Removed medscan extension (now in separate repo)
This commit is contained in:
Joel Collins
parent
a5d5b6cda2
commit
13d18b4101
14 changed files with 0 additions and 12522 deletions
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from labthings.server.extensions import BaseExtension
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from labthings.server.view import View
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from labthings.server.decorators import ThingProperty, PropertySchema, use_args
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from labthings.server import fields
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from labthings.server.find import find_component
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from labthings.core.utilities import path_relative_to
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from openflexure_microscope.paths import settings_file_path, check_rw
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from openflexure_microscope.config import OpenflexureSettingsFile
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from openflexure_microscope.camera.base import BASE_CAPTURE_PATH
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from openflexure_microscope.camera.capture import build_captures_from_exif
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from openflexure_microscope.api.utilities.gui import build_gui
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from flask import abort, url_for
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import logging
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import os
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import psutil
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from sys import platform
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class CustomElementExtension(BaseExtension):
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def __init__(self):
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BaseExtension.__init__(
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self,
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"org.openflexure.customelement",
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description="Testing HTML components in an extension",
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static_folder=path_relative_to(__file__, "static", "dist"),
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)
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# Register the on_microscope function to run when the microscope is attached
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self.on_component("org.openflexure.microscope", self.on_microscope)
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def on_microscope(self, microscope_obj):
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"""Function to automatically call when the parent LabThing has a microscope attached."""
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logging.debug(f"CustomElementExtension found microscope {microscope_obj}")
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customelement_extension_v2 = CustomElementExtension()
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def wc_func():
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return {
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"href": customelement_extension_v2.static_file_url("my-custom-element.min.js"),
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"name": "my-custom-element",
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}
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def gui_func():
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return {
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"icon": "grid_on",
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"title": "Med Scan",
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"viewPanel": "stream",
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"wc": wc_func(),
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}
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customelement_extension_v2.add_meta("wc", wc_func)
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customelement_extension_v2.add_meta(
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"gui", build_gui(gui_func, customelement_extension_v2)
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)
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@ -1,2 +0,0 @@
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> 1%
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last 2 versions
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@ -1 +0,0 @@
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dist/* filter=lfs diff=lfs merge=lfs -text
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@ -1,23 +0,0 @@
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.DS_Store
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node_modules
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# local env files
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.env.local
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.env.*.local
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# Log files
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npm-debug.log*
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yarn-debug.log*
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yarn-error.log*
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# Editor directories and files
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.idea
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.vscode
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*.suo
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*.ntvs*
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*.njsproj
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*.sln
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*.sw?
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# Override and include dist
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!/dist
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@ -1,5 +0,0 @@
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module.exports = {
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presets: [
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'@vue/cli-plugin-babel/preset'
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]
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}
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@ -1,3 +0,0 @@
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version https://git-lfs.github.com/spec/v1
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oid sha256:1ca0e299d383dac9c5ebb630f31c45279a5558c21f44dbb7e803ae0a726526b3
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size 237
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@ -1,3 +0,0 @@
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version https://git-lfs.github.com/spec/v1
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oid sha256:b4223dafbec3774d4c7a8421c6156f7f4d3c4fbf43b6ba7bb9c3922d11e41471
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size 288126
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@ -1,3 +0,0 @@
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version https://git-lfs.github.com/spec/v1
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oid sha256:dc9afdd76929fb15b40c1f40d9dc64aca8f7243727471b4125a24c057f92bd6e
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size 92085
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File diff suppressed because it is too large
Load diff
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{
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"name": "openflexure-medscan-element",
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"version": "0.1.0",
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"private": true,
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"scripts": {
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"serve": "vue-cli-service serve",
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"build": "cross-var vue-cli-service build --target wc --inline-vue --name $npm_package_name ./src/components/VueWebComponent.vue"
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},
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"dependencies": {
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"axios": "^0.19.2",
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"core-js": "^3.4.4",
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"vue": "^2.6.10"
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},
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"devDependencies": {
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"@vue/cli-plugin-babel": "^4.1.0",
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"@vue/cli-service": "^4.1.0",
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"cross-var": "^1.1.0",
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"vue-template-compiler": "^2.6.10"
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}
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}
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@ -1,18 +0,0 @@
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<template>
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<div id="app">
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<VueWebComponent/>
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</div>
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</template>
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<script>
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import VueWebComponent from './components/VueWebComponent.vue'
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export default {
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name: 'app',
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components: {
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VueWebComponent
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}
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}
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</script>
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<style>
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</style>
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<template>
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<div class="medscan-component-class">
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<h1>Sample Scan Wizard</h1>
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<div>Base URL: {{ componentBaseURL }}</div>
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<p>Host microscope name: {{ hostDeviceName }}</p>
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<hr />
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<form v-on:submit.prevent v-on:keyup.enter="increment()">
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<div id="step-user" v-show="stepValue==0">
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<h2>User information (1/4)</h2>
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<label for="username">Your name:</label>
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<input type="text" id="username" name="username" v-model="username" required />
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<br />
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<label for="currentTime">Current time (check this is correct):</label>
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<input type="datetime-local" id="currentTime" name="currentTime" v-model="currentTimeForm" />
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</div>
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<div id="step-patient" v-show="stepValue==1">
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<h2>Patient information (2/4)</h2>
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<label for="patientID">Patient ID:</label>
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<input type="text" id="patientID" name="patientID" v-model="patientID" required />
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<br />
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</div>
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<div id="step-sample" v-show="stepValue==2">
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<h2>Sample information (3/4)</h2>
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<label>Sample type:</label>
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<br />
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<input type="radio" id="typeThin" value="thin" v-model="sampleType" />
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<label for="typeThin">Thin smear</label>
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<br />
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<input type="radio" id="typeThick" value="thick" v-model="sampleType" />
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<label for="typeThick">Thick smear</label>
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<br />
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</div>
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<div id="step-scan" v-show="stepValue==3">
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<h2>Start scan (4/4)</h2>
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(Confirm information)
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(Confirm scan parameters, just a radio box for selecting defaults)
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<p>{{this.payload}}</p>(Start button)
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</div>
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</form>
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<div id="form-stepper">
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<p>{{ message }}</p>
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<button v-show="stepValue == 3" type="button" v-on:click="restart()">Restart</button>
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<button v-show="stepValue > 0" type="button" v-on:click="decrement()">Previous</button>
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<button v-show="stepValue < 3" type="button" v-on:click="increment()">Next</button>
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</div>
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</div>
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</template>
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<script>
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import axios from "axios";
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export default {
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props: {
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componentBaseURL: {
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required: false,
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default: "http://localhost:5000/api/v2",
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type: String
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}
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},
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data: function() {
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return {
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stepValue: 0,
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hostDeviceName: null,
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message: null,
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username: "",
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currentTime: this.getLocalDatetimeString(),
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patientID: "",
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sampleType: "thin"
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};
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},
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mounted: function() {
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if (this.componentBaseURL) {
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axios
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.get(`${this.componentBaseURL}`)
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.then(response => {
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console.log(response.data);
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this.hostDeviceName = response.data.title;
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})
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.catch(function(error) {
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console.log(
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"Error reading test json, probabl because of cors or something"
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);
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});
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} else {
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this.message = "No componentBaseURL given";
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}
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},
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methods: {
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decrement: function() {
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if (this.stepValue > 0) {
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this.stepValue = this.stepValue - 1;
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}
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},
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increment: function() {
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// Validate sections
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if (this.stepValue == 0) {
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if (!this.username) {
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this.message = "Please enter your name";
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return false;
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}
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}
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if (this.stepValue == 1) {
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if (!this.patientID) {
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this.message = "Please enter a patient ID";
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return false;
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}
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}
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// Upper bound on section number
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if (this.stepValue < 3) {
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this.stepValue = this.stepValue + 1;
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this.message = "";
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return true;
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}
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},
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restart: function() {
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this.stepValue = 0;
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this.patientID = "";
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this.currentTime = this.getLocalDatetimeString();
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},
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getLocalDatetimeString: function() {
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var dt = new Date();
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var tzo = -dt.getTimezoneOffset(),
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dif = tzo >= 0 ? "+" : "-",
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pad = function(num) {
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var norm = Math.floor(Math.abs(num));
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return (norm < 10 ? "0" : "") + norm;
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};
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return (
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dt.getFullYear() +
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"-" +
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pad(dt.getMonth() + 1) +
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"-" +
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pad(dt.getDate()) +
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"T" +
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pad(dt.getHours()) +
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":" +
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pad(dt.getMinutes()) +
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":" +
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pad(dt.getSeconds()) +
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dif +
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pad(tzo / 60) +
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":" +
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pad(tzo % 60)
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);
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}
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},
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computed: {
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currentTimeForm: {
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get() {
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// Chop the timezone information from the end
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return this.currentTime.substr(0, 19);
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},
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set(val) {
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console.log(val);
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// Get timezone
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var dt = new Date();
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var tzo = -dt.getTimezoneOffset(),
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dif = tzo >= 0 ? "+" : "-",
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pad = function(num) {
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var norm = Math.floor(Math.abs(num));
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return (norm < 10 ? "0" : "") + norm;
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};
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// Stick to the end of the new timestring from the form
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this.currentTime = val + dif + pad(tzo / 60) + ":" + pad(tzo % 60);
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}
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},
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payload: {
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get() {
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return {
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filename: `${this.patientID}_${this.sampleType}`,
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temporary: false,
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grid: [20, 20, 5],
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fast_autofocus: true,
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use_video_port: false,
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annotations: {
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patientID: this.patientID,
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username: this.username,
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clientDatetime: this.currentTime
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},
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tags: ["medscan"]
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};
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}
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}
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}
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};
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</script>
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<style scoped>
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.medscan-component-class {
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text-align: left;
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}
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input {
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display: block
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}
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button {
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margin: 0 10px 0 0;
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min-width: 100px;
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}
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</style>
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@ -1,6 +0,0 @@
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import Vue from 'vue';
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import App from './App.vue';
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new Vue({
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render: h => h(App)
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}).$mount('#app')
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process.env.VUE_APP_NAME = require('./package.json').name
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module.exports = {
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productionSourceMap: false
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};
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