[ { "id": "259c8713.b50e28", "type": "tab", "label": "Main", "disabled": false, "info": "" }, { "id": "6d0d6fc7.d30bb", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "sample_ship", "label": "Name of the ship", "tooltip": "", "group": "3e1ba03d.f01d8", "order": 3, "width": 12, "height": 1, "passthru": true, "mode": "text", "delay": 300, "topic": "sample_ship", "x": 1370, "y": 140, "wires": [ [ "de9708c2.d00068" ] ] }, { "id": "43b12fe4.c5aa3", "type": "ui_dropdown", "z": "259c8713.b50e28", "name": "sample_sampling_gear", "label": "Sampling gear", "tooltip": "", "place": "Select", "group": "3e1ba03d.f01d8", "order": 5, "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" } ], "payload": "", "topic": "sample_sampling_gear", "x": 1330, "y": 220, "wires": [ [ "3c6a723.145778e" ] ] }, { "id": "458408d7.2b3b68", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "sample_operator", "label": "Name of the operator", "tooltip": "", "group": "3e1ba03d.f01d8", "order": 4, "width": 12, "height": 1, "passthru": true, "mode": "text", "delay": 300, "topic": "sample_operator", "x": 1350, "y": 180, "wires": [ [ "a2ae6c99.188f2" ] ] }, { "id": "a163194f.0b17c8", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "sample_project", "label": "Name of the project*", "tooltip": "", "group": "3e1ba03d.f01d8", "order": 1, "width": 12, "height": 1, "passthru": true, "mode": "text", "delay": 300, "topic": "sample_project", "x": 1360, "y": 60, "wires": [ [ "1c2c7439.47115c" ] ] }, { "id": "914752eb.af1b", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "sample_id", "label": "ID of the station*", "tooltip": "", "group": "3e1ba03d.f01d8", "order": 2, "width": 12, "height": 1, "passthru": true, "mode": "number", "delay": 300, "topic": "sample_id", "x": 1370, "y": 100, "wires": [ [ "30648de6.8ebc52" ] ] }, { "id": "8a735175.23927", "type": "ui_date_picker", "z": "259c8713.b50e28", "name": "acq_date", "label": "Date :", "group": "52159161.72187", "order": 2, "width": 12, "height": 1, "passthru": true, "topic": "", "x": 1380, "y": 1141, "wires": [ [ "86aa9817.45a2e8" ] ] }, { "id": "16d7de1c.b0c892", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "acq_time", "label": "Time :", "tooltip": "", "group": "52159161.72187", "order": 3, "width": 12, "height": 1, "passthru": true, "mode": "time", "delay": 300, "topic": "", "x": 1380, "y": 1181, "wires": [ [ "9b1b260f.e4b338" ] ] }, { "id": "9b1b260f.e4b338", "type": "function", "z": "259c8713.b50e28", "name": "set object_time", "func": "var time = new Date(msg.payload);\n\nvar hour = time.getUTCHours();\nif (hour<10){hour = \"0\"+hour;}\nvar minute = time.getUTCMinutes();\nif (minute<10){minute = \"0\"+minute;}\n\nvar time_UTC = \"\"+hour+minute+\"00\";\nglobal.set('object_time',time_UTC);\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1544, "y": 1181, "wires": [ [ "829cc940.327648" ] ] }, { "id": "86aa9817.45a2e8", "type": "function", "z": "259c8713.b50e28", "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": 1544, "y": 1141, "wires": [ [ "c93577b9.a1e438" ] ] }, { "id": "e001a28.555566", "type": "function", "z": "259c8713.b50e28", "name": "get global", "func": "msg.payload={\n \n \"generic_nb_step\":global.get(\"generic_nb_step\"),\n \"generic_flowrate\":global.get(\"generic_flowrate\"),\n \"generic_manual_volume\":global.get(\"generic_manual_volume\"),\n \"generic_sleep_before\":global.get(\"generic_sleep_before\"),\n \"generic_volume_before\":global.get(\"generic_volume_before\"),\n \"generic_path\":global.get(\"generic_path\"),\n \"generic_nb_frame\":global.get(\"generic_nb_frame\"),\n \"generic_sleep_during\":global.get(\"generic_sleep_during\"),\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 \"process_pixel\":global.get(\"process_pixel\"),\n \"process_id\":global.get(\"process_id\")\n \n};\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1880, "y": 60, "wires": [ [ "76a6e6bb.a08b98" ] ] }, { "id": "f25890f5.f2549", "type": "file", "z": "259c8713.b50e28", "name": "", "filename": "/home/pi/PlanktonScope/config.txt", "appendNewline": true, "createDir": true, "overwriteFile": "true", "encoding": "none", "x": 2233, "y": 60, "wires": [ [] ] }, { "id": "f5c1aa13.3cfbf8", "type": "function", "z": "259c8713.b50e28", "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(\"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(\"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(\"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(\"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(\"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": 1550, "y": 1041, "wires": [ [ "72e1e23b.a8a67c" ] ] }, { "id": "eb9181d8.25e01", "type": "ui_dropdown", "z": "259c8713.b50e28", "name": "acq_fnumber_objective", "label": "M12 Lens*", "tooltip": "", "place": "Select option", "group": "52159161.72187", "order": 7, "width": 12, "height": 1, "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": 1326, "y": 1041, "wires": [ [ "f5c1aa13.3cfbf8" ] ] }, { "id": "5aba848a.7a861c", "type": "ui_numeric", "z": "259c8713.b50e28", "name": "acq_minimum_mesh", "label": "Min fraction size (μm)", "tooltip": "", "group": "52159161.72187", "order": 8, "width": 12, "height": 1, "wrap": false, "passthru": true, "topic": "acq_minimum_mesh", "format": "{{value}}", "min": 0, "max": "300", "step": "10", "x": 1336, "y": 841, "wires": [ [ "510bd72a.b42ea8" ] ] }, { "id": "7cea16e.c42ace8", "type": "ui_numeric", "z": "259c8713.b50e28", "name": "acq_maximum_mesh", "label": "Max fraction size (μm)", "tooltip": "", "group": "52159161.72187", "order": 9, "width": 12, "height": 1, "wrap": false, "passthru": true, "topic": "acq_maximum_mesh", "format": "{{value}}", "min": "200", "max": "2000", "step": "100", "x": 1336, "y": 881, "wires": [ [ "a3f18257.8a55e" ] ] }, { "id": "6ecc9468.0271dc", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "acq_id", "label": "Acquisition unique ID*", "tooltip": "", "group": "52159161.72187", "order": 1, "width": 0, "height": 0, "passthru": true, "mode": "number", "delay": 300, "topic": "acq_id", "x": 1386, "y": 721, "wires": [ [ "b26183bf.aa217" ] ] }, { "id": "259fd49a.160a3c", "type": "ui_dropdown", "z": "259c8713.b50e28", "name": "acq_celltype", "label": "Thickness flowcell*", "tooltip": "", "place": "Select option", "group": "52159161.72187", "order": 6, "width": 12, "height": 1, "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": 1366, "y": 801, "wires": [ [ "d96d32ec.f88b9" ] ] }, { "id": "66a3425c.79aabc", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "acq_volume", "label": "Volume to pass (ml)", "tooltip": "", "group": "52159161.72187", "order": 5, "width": 12, "height": 1, "passthru": true, "mode": "number", "delay": 300, "topic": "acq_volume", "x": 1366, "y": 921, "wires": [ [ "a3ec68a2.889ca8" ] ] }, { "id": "6722bc48.d4f354", "type": "comment", "z": "259c8713.b50e28", "name": "sample", "info": "SAMPLE: a collection event\n\n sample_id [t] : unique identifier\n sample_*** [f] or [t] : other fields relative to the sample\n", "x": 810, "y": 60, "wires": [] }, { "id": "f93037f1.6a6238", "type": "comment", "z": "259c8713.b50e28", "name": "acquisition", "info": "ACQUISITION: metadata relative to the image acquisition\n\n acq_id [t] : unique identifier. If your acquisition differ for each sample you must have different identifier.\n acq_instrument [t] : name of the instrument (UVP, ZOOSCAN, FLOWCAM, etc.)\n acq_*** [f] or [t] : other fields relative to the acquisition\n", "x": 800, "y": 720, "wires": [] }, { "id": "734ba3db.3f82fc", "type": "comment", "z": "259c8713.b50e28", "name": "object", "info": "OBJECT: one object to be classified, usually one organism. One object can be represented by several images. In this tsv file, there is one line per image which means the object data gets repeated on several lines.\n\n object_id [t] : unique object name (will be displayed in Ecotaxa object page)\n object_link [f] : URL of an associated website\n object_lat [f] : latitude, decimal degrees\n object_lon [f] : longitude, decimal degrees\n object_date [f] : ISO8601 YYYYMMJJ UTC\n object_time [f] : ISO8601 HHMMSS UTC\n object_depth_min [f] : minimum depth of object, meters\n object_depth_max [f] : maximum depth of object, meters\n\nAnd, for already classified objects\n\n object_annotation_date [t] : ISO8601 YYYYMMJJ UTC\n object_annotation_time [t] : ISO8601 YYYYMMJJ UTC\n object_annotation_category [t] : class of the object with optionnaly its direct parent following separated by left angle bracket without whitespace \"Cnidaria", "storeOutMessages": true, "fwdInMessages": true, "templateScope": "local", "x": 1210, "y": 300, "wires": [ [] ] }, { "id": "b7d9455c.026588", "type": "switch", "z": "259c8713.b50e28", "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": 1670, "y": 400, "wires": [ [ "fdb3b132.8b341" ], [ "b9d996d6.37c2f8" ] ] }, { "id": "b9d996d6.37c2f8", "type": "ui_toast", "z": "259c8713.b50e28", "position": "dialog", "displayTime": "3", "highlight": "", "sendall": true, "outputs": 1, "ok": "OK", "cancel": "", "raw": false, "topic": "", "name": "", "x": 1830, "y": 420, "wires": [ [] ] }, { "id": "ca38a11d.0ee54", "type": "function", "z": "259c8713.b50e28", "name": "init LED", "func": "msg.payload=1;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 240, "y": 161, "wires": [ [ "1d58e86f.a3a9e8" ] ] }, { "id": "75701b99.c6e974", "type": "exec", "z": "259c8713.b50e28", "command": "vcgencmd measure_temp | tr -d \"temp=\" | tr -d \"'C\" | tr -d \"\\n\"", "addpay": false, "append": "", "useSpawn": "", "timer": "", "name": "RPi Temp.", "x": 2750, "y": 180, "wires": [ [ "aac61390.c13c6" ], [], [] ] }, { "id": "1780384d.718198", "type": "inject", "z": "259c8713.b50e28", "name": "", "topic": "", "payload": "", "payloadType": "date", "repeat": "10", "crontab": "", "once": false, "onceDelay": "", "x": 2590, "y": 180, "wires": [ [ "75701b99.c6e974" ] ] }, { "id": "aac61390.c13c6", "type": "python3-function", "z": "259c8713.b50e28", "name": "fan.py", "func": "#!/usr/bin/python\nimport smbus\nimport sys\n\ntemp = msg[\"payload\"]\n\ntemp = int(temp.split('.',1)[0])\n\nbus = smbus.SMBus(1)\n\nDEVICE_ADDRESS = 0x0d\n\nif temp < 38:\n bus.write_byte_data(DEVICE_ADDRESS, 0x08, 0x00)\n bus.write_byte_data(DEVICE_ADDRESS, 0x08, 0x00)\nif temp > 42:\n bus.write_byte_data(DEVICE_ADDRESS, 0x08, 0x01)\n bus.write_byte_data(DEVICE_ADDRESS, 0x08, 0x01)", "outputs": 1, "x": 2930, "y": 180, "wires": [ [] ] }, { "id": "603d5fab.08f56", "type": "comment", "z": "259c8713.b50e28", "name": "save config.txt", "info": "", "x": 1690, "y": 20, "wires": [] }, { "id": "72e1e23b.a8a67c", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04", "d473399b.081ae8" ], "x": 1675, "y": 1040, "wires": [] }, { "id": "d473399b.081ae8", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "72e1e23b.a8a67c", "c93577b9.a1e438", "829cc940.327648" ], "x": 1635, "y": 100, "wires": [ [ "e001a28.555566" ] ] }, { "id": "c93577b9.a1e438", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04", "d473399b.081ae8" ], "x": 1675, "y": 1140, "wires": [] }, { "id": "829cc940.327648", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04", "d473399b.081ae8" ], "x": 1675, "y": 1180, "wires": [] }, { "id": "98e2e9e0.fb7418", "type": "switch", "z": "259c8713.b50e28", "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": 1670, "y": 600, "wires": [ [ "61fb057d.3c251c" ], [ "46a536f0.c83138" ] ] }, { "id": "46a536f0.c83138", "type": "ui_toast", "z": "259c8713.b50e28", "position": "dialog", "displayTime": "3", "highlight": "", "sendall": true, "outputs": 1, "ok": "OK", "cancel": "", "raw": false, "topic": "", "name": "", "x": 1830, "y": 620, "wires": [ [] ] }, { "id": "24ffcf03.2a51b", "type": "ui_button", "z": "259c8713.b50e28", "name": "stop pump", "group": "707d9797.c8e798", "order": 5, "width": 4, "height": 1, "passthru": true, "label": "STOP PUMP", "tooltip": "", "color": "", "bgcolor": "", "icon": "", "payload": "off", "payloadType": "str", "topic": "actuator/wait", "x": 1370, "y": 660, "wires": [ [ "e2a7220a.09d43" ] ] }, { "id": "7eb16c3b.294e54", "type": "comment", "z": "259c8713.b50e28", "name": "turn ON the LED", "info": "", "x": 260, "y": 121, "wires": [] }, { "id": "4f74f017.00a58", "type": "function", "z": "259c8713.b50e28", "name": "focus.js", "func": "state = global.get(\"state\");\n\nif (state == null){state=\"free\"}\n\nvar nb_step= global.get(\"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(\"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": 1520, "y": 400, "wires": [ [ "b7d9455c.026588" ] ], "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": "52cc1de5.b78e84", "type": "ui_button", "z": "259c8713.b50e28", "name": "stop focus", "group": "fbd92986.1028c8", "order": 5, "width": 4, "height": 1, "passthru": true, "label": "STOP FOCUS", "tooltip": "", "color": "", "bgcolor": "", "icon": "", "payload": "off", "payloadType": "str", "topic": "actuator/wait", "x": 1370, "y": 460, "wires": [ [ "e46763fe.7fc83" ] ] }, { "id": "39cad6fb.1503ca", "type": "ui_button", "z": "259c8713.b50e28", "name": "", "group": "8cfadfab.327d7", "order": 9, "width": 11, "height": 1, "passthru": false, "label": "Reboot", "tooltip": "", "color": "", "bgcolor": "#AD1625", "icon": "", "payload": "off", "payloadType": "str", "topic": "reboot", "x": 2620, "y": 60, "wires": [ [ "95b876d4.07c708", "99d61fbe.b244b" ] ] }, { "id": "1f53f29b.feee4d", "type": "exec", "z": "259c8713.b50e28", "command": "sudo", "addpay": true, "append": "", "useSpawn": "false", "timer": "2", "oldrc": false, "name": "cmd", "x": 2930, "y": 60, "wires": [ [], [], [] ] }, { "id": "e325458b.95bff8", "type": "ui_button", "z": "259c8713.b50e28", "name": "", "group": "8cfadfab.327d7", "order": 10, "width": 13, "height": 1, "passthru": false, "label": "Shutdown", "tooltip": "", "color": "", "bgcolor": "#AD1625", "icon": "", "payload": "off", "payloadType": "str", "topic": "shutdown", "x": 2620, "y": 120, "wires": [ [ "95b876d4.07c708", "99d61fbe.b244b" ] ] }, { "id": "95b876d4.07c708", "type": "python3-function", "z": "259c8713.b50e28", "name": "action", "func": "#!/usr/bin/python\nimport smbus\nimport time\nbus = smbus.SMBus(1)\ntime.sleep(1)\n#turn off fan RGB\nbus.write_byte_data(0x0d, 0x07, 0x00)\nbus.write_byte_data(0x0d, 0x07, 0x00)\n\nmsg[\"payload\"] = str(msg[\"topic\"])+' now'\nreturn msg", "outputs": 1, "x": 2790, "y": 80, "wires": [ [ "d348474b.d756a8", "1f53f29b.feee4d" ] ] }, { "id": "d348474b.d756a8", "type": "exec", "z": "259c8713.b50e28", "command": "i2cdetect -y 1", "addpay": false, "append": "", "useSpawn": "false", "timer": "1", "oldrc": false, "name": "i2c update", "x": 2950, "y": 120, "wires": [ [], [], [] ] }, { "id": "99d61fbe.b244b", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "3517d063.27073" ], "x": 2735, "y": 20, "wires": [] }, { "id": "cdd1b550.da18e8", "type": "mqtt in", "z": "259c8713.b50e28", "name": "", "topic": "receiver/#", "qos": "0", "datatype": "auto", "broker": "b77ffa1b.942258", "x": 720, "y": 2000, "wires": [ [ "6920281d.dc9b48" ] ] }, { "id": "6920281d.dc9b48", "type": "switch", "z": "259c8713.b50e28", "name": "", "property": "topic", "propertyType": "msg", "rules": [ { "t": "eq", "v": "receiver/pump", "vt": "str" }, { "t": "eq", "v": "receiver/focus", "vt": "str" }, { "t": "eq", "v": "receiver/image", "vt": "str" }, { "t": "cont", "v": "receiver/segmentation", "vt": "str" } ], "checkall": "true", "repair": false, "outputs": 4, "x": 870, "y": 2000, "wires": [ [ "2f66e917.fee586" ], [ "363ee47e.ed522c" ], [ "45a52868.fe37c8" ], [ "469cc189.903d" ] ] }, { "id": "2f66e917.fee586", "type": "switch", "z": "259c8713.b50e28", "name": "", "property": "payload", "propertyType": "msg", "rules": [ { "t": "eq", "v": "Start", "vt": "str" }, { "t": "eq", "v": "Done", "vt": "str" }, { "t": "eq", "v": "Interrompted", "vt": "str" } ], "checkall": "true", "repair": false, "outputs": 3, "x": 1050, "y": 1800, "wires": [ [ "5c0d0c35.3bcf14" ], [ "cd01157d.0892d8" ], [ "68e02bf4.7013e4" ] ] }, { "id": "5c0d0c35.3bcf14", "type": "change", "z": "259c8713.b50e28", "name": "The pump has started", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The pump has started", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1440, "y": 1760, "wires": [ [] ] }, { "id": "cd01157d.0892d8", "type": "change", "z": "259c8713.b50e28", "name": "The pump has finished.", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The pump has finished.", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1430, "y": 1800, "wires": [ [] ] }, { "id": "68e02bf4.7013e4", "type": "change", "z": "259c8713.b50e28", "name": "The pump has been stopped.", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The pump has been stopped.", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1420, "y": 1840, "wires": [ [] ] }, { "id": "363ee47e.ed522c", "type": "switch", "z": "259c8713.b50e28", "name": "", "property": "payload", "propertyType": "msg", "rules": [ { "t": "eq", "v": "Start", "vt": "str" }, { "t": "eq", "v": "Done", "vt": "str" }, { "t": "eq", "v": "Interrompted", "vt": "str" } ], "checkall": "true", "repair": false, "outputs": 3, "x": 1050, "y": 1920, "wires": [ [ "c088b72f.326d98" ], [ "36934381.14442c" ], [ "89329cfe.c8f4" ] ] }, { "id": "c088b72f.326d98", "type": "change", "z": "259c8713.b50e28", "name": "The focus has started", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The focus has started", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1440, "y": 1880, "wires": [ [] ] }, { "id": "36934381.14442c", "type": "change", "z": "259c8713.b50e28", "name": "The focus has finished.", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The focus has finished.", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1430, "y": 1920, "wires": [ [] ] }, { "id": "89329cfe.c8f4", "type": "change", "z": "259c8713.b50e28", "name": "The focus has been stopped.", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The focus has been stopped.", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1420, "y": 1960, "wires": [ [] ] }, { "id": "fdb3b132.8b341", "type": "mqtt out", "z": "259c8713.b50e28", "name": "", "topic": "", "qos": "", "retain": "", "broker": "cb2f36fe.1c7038", "x": 1810, "y": 380, "wires": [] }, { "id": "e46763fe.7fc83", "type": "mqtt out", "z": "259c8713.b50e28", "name": "", "topic": "", "qos": "", "retain": "", "broker": "cb2f36fe.1c7038", "x": 1510, "y": 460, "wires": [] }, { "id": "61fb057d.3c251c", "type": "mqtt out", "z": "259c8713.b50e28", "name": "", "topic": "", "qos": "", "retain": "", "broker": "cb2f36fe.1c7038", "x": 1810, "y": 580, "wires": [] }, { "id": "e2a7220a.09d43", "type": "mqtt out", "z": "259c8713.b50e28", "name": "", "topic": "", "qos": "", "retain": "", "broker": "cb2f36fe.1c7038", "x": 1510, "y": 660, "wires": [] }, { "id": "577f7f72.6b68b", "type": "ui_button", "z": "259c8713.b50e28", "name": "", "group": "8cfadfab.327d7", "order": 7, "width": 0, "height": 0, "passthru": false, "label": "Start Acquisition", "tooltip": "", "color": "", "bgcolor": "", "icon": "", "payload": "", "payloadType": "str", "topic": "actuator/image", "x": 1360, "y": 1560, "wires": [ [ "5218ba30.bbe844" ] ] }, { "id": "d5111b87.2a64a8", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "generic_sleep_before", "label": "Sleep duration before acquisition (s)", "tooltip": "", "group": "8cfadfab.327d7", "order": 1, "width": 12, "height": 1, "passthru": true, "mode": "number", "delay": 300, "topic": "generic_sleep_before", "x": 1340, "y": 1360, "wires": [ [ "3d141631.d548ba" ] ] }, { "id": "3d141631.d548ba", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04" ], "x": 1475, "y": 1360, "wires": [] }, { "id": "74c89905.79d968", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "generic_sleep_during", "label": "Sleep duration between acquisition (s)", "tooltip": "", "group": "8cfadfab.327d7", "order": 2, "width": 12, "height": 1, "passthru": true, "mode": "number", "delay": 300, "topic": "generic_sleep_during", "x": 1340, "y": 1520, "wires": [ [ "644e95b9.04b7ac" ] ] }, { "id": "644e95b9.04b7ac", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04" ], "x": 1475, "y": 1520, "wires": [] }, { "id": "b50cf2f4.bfb84", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04" ], "x": 1475, "y": 501, "wires": [] }, { "id": "1e75fd6c.234753", "type": "ui_slider", "z": "259c8713.b50e28", "name": "flowrate", "label": "Flowrate (ml/min)*", "tooltip": "", "group": "707d9797.c8e798", "order": 1, "width": 0, "height": 0, "passthru": true, "outs": "end", "topic": "flowrate", "min": 0, "max": "20", "step": "0.1", "x": 1380, "y": 501, "wires": [ [ "b50cf2f4.bfb84" ] ] }, { "id": "3345fc41.8341b4", "type": "function", "z": "259c8713.b50e28", "name": "get generic.flowrate", "func": "msg.payload = msg.payload.generic_flowrate;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1030, "y": 501, "wires": [ [ "1e75fd6c.234753" ] ] }, { "id": "32510458.f42f9c", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "b368cae7.dd66b8" ], "x": 895, "y": 501, "wires": [ [ "3345fc41.8341b4" ] ] }, { "id": "3cd0a17b.0cc42e", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04" ], "x": 1475, "y": 1440, "wires": [] }, { "id": "62fea790.2840a8", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "generic_path", "label": "DIrectory to store the images", "tooltip": "", "group": "8cfadfab.327d7", "order": 3, "width": 12, "height": 1, "passthru": true, "mode": "text", "delay": 300, "topic": "generic_path", "x": 1370, "y": 1440, "wires": [ [ "3cd0a17b.0cc42e" ] ] }, { "id": "73e051a8.5875e", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "generic_volume_before", "label": "Volume to pass before to begin", "tooltip": "", "group": "8cfadfab.327d7", "order": 5, "width": 12, "height": 1, "passthru": true, "mode": "number", "delay": 300, "topic": "generic_volume_before", "x": 1330, "y": 1400, "wires": [ [ "5ea01613.8cc9d8" ] ] }, { "id": "5ea01613.8cc9d8", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04" ], "x": 1475, "y": 1400, "wires": [] }, { "id": "26549e4b.5dbf72", "type": "ui_text_input", "z": "259c8713.b50e28", "name": "generic_nb_frame", "label": "Number of frame per acquisition", "tooltip": "", "group": "8cfadfab.327d7", "order": 4, "width": 12, "height": 1, "passthru": true, "mode": "number", "delay": 300, "topic": "generic_nb_frame", "x": 1350, "y": 1480, "wires": [ [ "61382d0b.60c534" ] ] }, { "id": "61382d0b.60c534", "type": "link out", "z": "259c8713.b50e28", "name": "", "links": [ "7532db82.1dcf04" ], "x": 1475, "y": 1480, "wires": [] }, { "id": "d5df5489.6523e8", "type": "function", "z": "259c8713.b50e28", "name": "get generic_sleep_before", "func": "msg.payload = msg.payload.generic_sleep_before;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1050, "y": 1360, "wires": [ [ "d5111b87.2a64a8" ] ] }, { "id": "835c262e.00b468", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "b368cae7.dd66b8" ], "x": 895, "y": 1360, "wires": [ [ "d5df5489.6523e8" ] ] }, { "id": "9b2fe59b.be48c8", "type": "function", "z": "259c8713.b50e28", "name": "get generic_volume_before", "func": "msg.payload = msg.payload.generic_volume_before;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1060, "y": 1400, "wires": [ [ "73e051a8.5875e" ] ] }, { "id": "a07dad70.7c48", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "b368cae7.dd66b8" ], "x": 895, "y": 1400, "wires": [ [ "9b2fe59b.be48c8" ] ] }, { "id": "54dfe4df.c6837c", "type": "function", "z": "259c8713.b50e28", "name": "get generic_path", "func": "msg.payload = msg.payload.generic_path;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1030, "y": 1440, "wires": [ [ "62fea790.2840a8" ] ] }, { "id": "9fb166d6.86f908", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "b368cae7.dd66b8" ], "x": 895, "y": 1440, "wires": [ [ "54dfe4df.c6837c" ] ] }, { "id": "1aa409a4.7b3866", "type": "function", "z": "259c8713.b50e28", "name": "get generic_nb_frame", "func": "msg.payload = msg.payload.generic_nb_frame;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1040, "y": 1480, "wires": [ [ "26549e4b.5dbf72" ] ] }, { "id": "51e769aa.92a138", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "b368cae7.dd66b8" ], "x": 895, "y": 1480, "wires": [ [ "1aa409a4.7b3866" ] ] }, { "id": "ce6ded0a.8ee37", "type": "function", "z": "259c8713.b50e28", "name": "get generic_sleep_during", "func": "msg.payload = msg.payload.generic_sleep_during;\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1050, "y": 1520, "wires": [ [ "74c89905.79d968" ] ] }, { "id": "3fa20f41.11e61", "type": "link in", "z": "259c8713.b50e28", "name": "", "links": [ "b368cae7.dd66b8" ], "x": 895, "y": 1520, "wires": [ [ "ce6ded0a.8ee37" ] ] }, { "id": "5218ba30.bbe844", "type": "function", "z": "259c8713.b50e28", "name": "image.js", "func": "state = global.get(\"state\");\nglobal.set('img_counter',0)\nglobal.set('obj_counter',0)\nif (state == null){state=\"free\"}\n\nvar generic_sleep_before= global.get(\"generic_sleep_before\");\nvar generic_volume_before= global.get(\"generic_volume_before\");\nvar generic_path= global.get(\"generic_path\");\nvar generic_nb_frame= global.get(\"generic_nb_frame\");\nvar generic_sleep_during= global.get(\"generic_sleep_during\");\n\nif (generic_sleep_before === undefined || generic_sleep_before === \"\" || generic_sleep_before === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Duration before start the acquisition\";\n \n}else if (generic_volume_before === undefined || generic_volume_before === \"\" || generic_volume_before === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Volume before acquisition\";\n \n}else if (generic_path === undefined || generic_path === \"\" || generic_path === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Directory to store the images\";\n \n}else if (generic_nb_frame === undefined || generic_nb_frame === \"\" || generic_nb_frame === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Number of frames per acquisition\";\n \n}else if (generic_sleep_during === undefined || generic_sleep_during === \"\" || generic_sleep_during === null) {\n msg.topic = \"Missing entry :\"\n msg.payload = \"Duration in between each acquisition\";\n \n}else {\n generic_nb_step = 507*generic_volume_before\n generic_nb_frame=generic_nb_frame-1\n msg.payload=generic_sleep_before+' '+generic_nb_step+' '+generic_path+' '+generic_nb_frame+' '+generic_sleep_during;\n}\nreturn msg;", "outputs": 1, "noerr": 0, "x": 1520, "y": 1560, "wires": [ [ "8142bee4.882c2" ] ], "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": "8142bee4.882c2", "type": "switch", "z": "259c8713.b50e28", "name": "", "property": "topic", "propertyType": "msg", "rules": [ { "t": "eq", "v": "actuator/image", "vt": "str" }, { "t": "eq", "v": "Missing entry :", "vt": "str" } ], "checkall": "true", "repair": false, "outputs": 2, "x": 1670, "y": 1560, "wires": [ [ "a4b8aae3.cc3ad8" ], [ "54420752.4a4ab8" ] ] }, { "id": "54420752.4a4ab8", "type": "ui_toast", "z": "259c8713.b50e28", "position": "dialog", "displayTime": "3", "highlight": "", "sendall": true, "outputs": 1, "ok": "OK", "cancel": "", "raw": false, "topic": "", "name": "", "x": 1830, "y": 1580, "wires": [ [] ] }, { "id": "a4b8aae3.cc3ad8", "type": "mqtt out", "z": "259c8713.b50e28", "name": "", "topic": "", "qos": "", "retain": "", "broker": "cb2f36fe.1c7038", "x": 1810, "y": 1540, "wires": [] }, { "id": "ca843dd8.d1c62", "type": "exec", "z": "259c8713.b50e28", "command": "python3.7 /home/pi/PlanktonScope/script/mqtt_pump_focus_image.py", "addpay": true, "append": "", "useSpawn": "false", "timer": "", "oldrc": false, "name": "", "x": 440, "y": 280, "wires": [ [], [], [] ] }, { "id": "45a52868.fe37c8", "type": "switch", "z": "259c8713.b50e28", "name": "", "property": "payload", "propertyType": "msg", "rules": [ { "t": "eq", "v": "Start", "vt": "str" }, { "t": "eq", "v": "Done", "vt": "str" }, { "t": "eq", "v": "Interrompted", "vt": "str" }, { "t": "cont", "v": "jpg", "vt": "str" } ], "checkall": "true", "repair": false, "outputs": 4, "x": 1050, "y": 2080, "wires": [ [ "113c9b93.455814" ], [ "29a7c6de.6ac2ea" ], [ "f1b07b24.b85718" ], [ "446a811b.25e4b" ] ] }, { "id": "177a91d4.f1016e", "type": "switch", "z": "259c8713.b50e28", "name": "", "property": "payload", "propertyType": "msg", "rules": [ { "t": "eq", "v": "Start", "vt": "str" }, { "t": "eq", "v": "Done", "vt": "str" } ], "checkall": "true", "repair": false, "outputs": 2, "x": 1190, "y": 2200, "wires": [ [ "5d717a25.3437e4" ], [ "7d713b16.235164" ] ] }, { "id": "29a7c6de.6ac2ea", "type": "change", "z": "259c8713.b50e28", "name": "The acquisition has finished.", "rules": [ { "t": "set", "p": "payload", "pt": "msg", "to": "The acquisition has finished.", "tot": "str" } ], "action": "", "property": "", "from": "", "to": "", "reg": false, "x": 1420, "y": 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