),\n \"sample_operator\":global.get(\"sample_operator\"),\n \"sample_sampling_gear\":global.get(\"sample_sampling_gear\"),\n \n \"acq_id\":global.get(\"acq_id\"),\n \"acq_instrument\":global.get(\"acq_instrument\"),\n //\"acq_instrument_id\":global.get(\"acq_instrument_id\"),\n \"acq_celltype\":global.get(\"acq_celltype\"),\n \"acq_minimum_mesh\":global.get(\"acq_minimum_mesh\"),\n \"acq_maximum_mesh\":global.get(\"acq_maximum_mesh\"),\n \"acq_min_esd\":global.get(\"acq_min_esd\"),\n \"acq_max_esd\":global.get(\"acq_max_esd\"),\n \"acq_volume\":global.get(\"acq_volume\"),\n \"acq_magnification\":global.get(\"magnification\"),\n \"acq_fnumber_objective\":global.get(\"acq_fnumber_objective\"),\n \n \"acq_camera_name\":\"Pi Camera V2.1 - 8MP\",\n \n \"object_date\":global.get(\"object_date\"),\n \"object_time\":global.get(\"object_time\"),\n \"object_lat\":global.get(\"object_lat\"),\n \"object_lon\":global.get(\"object_lon\"),\n \"object_depth_min\":global.get(\"object_depth_min\"),\n \"object_depth_max\":global.get(\"object_depth_max\"),\n \n \"custom_nb_frame\":global.get(\"custom_nb_frame\"),\n \"custom_nb_step\":global.get(\"custom_nb_step\"),\n \"custom_segmentation\":global.get(\"custom_segmentation\"),\n \"custom_sleep_before\":global.get(\"custom_sleep_before\"),\n \"focus_nb_step\":global.get(\"focus_nb_step\"),\n \"pump_flowrate\":global.get(\"pump_flowrate\"),\n \"pump_manual_volume\":global.get(\"pump_manual_volume\"),\n \n \"process_pixel\":global.get(\"process_pixel\"),\n \"process_id\":global.get(\"process_id\")\n \n \n};\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 1260,
"y": 160,
"wires": [
[
"fe81be99.6859e8"
]
]
},
{
"id": "a5f18550.68466",
"type": "file",
"z": "ff9251a5.9c5e18",
"name": "",
"filename": "/home/pi/PlanktonScope/config.json",
"appendNewline": true,
"createDir": true,
"overwriteFile": "true",
"encoding": "none",
"x": 1640,
"y": 160,
"wires": [
[]
]
},
{
"id": "fe81be99.6859e8",
"type": "json",
"z": "ff9251a5.9c5e18",
"name": "config.json",
"property": "payload",
"action": "str",
"pretty": true,
"x": 1410,
"y": 160,
"wires": [
[
"a5f18550.68466"
]
]
},
{
"id": "b24cc280.5a59b",
"type": "file in",
"z": "ff9251a5.9c5e18",
"name": "",
"filename": "/home/pi/PlanktonScope/config.json",
"format": "utf8",
"chunk": false,
"sendError": false,
"encoding": "none",
"x": 360,
"y": 80,
"wires": [
[
"11e5237b.e558c5"
]
],
"info": "# PlanktonScope Help\nThis Node will read the content of the file named **config.txt** containing all the input placeholders.\n"
},
{
"id": "4c6084c.1b7bb7c",
"type": "inject",
"z": "ff9251a5.9c5e18",
"name": "on_load",
"topic": "",
"payload": "",
"payloadType": "date",
"repeat": "",
"crontab": "",
"once": true,
"onceDelay": 0.1,
"x": 120,
"y": 80,
"wires": [
[
"b24cc280.5a59b",
"845bb10c.d99208",
"a01c8373.701628"
]
],
"info": "# PlanktonScope Help\nWhen the **Pi** is booting, **Node-RED** will be initiated and this node will be activated once and execute the following nodes."
},
{
"id": "11e5237b.e558c5",
"type": "json",
"z": "ff9251a5.9c5e18",
"name": "config.json",
"property": "payload",
"action": "",
"pretty": false,
"x": 610,
"y": 80,
"wires": [
[
"9dc8498a.4a36b",
"9b67b810.97a618",
"32282348.35c09c",
"fe7c0e45.ee983",
"3e6ceaa0.5fad56",
"9e577327.d9a1f",
"c50792f5.6b5148"
]
]
},
{
"id": "f72f54db.590c9",
"type": "function",
"z": "ff9251a5.9c5e18",
"name": "set global",
"func": "var value = msg.payload;\nvar key = msg.topic;\n\nglobal.set(key,value);\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 1080,
"y": 80,
"wires": [
[
"45482528.43f93c"
]
]
},
{
"id": "2372125a.7f69d6",
"type": "rpi-gpio out",
"z": "ff9251a5.9c5e18",
"name": "",
"pin": "40",
"set": "",
"level": "0",
"freq": "",
"out": "out",
"x": 440,
"y": 120,
"wires": []
},
{
"id": "bae08e6f.11bc28",
"type": "ui_template",
"z": "ff9251a5.9c5e18",
"group": "dc721eb.9ef51e",
"name": "Stream Pi Camera",
"order": 1,
"width": 24,
"height": 11,
"format": "<center><iframe id=\"inlineFrameExample\"\n title=\"Inline Frame Example\"\n height=\"600\"\n width=\"800\"\n frameborder=\"0\"\n src=\"http://192.168.4.1:8000/index.html\">\n</iframe></center>",
"storeOutMessages": true,
"fwdInMessages": true,
"templateScope": "local",
"x": 850,
"y": 320,
"wires": [
[]
]
},
{
"id": "845bb10c.d99208",
"type": "function",
"z": "ff9251a5.9c5e18",
"name": "init LED",
"func": "msg.payload=1;\nreturn msg;",
"outputs": 1,
"noerr": 0,
"x": 280,
"y": 120,
"wires": [
[
"2372125a.7f69d6"
]
]
},
{
"id": "9dc8498a.4a36b",
"type": "subflow:efeebffd.34c7e",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 830,
"y": 80,
"wires": [
[
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]
},
{
"id": "9e577327.d9a1f",
"type": "subflow:5c516299.73e054",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 846,
"y": 242,
"wires": [
[
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]
},
{
"id": "c50792f5.6b5148",
"type": "subflow:626459d2.f9c98",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 846,
"y": 282,
"wires": [
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]
},
{
"id": "9b67b810.97a618",
"type": "subflow:6ca1a253.126bb4",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 840,
"y": 120,
"wires": [
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},
{
"id": "32282348.35c09c",
"type": "subflow:b45c6fb6.f6dfa8",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 820,
"y": 160,
"wires": [
[
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],
[
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]
},
{
"id": "8e1d0d8d.fc54d8",
"type": "subflow:fbe9590f.bd63b8",
"z": "ff9251a5.9c5e18",
"name": "System commands",
"env": [],
"x": 850,
"y": 500,
"wires": []
},
{
"id": "f8a906b3.a2c81",
"type": "subflow:9882c53a.0ccc8",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 320,
"y": 280,
"wires": []
},
{
"id": "b1be7e1e.9ec3c8",
"type": "subflow:a8ad6dec.1a393",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 850,
"y": 420,
"wires": []
},
{
"id": "fe7c0e45.ee983",
"type": "subflow:5a287804.a10e2",
"z": "ff9251a5.9c5e18",
"name": "process metadata",
"env": [],
"x": 830,
"y": 200,
"wires": [
[
"f72f54db.590c9"
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]
},
{
"id": "3e6ceaa0.5fad56",
"type": "subflow:863e8384.56889",
"z": "ff9251a5.9c5e18",
"name": "Acquisition inputs",
"env": [],
"x": 836,
"y": 362,
"wires": [
[
"f72f54db.590c9"
]
],
"icon": "node-red-dashboard/ui_switch.png"
},
{
"id": "a01c8373.701628",
"type": "subflow:c10e968b.87e488",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 300,
"y": 200,
"wires": []
},
{
"id": "1924ce1c.0459f2",
"type": "subflow:c1d3ff7c.4384f",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 290,
"y": 240,
"wires": []
},
{
"id": "d3892f94.428a28",
"type": "subflow:bba19d97.b32b1",
"z": "ff9251a5.9c5e18",
"name": "",
"env": [],
"x": 850,
"y": 460,
"wires": []
},
{
"id": "e73525a.1103158",
"type": "ui_switch",
"z": "ff9251a5.9c5e18",
"name": "",
"label": "LED",
"tooltip": "",
"group": "9c86b3b7.54841",
"order": 10,
"width": 0,
"height": 0,
"passthru": true,
"decouple": "false",
"topic": "",
"style": "",
"onvalue": "true",
"onvalueType": "bool",
"onicon": "",
"oncolor": "",
"offvalue": "false",
"offvalueType": "bool",
"officon": "",
"offcolor": "",
"x": 270,
"y": 160,
"wires": [
[
"2372125a.7f69d6"
]
]
},
{
"id": "be37d12f.0898f",
"type": "file",
"z": "c1d3ff7c.4384f",
"name": "",
"filename": "/home/pi/PlanktonScope/script/main.py",
"appendNewline": false,
"createDir": true,
"overwriteFile": "true",
"encoding": "none",
"x": 530,
"y": 100,
"wires": [
[
"23f3e613.20ad82"
]
]
},
{
"id": "49e31e85.7ac51",
"type": "template",
"z": "c1d3ff7c.4384f",
"name": "main.py",
"field": "payload",
"fieldType": "msg",
"format": "python",
"syntax": "plain",
"template": "################################################################################\n#Actuator Libraries\n################################################################################\n\n#Library for exchaning messages with Node-RED\nimport paho.mqtt.client as mqtt\n\n#Library to control the PiCamera\nfrom picamera import PiCamera\n\n#Libraries to control the steppers for focusing and pumping\nfrom adafruit_motor import stepper\nfrom adafruit_motorkit import MotorKit\n\n#Library to send command over I2C for the light module on the fan\nimport smbus\n\n################################################################################\n#Practical Libraries\n################################################################################\n\n#Library to get date and time for folder name and filename\nfrom datetime import datetime, timedelta\n\n#Library to be able to sleep for a duration\nfrom time import sleep\n\n#Libraries manipulate json format, execute bash commands\nimport json, shutil, os, subprocess\n\n################################################################################\n#Morphocut Libraries\n################################################################################\n\nfrom skimage.util import img_as_ubyte\nfrom morphocut import Call\nfrom morphocut.contrib.ecotaxa import EcotaxaWriter\nfrom morphocut.contrib.zooprocess import CalculateZooProcessFeatures\nfrom morphocut.core import Pipeline\nfrom morphocut.file import Find\nfrom morphocut.image import (ExtractROI,\n FindRegions,\n ImageReader,\n ImageWriter,\n RescaleIntensity,\n RGB2Gray\n)\nfrom morphocut.stat import RunningMedian\nfrom morphocut.str import Format\nfrom morphocut.stream import TQDM, Enumerate, FilterVariables\n\n################################################################################\n#Other image processing Libraries\n################################################################################\n\nfrom skimage.feature import canny\nfrom skimage.color import rgb2gray, label2rgb\nfrom skimage.morphology import disk\nfrom skimage.morphology import erosion, dilation, closing\nfrom skimage.measure import label, regionprops\nimport cv2\n\n################################################################################\n#Streaming PiCamera over server\n################################################################################\nimport io\nimport picamera\nimport logging\nimport socketserver\nfrom threading import Condition\nfrom http import server\nimport threading\n\n################################################################################\n#Creation of the webpage containing the PiCamera Streaming\n################################################################################\n\nPAGE=\"\"\"\\\n<html>\n<head>\n<title>PlanktonScope v2 | PiCamera Streaming</title>\n</head>\n<body>\n<img src=\"stream.mjpg\" width=\"640\" height=\"480\" />\n</body>\n</html>\n\"\"\"\n\n################################################################################\n#Classes for the PiCamera Streaming\n################################################################################\n\nclass StreamingOutput(object):\n def __init__(self):\n self.frame = None\n self.buffer = io.BytesIO()\n self.condition = Condition()\n\n def write(self, buf):\n if buf.startswith(b'\\xff\\xd8'):\n # New frame, copy the existing buffer's content and notify all\n # clients it's available\n self.buffer.truncate()\n with self.condition:\n self.frame = self.buffer.getvalue()\n self.condition.notify_all()\n self.buffer.seek(0)\n return self.buffer.write(buf)\n\nclass StreamingHandler(server.BaseHTTPRequestHandler):\n def do_GET(self):\n if self.path == '/':\n self.send_response(301)\n self.send_header('Location', '/index.html')\n self.end_headers()\n elif self.path == '/index.html':\n content = PAGE.encode('utf-8')\n self.send_resp
"output": "str",
"x": 300,
"y": 100,
"wires": [
[
"be37d12f.0898f"
]
]
},
{
"id": "f9705bc.3d322a8",
"type": "ui_switch",
"z": "863e8384.56889",
"name": "custom_segmentation",
"label": "Realize the segmentation",
"tooltip": "",
"group": "48649115.fcd01",
"order": 6,
"width": 0,
"height": 0,
"passthru": true,
"decouple": "false",
"topic": "custom_segmentation",
"style": "",
"onvalue": "True",
"onvalueType": "str",
"onicon": "",
"oncolor": "",
"offvalue": "False",
"offvalueType": "str",
"officon": "",
"offcolor": "",
"x": 520,
"y": 160,
"wires": [
[]
]
},
{
"id": "2de12b49.050f44",
"type": "debug",
"z": "c1d3ff7c.4384f",
"name": "",
"active": true,
"tosidebar": true,
"console": false,
"tostatus": false,
"complete": "true",
"targetType": "full",
"x": 1230,
"y": 200,
"wires": []
},
{
"id": "5079cccb.298d14",
"type": "exec",
"z": "c1d3ff7c.4384f",
"command": "ps -ax | grep \"python3.7 /home/pi/PlanktonScope/script/main.py\"| head -1 | awk -F \" \" '{print$1}' ",
"addpay": false,
"append": "",
"useSpawn": "false",
"timer": "",
"oldrc": false,
"name": "",
"x": 430,
"y": 40,
"wires": [
[
"c47c2122.5eea38"
],
[],
[]
]
},
{
"id": "c47c2122.5eea38",
"type": "exec",
"z": "c1d3ff7c.4384f",
"command": "kill",
"addpay": true,
"append": "",
"useSpawn": "false",
"timer": "",
"oldrc": false,
"name": "",
"x": 910,
"y": 40,
"wires": [
[],
[],
[]
]
},
{
"id": "197215b2.165f22",
"type": "delay",
"z": "c1d3ff7c.4384f",
"name": "",
"pauseType": "delay",
"timeout": "1",
"timeoutUnits": "seconds",
"rate": "1",
"nbRateUnits": "1",
"rateUnits": "second",
"randomFirst": "1",
"randomLast": "5",
"randomUnits": "seconds",
"drop": false,
"x": 160,
"y": 100,
"wires": [
[
"49e31e85.7ac51"
]
]
},
{
"id": "589fbae2.8ff914",
"type": "debug",
"z": "a8ad6dec.1a393",
"name": "",
"active": true,
"tosidebar": true,
"console": false,
"tostatus": false,
"complete": "true",
"targetType": "full",
"x": 240,
"y": 140,
"wires": []
Add files via upload
2020-01-08 14:32:46 +01:00
}
Rename scripts/flows.json to flows/flows.json
2020-01-28 01:29:58 +01:00
]
Reference in a new issue Copy permalink