Merge branch 'jsclient-refactor' into 'master'

JS Client refactor and gallery pages

See merge request openflexure/openflexure-microscope-server!80
This commit is contained in:
Joel Collins 2020-10-27 17:16:23 +00:00
commit 3099db201f
44 changed files with 1204 additions and 924 deletions

View file

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"version": "1.3.1",
"resolved": "https://registry.npmjs.org/object-hash/-/object-hash-1.3.1.tgz",
"integrity": "sha512-OSuu/pU4ENM9kmREg0BdNrUDIl1heYa4mBZacJc+vVWz4GtAwu7jO8s4AIt2aGRUTqxykpWzI3Oqnsm13tTMDA==",
"dev": true
},
"object-inspect": {
"version": "1.7.0",
"resolved": "https://registry.npmjs.org/object-inspect/-/object-inspect-1.7.0.tgz",
@ -10891,8 +11268,7 @@
"version": "1.19.1",
"resolved": "https://registry.npmjs.org/prettier/-/prettier-1.19.1.tgz",
"integrity": "sha512-s7PoyDv/II1ObgQunCbB9PdLmUcBZcnWOcxDh7O0N/UwDEsHyqkW+Qh28jW+mVuCdx7gLB0BotYI1Y6uI9iyew==",
"dev": true,
"optional": true
"dev": true
},
"prettier-linter-helpers": {
"version": "1.0.0",
@ -11509,6 +11885,15 @@
"aproba": "^1.1.1"
}
},
"rxjs": {
"version": "6.6.3",
"resolved": "https://registry.npmjs.org/rxjs/-/rxjs-6.6.3.tgz",
"integrity": "sha512-trsQc+xYYXZ3urjOiJOuCOa5N3jAZ3eiSpQB5hIT8zGlL2QfnHLJ2r7GMkBGuIausdJN1OneaI6gQlsqNHHmZQ==",
"dev": true,
"requires": {
"tslib": "^1.9.0"
}
},
"safe-buffer": {
"version": "5.1.2",
"resolved": "https://registry.npmjs.org/safe-buffer/-/safe-buffer-5.1.2.tgz",
@ -12415,6 +12800,12 @@
"integrity": "sha512-BrpvfNAE3dcvq7ll3xVumzjKjZQ5tI1sEUIKr3Uoks0XUl45St3FlatVqef9prk4jRDzhW6WZg+3bk93y6pLjA==",
"dev": true
},
"strip-indent": {
"version": "2.0.0",
"resolved": "https://registry.npmjs.org/strip-indent/-/strip-indent-2.0.0.tgz",
"integrity": "sha1-XvjbKV0B5u1sv3qrlpmNeCJSe2g=",
"dev": true
},
"stylehacks": {
"version": "4.0.3",
"resolved": "https://registry.npmjs.org/stylehacks/-/stylehacks-4.0.3.tgz",
@ -13292,9 +13683,9 @@
}
},
"vue-loader-v16": {
"version": "npm:vue-loader@16.0.0-beta.8",
"resolved": "https://registry.npmjs.org/vue-loader/-/vue-loader-16.0.0-beta.8.tgz",
"integrity": "sha512-oouKUQWWHbSihqSD7mhymGPX1OQ4hedzAHyvm8RdyHh6m3oIvoRF+NM45i/bhNOlo8jCnuJhaSUf/6oDjv978g==",
"version": "npm:vue-loader@16.0.0-beta.9",
"resolved": "https://registry.npmjs.org/vue-loader/-/vue-loader-16.0.0-beta.9.tgz",
"integrity": "sha512-mu9pg6554GbXDSO8LlxkQM6qUJzUkb/A0FJc9LgRqnU9MCnhzEXwCt1Zx5NObvFpzs2mH2dH/uUCDwL8Qaz9sA==",
"dev": true,
"optional": true,
"requires": {
@ -13446,6 +13837,12 @@
"vue": "^2.6.10"
}
},
"vuejs-paginate": {
"version": "2.1.0",
"resolved": "https://registry.npmjs.org/vuejs-paginate/-/vuejs-paginate-2.1.0.tgz",
"integrity": "sha512-gnwyXlmCiDOu9MLWxN5UJ4PGijKGNOMpHG8ujsrynCzTJljn/rp7Jq0WiDGDAMi5/u0AHuYIHhced+tUW4jblA==",
"dev": true
},
"vuex": {
"version": "3.5.1",
"resolved": "https://registry.npmjs.org/vuex/-/vuex-3.5.1.tgz",
@ -14263,6 +14660,74 @@
"camelcase": "^5.0.0",
"decamelize": "^1.2.0"
}
},
"yorkie": {
"version": "2.0.0",
"resolved": "https://registry.npmjs.org/yorkie/-/yorkie-2.0.0.tgz",
"integrity": "sha512-jcKpkthap6x63MB4TxwCyuIGkV0oYP/YRyuQU5UO0Yz/E/ZAu+653/uov+phdmO54n6BcvFRyyt0RRrWdN2mpw==",
"dev": true,
"requires": {
"execa": "^0.8.0",
"is-ci": "^1.0.10",
"normalize-path": "^1.0.0",
"strip-indent": "^2.0.0"
},
"dependencies": {
"cross-spawn": {
"version": "5.1.0",
"resolved": "https://registry.npmjs.org/cross-spawn/-/cross-spawn-5.1.0.tgz",
"integrity": "sha1-6L0O/uWPz/b4+UUQoKVUu/ojVEk=",
"dev": true,
"requires": {
"lru-cache": "^4.0.1",
"shebang-command": "^1.2.0",
"which": "^1.2.9"
}
},
"execa": {
"version": "0.8.0",
"resolved": "https://registry.npmjs.org/execa/-/execa-0.8.0.tgz",
"integrity": "sha1-2NdrvBtVIX7RkP1t1J08d07PyNo=",
"dev": true,
"requires": {
"cross-spawn": "^5.0.1",
"get-stream": "^3.0.0",
"is-stream": "^1.1.0",
"npm-run-path": "^2.0.0",
"p-finally": "^1.0.0",
"signal-exit": "^3.0.0",
"strip-eof": "^1.0.0"
}
},
"get-stream": {
"version": "3.0.0",
"resolved": "https://registry.npmjs.org/get-stream/-/get-stream-3.0.0.tgz",
"integrity": "sha1-jpQ9E1jcN1VQVOy+LtsFqhdO3hQ=",
"dev": true
},
"lru-cache": {
"version": "4.1.5",
"resolved": "https://registry.npmjs.org/lru-cache/-/lru-cache-4.1.5.tgz",
"integrity": "sha512-sWZlbEP2OsHNkXrMl5GYk/jKk70MBng6UU4YI/qGDYbgf6YbP4EvmqISbXCoJiRKs+1bSpFHVgQxvJ17F2li5g==",
"dev": true,
"requires": {
"pseudomap": "^1.0.2",
"yallist": "^2.1.2"
}
},
"normalize-path": {
"version": "1.0.0",
"resolved": "https://registry.npmjs.org/normalize-path/-/normalize-path-1.0.0.tgz",
"integrity": "sha1-MtDkcvkf80VwHBWoMRAY07CpA3k=",
"dev": true
},
"yallist": {
"version": "2.1.2",
"resolved": "https://registry.npmjs.org/yallist/-/yallist-2.1.2.tgz",
"integrity": "sha1-HBH5IY8HYImkfdUS+TxmmaaoHVI=",
"dev": true
}
}
}
}
}

View file

@ -4,13 +4,11 @@
"private": true,
"description": "User client for the OpenFlexure Microscope Server",
"author": "OpenFlexure <contact@openflexure.org> (https://www.openflexure.org)",
"homepage": "https://gitlab.com/openflexure/openflexure-microscope-jsclient",
"publisher": "Bath Open Instrumentation Group",
"displayName": "OpenFlexure Microscope",
"license": "GNU General Public License v3.0 ",
"scripts": {
"serve": "vue-cli-service serve --mode development",
"build": "vue-cli-service build --mode production",
"serve": "vue-cli-service serve --mode development"
"lint": "vue-cli-service lint",
"prettier": "vue-cli-service lint --fix"
},
"dependencies": {
"material-design-icons": "^3.0.1",
@ -19,7 +17,9 @@
},
"devDependencies": {
"@vue/cli-plugin-babel": "^3.12.1",
"@vue/cli-plugin-eslint": "^4.5.8",
"@vue/cli-service": "^4.5.6",
"@vue/eslint-config-prettier": "^6.0.0",
"axios": "^0.19.2",
"babel-eslint": "^10.1.0",
"css-loader": "^3.6.0",
@ -30,12 +30,14 @@
"less": "^3.12.2",
"less-loader": "^5.0.0",
"mdns-js": "^1.0.3",
"prettier": "^1.19.1",
"uikit": "^3.5.7",
"vue": "^2.6.12",
"vue-friendly-iframe": "^0.17.0",
"vue-plugin-load-script": "^1.3.2",
"vue-template-compiler": "^2.6.12",
"vue-tour": "^1.5.0",
"vuejs-paginate": "^2.1.0",
"vuex": "^3.5.1"
},
"postcss": {
@ -47,5 +49,9 @@
"> 1%",
"last 2 versions",
"not ie <= 8"
]
],
"displayName": "OpenFlexure Microscope",
"homepage": "https://gitlab.com/openflexure/openflexure-microscope-jsclient",
"license": "GNU General Public License v3.0 ",
"publisher": "Bath Open Instrumentation Group"
}

View file

@ -45,7 +45,7 @@ import loadingContent from "./components/loadingContent.vue";
import axios from "axios";
var Mousetrap = require("mousetrap");
Mousetrap.prototype.stopCallback = function(e, element, combo) {
Mousetrap.prototype.stopCallback = function(e, element) {
// if the element has the class "mousetrap" then no need to stop
if ((" " + element.className + " ").indexOf(" mousetrap ") > -1) {
return false;

View file

@ -349,7 +349,7 @@ export default {
}
#container-left {
overflow: hidden;
overflow: auto;
background-color: rgba(180, 180, 180, 0.025);
width: 100%;
height: 100%;

View file

@ -1,5 +1,6 @@
<template>
<div>
<!-- eslint-disable-next-line vue/no-v-html -->
<p v-html="content"></p>
</div>
</template>

View file

@ -200,13 +200,13 @@ export default {
// If task ends with an error
else if (result == "error") {
// Pass the error string back with reject
console.log("Rejecting pollTask due to error")
console.log("Rejecting pollTask due to error");
reject(new Error(response.data.output));
}
// If task ends with termination
else if (result == "cancelled") {
// Pass a generic termination error back with reject
console.log("Rejecting pollTask due to cancellation")
console.log("Rejecting pollTask due to cancellation");
reject(new Error("Task cancelled"));
} else {
// Since the task is still running, we can update the progress bar

View file

@ -17,7 +17,7 @@
</template>
<script>
import devTools from "./controlComponents/devTools.vue";
import devTools from "./tabContentComponents/aboutComponents/devTools.vue";
// Export main app
export default {

View file

@ -148,9 +148,9 @@
<script>
import axios from "axios";
import cameraCalibrationSettings from "../viewComponents/settingsComponents/cameraSettingsComponents/cameraCalibrationSettings.vue";
import CSMCalibrationSettings from "../viewComponents/settingsComponents/CSMSettingsComponents/CSMCalibrationSettings.vue";
import miniStreamDisplay from "../viewComponents/miniStreamDisplay.vue";
import cameraCalibrationSettings from "../tabContentComponents/settingsComponents/cameraSettingsComponents/cameraCalibrationSettings.vue";
import CSMCalibrationSettings from "../tabContentComponents/settingsComponents/CSMSettingsComponents/CSMCalibrationSettings.vue";
import miniStreamDisplay from "../genericComponents/miniStreamDisplay.vue";
export default {
name: "CalibrationModal",

View file

@ -21,8 +21,8 @@
</template>
<script>
import devTools from "../controlComponents/devTools.vue";
import statusPane from "../viewComponents/statusPane.vue";
import devTools from "./aboutComponents/devTools.vue";
import statusPane from "./aboutComponents/statusPane.vue";
export default {
name: "AboutContent",

View file

@ -237,7 +237,6 @@
<option>Number</option>
</select>
</div>
</div>
</div>
</li>
@ -269,10 +268,10 @@
<script>
import axios from "axios";
import tagList from "../fieldComponents/tagList";
import keyvalList from "../fieldComponents/keyvalList";
import tagList from "../../fieldComponents/tagList";
import keyvalList from "../../fieldComponents/keyvalList";
import taskSubmitter from "../genericComponents/taskSubmitter";
import taskSubmitter from "../../genericComponents/taskSubmitter";
// Export main app
export default {

View file

@ -11,8 +11,8 @@
</template>
<script>
import paneCapture from "../controlComponents/paneCapture";
import streamDisplay from "../viewComponents/streamDisplay.vue";
import paneCapture from "./captureComponents/paneCapture";
import streamDisplay from "./streamContent.vue";
export default {
name: "NavigateContent",

View file

@ -28,8 +28,8 @@
</div>
</div>
<div class="view-component uk-width-expand">
<galleryDisplay v-if="viewPanel == 'gallery'" />
<settingsDisplay v-else-if="viewPanel == 'settings'" />
<galleryContent v-if="viewPanel == 'gallery'" />
<settingsContent v-else-if="viewPanel == 'settings'" />
<streamDisplay v-else />
</div>
</div>
@ -38,9 +38,9 @@
<script>
import JsonForm from "../pluginComponents/JsonForm";
import WebComponentLoader from "../pluginComponents/WebComponentLoader";
import streamDisplay from "../viewComponents/streamDisplay.vue";
import galleryDisplay from "../viewComponents/galleryDisplay.vue";
import settingsDisplay from "../viewComponents/settingsDisplay.vue";
import streamDisplay from "./streamContent.vue";
import galleryContent from "../tabContentComponents/galleryContent.vue";
import settingsContent from "../tabContentComponents/settingsContent.vue";
export default {
name: "ExtensionContent",
@ -49,8 +49,8 @@ export default {
JsonForm,
WebComponentLoader,
streamDisplay,
galleryDisplay,
settingsDisplay
galleryContent,
settingsContent
},
props: {

View file

@ -212,8 +212,9 @@ export default {
},
created: function() {
this.getTagRequest();
this.getAnnotationsRequest();
// Get initial metadata from prop
this.tags = this.captureState.metadata.image.tags;
this.annotations = this.captureState.metadata.annotations;
},
methods: {

View file

@ -6,12 +6,12 @@
<a href="#">
<img
class="uk-width-1-1"
:data-src="thumbnail"
:alt="metadata.image.id"
:data-src="scanState.thumbnail"
:alt="scanState.metadata.image.id"
width="300"
height="225"
uk-img
@click="$root.$emit('globalUpdateCaptureFolder', metadata.image.id)"
@click="onClick"
/>
</a>
</div>
@ -22,7 +22,8 @@
uk-grid
>
<div class="uk-margin-remove-top uk-padding-remove uk-width-expand">
<b>{{ metadata.type || "Dataset" }}: </b> {{ metadata.image.name }}
<b>{{ scanState.metadata.type || "Dataset" }}: </b>
{{ scanState.metadata.image.name }}
</div>
<div class="uk-margin-remove-top uk-padding-remove uk-width-auto">
<a href="#" class="uk-icon" @click="delAllConfirm()">
@ -34,7 +35,7 @@
<div
class="uk-text-meta uk-margin-remove-top uk-padding-remove uk-width-expand"
>
<time>{{ metadata.image.acquisitionDate }}</time>
<time>{{ scanState.metadata.image.acquisitionDate }}</time>
</div>
<div
class="uk-text-meta uk-margin-remove-top uk-padding-remove uk-width-auto"
@ -45,7 +46,7 @@
<div class="uk-card-footer uk-padding-small">
<span
v-for="tag in metadata.image.tags"
v-for="tag in scanState.metadata.image.tags"
:key="tag"
class="uk-label uk-margin-small-right deletable-label"
>
@ -56,13 +57,16 @@
<div :id="metadataModalID" uk-modal>
<div class="uk-modal-dialog uk-modal-body">
<button class="uk-modal-close-default" type="button" uk-close></button>
<h2 class="uk-modal-title">{{ metadata.image.name }}</h2>
<p><b>Time: </b>{{ metadata.image.acquisitionDate }}</p>
<p><b>ID: </b>{{ metadata.image.id }}</p>
<h2 class="uk-modal-title">{{ scanState.metadata.image.name }}</h2>
<p><b>Time: </b>{{ scanState.metadata.image.acquisitionDate }}</p>
<p><b>ID: </b>{{ scanState.metadata.image.id }}</p>
<hr />
<div v-for="(value, key) in metadata.image.annotations" :key="key">
<div
v-for="(value, key) in scanState.metadata.image.annotations"
:key="key"
>
<p>
<b>{{ key }}: </b>{{ value }}
</p>
@ -80,17 +84,9 @@ export default {
name: "ScanCard",
props: {
metadata: {
scanState: {
type: Object,
required: true
},
thumbnail: {
type: String,
required: true
},
captures: {
type: Array,
required: true
}
},
@ -109,7 +105,7 @@ export default {
},
allURLs: function() {
var urls = [];
for (var capture of this.captures) {
for (var capture of this.scanState.captures) {
urls.push(capture.links.self.href);
}
return urls;
@ -117,8 +113,12 @@ export default {
},
methods: {
onClick: function() {
this.$emit("selectFolder", this.scanState.metadata.image.id);
},
makeModalName: function(prefix) {
return prefix + this.metadata.image.id;
return prefix + this.scanState.metadata.image.id;
},
delAllConfirm: function() {
@ -131,18 +131,10 @@ export default {
},
deleteAll: function() {
axios
.all(this.allURLs.map(l => axios.delete(l)))
.then
//axios.spread(function(...res) {
// all requests are now complete
//console.log(res);
//})
()
.then(() => {
// Emit signal to update capture list
this.$root.$emit("globalUpdateCaptures");
});
axios.all(this.allURLs.map(l => axios.delete(l))).then(() => {
// Emit signal to update capture list
this.$root.$emit("globalUpdateCaptures");
});
}
}
};

View file

@ -1,19 +1,437 @@
<template>
<!-- Grid managing tab content -->
<div class="galleryDisplay uk-padding uk-padding-remove-top">
<!-- Gallery nav bar -->
<nav
class="gallery-navbar uk-navbar-container uk-navbar-transparent"
uk-navbar="mode: click"
>
<!-- Left side controls -->
<div
class="uk-navbar-left uk-padding-remove-top uk-padding-remove-bottom"
>
<ul class="uk-navbar-nav">
<li :class="[sortDescending ? 'uk-active' : '']">
<a class="uk-icon" href="#" @click="sortDescending = true">
<i class="material-icons">keyboard_arrow_down</i>
</a>
</li>
<li :class="[!sortDescending ? 'uk-active' : '']">
<a class="uk-icon" href="#" @click="sortDescending = false">
<i class="material-icons">keyboard_arrow_up</i>
</a>
</li>
<li>
<a href="#">Filter</a>
<div
:class="{
'uk-light uk-background-secondary':
$store.state.globalSettings.darkMode
}"
class="uk-navbar-dropdown"
>
<ul class="uk-nav uk-navbar-dropdown-nav">
<form class="uk-form-stacked">
<div
v-for="tag in allTags"
:key="tag"
class="uk-margin-small"
>
<label>
<input
:id="tag"
v-model="checkedTags"
:value="tag"
checked
class="uk-checkbox"
type="checkbox"
/>
{{ tag }}
</label>
</div>
</form>
</ul>
</div>
</li>
</ul>
</div>
<div class="view-component uk-height-1-1 uk-width-expand">
<galleryDisplay />
<!-- Right side buttons -->
<div class="uk-navbar-right">
<div class="uk-grid">
<div>
<button
class="uk-button uk-button-default uk-width-1-1"
type="button"
@click="updateCaptures()"
>
Refresh Captures
</button>
</div>
<div>
<ZipDownloader :capture-ids="Object.keys(filteredCaptures)" />
</div>
</div>
</div>
</nav>
<!-- Gallery -->
<div
v-if="$store.getters.ready"
class="uk-padding-remove-top"
uk-lightbox="toggle: .lightbox-link"
>
<!-- Folder heading -->
<div
v-if="galleryFolder"
class="gallery-folder-heading uk-flex uk-flex-middle"
>
<a class="uk-icon uk-margin-remove" href="#" @click="galleryBack()">
<i class="material-icons">arrow_back</i>
</a>
<div class="uk-margin-left">
<h3 class="uk-margin-remove uk-margin-left">
<b>SCAN</b>
{{ allScans[galleryFolder].metadata.image.name }}
</h3>
</div>
</div>
<!-- Gallery capture cards -->
<div class="gallery-grid">
<div v-for="item in pagedItems" :key="item.metadata.id">
<scanCard
v-if="'isScan' in item"
:scan-state="item"
@selectFolder="selectFolder"
/>
<captureCard v-else :capture-state="item" />
</div>
</div>
<Paginate
v-model="page"
:page-count="numberOfPages"
:page-range="3"
:margin-pages="1"
:container-class="'uk-pagination uk-flex-center'"
:prev-text="'Prev'"
:next-text="'Next'"
:page-class="'page-item'"
:disabled-class="'uk-disabled'"
>
</Paginate>
</div>
</div>
</template>
<script>
import galleryDisplay from "../viewComponents/galleryDisplay.vue";
import axios from "axios";
import Paginate from "vuejs-paginate";
import captureCard from "./galleryComponents/captureCard.vue";
import scanCard from "./galleryComponents/scanCard.vue";
import ZipDownloader from "./galleryComponents/zipDownloader";
// Export main app
export default {
name: "NavigateContent",
name: "GalleryDisplay",
components: {
galleryDisplay
captureCard,
scanCard,
ZipDownloader,
Paginate
},
data: function() {
return {
captures: [],
checkedTags: [],
sortDescending: true,
galleryFolder: "",
scanTag: "scan",
unwatchStoreFunction: null,
maxitems: 10,
page: 1
};
},
computed: {
capturesUri: function() {
return `${this.$store.getters.baseUri}/api/v2/captures`;
},
allTags: function() {
// Return an array of unique tags across all captures
var tags = [];
for (var capture of this.captures) {
for (var tag of capture.metadata.image.tags) {
if (!tags.includes(tag)) {
tags.push(tag);
}
}
}
return tags.sort();
},
noScanCaptures: function() {
// List of captures that are not part of a scan
var captures = [];
for (var capture of this.captures) {
// Add to capture list if matched
if (!capture.metadata.dataset) {
captures.push(capture);
}
}
return captures;
},
allScans: function() {
// List of scans as capture-like objects
var scans = {};
for (var capture of this.captures) {
var annotations = capture.metadata.image.annotations;
var tags = capture.metadata.image.tags;
var dataset = capture.metadata.dataset;
if (dataset) {
var id = dataset["id"];
// If this scan ID hasn't been seen before
if (!(id in scans)) {
scans[id] = {};
scans[id].isScan = true;
scans[id].captures = [];
scans[id].metadata = {
image: {
name: dataset.name,
acquisitionDate: dataset.acquisitionDate,
id: dataset.id,
tags: [],
annotations: {}
},
type: dataset.type
};
}
// Add the capture object to the scan
scans[id].captures.push(capture);
// Add missing scan metadata, prioritising first capture
for (var key of Object.keys(annotations)) {
if (!(key in scans[id].metadata.image.annotations)) {
scans[id].metadata.image.annotations[key] = annotations[key];
}
}
// Append missing tags
for (var tag of tags) {
if (!scans[id].metadata.image.tags.includes(tag)) {
scans[id].metadata.image.tags.push(tag);
}
}
// Create a preview thumbnail
if (!("thumbnail" in scans[id])) {
scans[
id
].thumbnail = `${capture.links.download.href}?thumbnail=true`;
}
}
}
return scans;
},
scanList: function() {
// List of scans, obtained from this.allScans values
return Object.values(this.allScans);
},
itemList: function() {
// Get list of current items to show
// If galleryFolder (ie inside a scan folder), show scan captures
// Otherwise, show root captures and scan cards
if (this.galleryFolder) {
return this.allScans[this.galleryFolder].captures;
} else {
return this.noScanCaptures.concat(this.scanList);
}
},
filteredItems: function() {
// Filter itemList by checkedTags
return this.filterCaptures(this.itemList, this.checkedTags);
},
filteredCaptures: function() {
var captures = {};
for (var item of this.filteredItems) {
// If it's a dataset
if ("captures" in item) {
for (var capture of item.captures) {
// Get the ID of each capture in the set
captures[capture.metadata.image.id] = capture;
}
} else {
// If it's a single capture, get the ID of the capture
captures[item.metadata.image.id] = item;
}
}
return captures;
},
sortedItems: function() {
// Sort filteredItems using sortCaptures function
return this.sortCaptures(this.filteredItems);
},
pagedItems: function() {
let startIndex = (this.page - 1) * this.maxitems;
return this.sortedItems.slice(startIndex, startIndex + this.maxitems);
},
numberOfPages: function() {
return Math.floor(this.sortedItems.length / this.maxitems);
}
},
mounted() {
// Update on mount (does nothing if not connected)
this.updateCaptures();
// A global signal listener to perform a gallery refresh
this.$root.$on("globalUpdateCaptures", () => {
this.updateCaptures();
});
},
created: function() {
// Watch for host 'ready', then update status
this.unwatchStoreFunction = this.$store.watch(
(state, getters) => {
return getters.ready;
},
ready => {
if (ready) {
// If the connection is now ready, update capture list
this.updateCaptures();
} else {
// If the connection is now disconnected, empty capture list
this.captures = {};
}
}
);
},
beforeDestroy() {
// Remove global signal listener to perform a gallery refresh
this.$root.$off("globalUpdateCaptures");
// Then we call that function here to unwatch
if (this.unwatchStoreFunction) {
this.unwatchStoreFunction();
this.unwatchStoreFunction = null;
}
},
methods: {
updateCaptures: function() {
if (this.$store.state.available) {
console.log("Updating capture list...");
axios
.get(this.capturesUri)
.then(response => {
this.captures = response.data;
})
.catch(error => {
this.modalError(error); // Let mixin handle error
});
} else {
console.log("Delaying capture update until connection is available");
}
},
filterCaptures: function(list, filterTags) {
// Filter a list of captures by an array of tags
var result = [];
for (var capture of list) {
// Assume exclusion
var includeCapture = false;
// Filter by selected tags
var tags = capture.metadata.image.tags;
let checker = (arr, target) => target.every(v => arr.includes(v));
// True if all tags match
includeCapture = checker(tags, filterTags);
// Add to capture list if matched
if (includeCapture == true) {
result.push(capture);
}
}
return result;
},
sortCaptures: function(list) {
// Sort a list of captures by metadata time
function compare(a, b) {
if (a.metadata.image.acquisitionDate < b.metadata.image.acquisitionDate)
return -1;
if (a.metadata.image.acquisitionDate > b.metadata.image.acquisitionDate)
return 1;
return 0;
}
if (this.sortDescending == true) {
return list.sort(compare).reverse();
} else {
return list.sort(compare);
}
},
galleryBack: function() {
this.galleryFolder = "";
this.page = 1;
},
selectFolder: function(folderID) {
console.log(folderID);
this.galleryFolder = folderID;
}
}
};
</script>
<style lang="less" scoped>
.gallery-navbar {
border-width: 0 0 1px 0;
border-style: solid;
border-color: rgba(180, 180, 180, 0.25);
}
.gallery-navbar,
.gallery-folder-heading {
margin-bottom: 30px;
}
.gallery-grid {
display: grid;
grid-template-columns: repeat(auto-fill, 320px);
justify-content: center;
overflow-y: auto;
}
.gallery-grid > div {
display: inline-block;
margin-bottom: 20px;
}
/deep/ .capture-card {
width: 300px;
height: 100%; // Used to have all cards in a row match their heights
margin-left: auto;
margin-right: auto;
}
</style>

View file

@ -158,7 +158,7 @@
<script>
import axios from "axios";
import taskSubmitter from "../genericComponents/taskSubmitter";
import taskSubmitter from "../../genericComponents/taskSubmitter";
// Export main app
export default {

View file

@ -11,8 +11,8 @@
</template>
<script>
import paneNavigate from "../controlComponents/paneNavigate";
import streamDisplay from "../viewComponents/streamDisplay.vue";
import paneNavigate from "./navigateComponents/paneNavigate";
import streamDisplay from "./streamContent.vue";
export default {
name: "NavigateContent",

View file

@ -10,7 +10,7 @@
<script>
import axios from "axios";
import CSMCalibrationSettings from "./CSMSettingsComponents/CSMCalibrationSettings.vue";
import miniStreamDisplay from "../miniStreamDisplay.vue";
import miniStreamDisplay from "../../genericComponents/miniStreamDisplay.vue";
// Export main app
export default {

View file

@ -69,7 +69,7 @@
<script>
import axios from "axios";
import cameraCalibrationSettings from "./cameraSettingsComponents/cameraCalibrationSettings.vue";
import miniStreamDisplay from "../miniStreamDisplay.vue";
import miniStreamDisplay from "../../genericComponents/miniStreamDisplay.vue";
// Export main app
export default {

View file

@ -8,11 +8,11 @@
>
</p>
<p class="uk-margin-small uk-width-xlarge">
Enabling IHI Slide Scan will add a new tab designed to simplify
acquiring blood smear tile scans. </br>
Enabling IHI Slide Scan will add a new tab designed to simplify acquiring
blood smear tile scans. <br />
While this may be useful for other applications, it is primarily designed
for use in clinics acquiring blood smear samples using a 100x oil-immersion
objective, with a Raspberry Pi Camera v2.
for use in clinics acquiring blood smear samples using a 100x
oil-immersion objective, with a Raspberry Pi Camera v2.
</p>
</div>
</template>

View file

@ -1,20 +1,224 @@
<template>
<!-- Grid managing tab content -->
<div uk-grid class="uk-height-1-1 uk-margin-remove uk-padding-remove">
<div class="settings-nav">
<ul class="uk-nav uk-nav-default">
<li class="uk-nav-header">Application settings</li>
<li>
<tabIcon
id="settings-display-icon"
tab-i-d="display"
:show-title="false"
:show-tooltip="false"
:require-connection="false"
:current-tab="currentTab"
@set-tab="setTab"
>
Display
</tabIcon>
</li>
<li>
<tabIcon
id="settings-features-icon"
tab-i-d="features"
:show-title="false"
:show-tooltip="false"
:require-connection="false"
:current-tab="currentTab"
@set-tab="setTab"
>
Features
</tabIcon>
</li>
<li class="uk-nav-header">Microscope settings</li>
<li>
<tabIcon
id="settings-camera-icon"
tab-i-d="camera"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
Camera
</tabIcon>
</li>
<li>
<tabIcon
id="settings-stage-icon"
tab-i-d="stage"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
Stage
</tabIcon>
</li>
<li>
<tabIcon
id="settings-mapping-icon"
tab-i-d="mapping"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
Camera/stage mapping
</tabIcon>
</li>
<li>
<tabIcon
id="settings-microscope-icon"
tab-i-d="microscope"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
General
</tabIcon>
</li>
</ul>
</div>
<div class="view-component uk-width-expand uk-padding-small">
<settingsDisplay />
<tabContent
tab-i-d="display"
:require-connection="false"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<appSettings />
<streamSettings />
</div>
</tabContent>
<tabContent
tab-i-d="features"
:require-connection="false"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<featuresSettings />
</div>
</tabContent>
<tabContent
tab-i-d="camera"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<cameraSettings />
</div>
</tabContent>
<tabContent
tab-i-d="stage"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<stageSettings />
</div>
</tabContent>
<tabContent
tab-i-d="mapping"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<h3>Camera/stage mapping</h3>
<p>
Camera/stage mapping allows the stage to move relative to the camera
view. This enables functions like click-to-move, and more precise
tile scans.
</p>
<CSMSettings />
</div>
</tabContent>
<tabContent
tab-i-d="microscope"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<h3>Microscope settings</h3>
<microscopeSettings />
</div>
</tabContent>
</div>
</div>
</template>
<script>
import settingsDisplay from "../viewComponents/settingsDisplay.vue";
import streamSettings from "./settingsComponents/streamSettings.vue";
import microscopeSettings from "./settingsComponents/microscopeSettings.vue";
import cameraSettings from "./settingsComponents/cameraSettings.vue";
import appSettings from "./settingsComponents/appSettings.vue";
import featuresSettings from "./settingsComponents/featuresSettings.vue";
import CSMSettings from "./settingsComponents/CSMSettings.vue";
import stageSettings from "./settingsComponents/stageSettings.vue";
// Import generic components
import tabIcon from "../genericComponents/tabIcon";
import tabContent from "../genericComponents/tabContent";
// Export main app
export default {
name: "NavigateContent",
name: "SettingsContent",
components: {
settingsDisplay
streamSettings,
cameraSettings,
stageSettings,
microscopeSettings,
CSMSettings,
appSettings,
featuresSettings,
tabIcon,
tabContent
},
data: function() {
return {
selected: "display",
currentTab: "display"
};
},
methods: {
setTab: function(event, tab) {
if (!(this.currentTab == tab)) {
this.currentTab = tab;
}
}
}
};
</script>
<style lang="less" scoped>
// Custom UIkit CSS modifications
@import "../../assets/less/theme.less";
.settings-nav {
overflow-y: auto;
overflow-x: hidden;
width: 250px;
padding: 10px;
background-color: rgba(180, 180, 180, 0.03);
border-width: 0 1px 0 0;
border-style: solid;
border-color: rgba(180, 180, 180, 0.25);
}
.settings-nav li > a {
padding-left: 6px !important;
border-radius: @button-border-radius;
}
</style>

View file

@ -135,7 +135,7 @@
<script>
import axios from "axios";
import taskSubmitter from "../genericComponents/taskSubmitter";
import taskSubmitter from "../../genericComponents/taskSubmitter";
export default {
components: {

View file

@ -11,8 +11,8 @@
</template>
<script>
import paneSlideScan from "../controlComponents/paneSlideScan";
import streamDisplay from "../viewComponents/streamDisplay.vue";
import paneSlideScan from "./slideScanComponents/paneSlideScan";
import streamDisplay from "./streamContent.vue";
export default {
name: "SlideScanContent",

View file

@ -8,7 +8,7 @@
</template>
<script>
import streamDisplay from "../viewComponents/streamDisplay.vue";
import streamDisplay from "./streamContent.vue";
export default {
name: "ViewContent",

View file

@ -1,168 +0,0 @@
<template>
<div
class="hostCard uk-card uk-card-default uk-padding-remove uk-width-medium"
:class="{ 'uk-card-secondary': $store.state.globalSettings.darkMode }"
>
<div class="uk-card-media-top">
<div class="snapshot-container uk-width-1-1 uk-height-auto">
<img
class="uk-width-1-1"
:data-src="snapshotSrc"
:src="snapshotSrc"
width="300"
height="225"
/>
<div
v-if="!snapshotAvailable"
class="uk-position-cover uk-flex uk-flex-center uk-flex-middle"
>
Snapshot unavailable
</div>
</div>
</div>
<div class="uk-card-body uk-padding-small">
<div
class="uk-margin-small uk-margin-remove-left uk-margin-remove-right uk-flex uk-flex-middle"
>
<div class="uk-width-expand host-description">
<div class="host-description">
<b>{{ name }}</b>
</div>
<div class="host-description">{{ hostname }}:{{ port }}</div>
</div>
<a
v-if="deletable"
href="#"
class="uk-icon uk-width-auto host-delete"
@click="$emit('delete')"
><i class="material-icons">delete</i></a
>
</div>
</div>
<div class="uk-card-footer uk-padding-small">
<button
class="uk-button uk-button-default uk-form-small uk-float-right uk-margin uk-margin-remove-top uk-width-1-1"
@click="$emit('connect')"
>
Connect
</button>
</div>
</div>
</template>
<script>
import axios from "axios";
// Export main app
export default {
name: "HostCard",
props: {
name: {
type: String,
required: true
},
hostname: {
type: String,
required: true
},
port: {
type: Number,
required: true
},
deletable: {
type: Boolean,
required: false,
default: true
}
},
data: function() {
return {
snapshotRule: "/api/v2/streams/snapshot",
snapshotSrc: "",
snapshotAvailable: false,
polling: null
};
},
computed: {
routesURL: function() {
return `http://${this.hostname}:${this.port}/routes`;
},
snapshotURL: function() {
return `http://${this.hostname}:${this.port}${this.snapshotRule}`;
}
},
mounted() {
// Try to load the microscope snapshot when mounted
this.checkSnapshotAvailable();
},
beforeDestroy() {
// Clear the polling timer
if (this.polling !== null) {
clearInterval(this.polling);
}
},
methods: {
checkSnapshotAvailable: function() {
// Fetches the list of routes from the host, and starts
// a snapshot timer if the snapshot route is available
// Send tag request
axios
.get(this.routesURL)
.then(response => {
// If the host has a snapshot route available
if (this.snapshotRule in response.data) {
// Tell the view that a snapshot is available
this.snapshotAvailable = true;
// Update the snapshot URL
this.updateSnapshotURL();
// If not already polling, start polling
if (this.polling === null) {
this.updateSnapshotPoll();
}
}
})
.catch(() => {
// Tell the view that a snapshot is not available, and ignore
this.snapshotAvailable = false;
});
},
updateSnapshotURL: function() {
// Set the snapshot image src to the snapshot URL,
// adding a timestamp argument to act as a cache-breaker
this.snapshotSrc = `${this.snapshotURL}?${Date.now()}`;
},
updateSnapshotPoll: function() {
// Start a timer to call updateSnapshotURL periodically
this.polling = setInterval(() => {
this.updateSnapshotURL();
}, 15000);
}
}
};
</script>
<style>
.host-description {
text-overflow: ellipsis;
overflow: hidden;
}
.snapshot-container {
position: relative;
}
img[data-src][src*="data:image"] {
background: rgba(127, 127, 127, 0.1);
}
</style>

View file

@ -1,409 +0,0 @@
<template>
<div class="galleryDisplay uk-padding uk-padding-remove-top">
<!-- Gallery nav bar -->
<nav
class="gallery-navbar uk-navbar-container uk-navbar-transparent"
uk-navbar="mode: click"
>
<!-- Left side controls -->
<div
class="uk-navbar-left uk-padding-remove-top uk-padding-remove-bottom"
>
<ul class="uk-navbar-nav">
<li :class="[sortDescending ? 'uk-active' : '']">
<a class="uk-icon" href="#" @click="sortDescending = true">
<i class="material-icons">keyboard_arrow_down</i>
</a>
</li>
<li :class="[!sortDescending ? 'uk-active' : '']">
<a class="uk-icon" href="#" @click="sortDescending = false">
<i class="material-icons">keyboard_arrow_up</i>
</a>
</li>
<li>
<a href="#">Filter</a>
<div
class="uk-navbar-dropdown"
:class="{
'uk-light uk-background-secondary':
$store.state.globalSettings.darkMode
}"
>
<ul class="uk-nav uk-navbar-dropdown-nav">
<form class="uk-form-stacked">
<div
v-for="tag in allTags"
:key="tag"
class="uk-margin-small"
>
<label>
<input
:id="tag"
v-model="checkedTags"
class="uk-checkbox"
type="checkbox"
:value="tag"
checked
/>
{{ tag }}
</label>
</div>
</form>
</ul>
</div>
</li>
</ul>
</div>
<!-- Right side buttons -->
<div class="uk-navbar-right">
<div class="uk-grid">
<div>
<button
type="button"
class="uk-button uk-button-default uk-width-1-1"
@click="updateCaptures()"
>
Refresh Captures
</button>
</div>
<div>
<ZipDownloader :capture-ids="Object.keys(filteredCaptures)" />
</div>
</div>
</div>
</nav>
<!-- Gallery -->
<div
v-if="$store.getters.ready"
class="uk-padding-remove-top"
uk-lightbox="toggle: .lightbox-link"
>
<!-- Folder heading -->
<div
v-if="galleryFolder"
class="gallery-folder-heading uk-flex uk-flex-middle"
>
<a
href="#"
class="uk-icon uk-margin-remove"
@click="galleryFolder = ''"
>
<i class="material-icons">arrow_back</i>
</a>
<div class="uk-margin-left">
<h3 class="uk-margin-remove uk-margin-left">
<b>SCAN</b>
{{ allScans[galleryFolder].metadata.image.name }}
</h3>
</div>
</div>
<!-- Gallery capture cards -->
<div class="gallery-grid">
<div v-for="item in sortedItems" :key="item.metadata.id">
<scanCard
v-if="'isScan' in item"
:metadata="item.metadata"
:thumbnail="item.thumbnail"
:captures="item.captures"
/>
<captureCard v-else :capture-state="item" />
</div>
</div>
</div>
</div>
</template>
<script>
import axios from "axios";
import captureCard from "./galleryComponents/captureCard.vue";
import scanCard from "./galleryComponents/scanCard.vue";
import ZipDownloader from "./galleryComponents/zipDownloader";
// Export main app
export default {
name: "GalleryDisplay",
components: {
captureCard,
scanCard,
ZipDownloader
},
data: function() {
return {
captures: [],
checkedTags: [],
sortDescending: true,
galleryFolder: "",
scanTag: "scan",
unwatchStoreFunction: null
};
},
computed: {
capturesUri: function() {
return `${this.$store.getters.baseUri}/api/v2/captures`;
},
allTags: function() {
// Return an array of unique tags across all captures
var tags = [];
for (var capture of this.captures) {
for (var tag of capture.metadata.image.tags) {
if (!tags.includes(tag)) {
tags.push(tag);
}
}
}
return tags.sort();
},
noScanCaptures: function() {
// List of captures that are not part of a scan
var captures = [];
for (var capture of this.captures) {
// Add to capture list if matched
if (!capture.metadata.dataset) {
captures.push(capture);
}
}
return captures;
},
allScans: function() {
// List of scans as capture-like objects
var scans = {};
for (var capture of this.captures) {
var annotations = capture.metadata.image.annotations;
var tags = capture.metadata.image.tags;
var dataset = capture.metadata.dataset;
if (dataset) {
var id = dataset["id"];
// If this scan ID hasn't been seen before
if (!(id in scans)) {
scans[id] = {};
scans[id].isScan = true;
scans[id].captures = [];
scans[id].metadata = {
image: {
name: dataset.name,
acquisitionDate: dataset.acquisitionDate,
id: dataset.id,
tags: [],
annotations: {}
},
type: dataset.type
};
}
// Add the capture object to the scan
scans[id].captures.push(capture);
// Add missing scan metadata, prioritising first capture
for (var key of Object.keys(annotations)) {
if (!(key in scans[id].metadata.image.annotations)) {
scans[id].metadata.image.annotations[key] = annotations[key];
}
}
// Append missing tags
for (var tag of tags) {
if (!scans[id].metadata.image.tags.includes(tag)) {
scans[id].metadata.image.tags.push(tag);
}
}
// Create a preview thumbnail
if (!("thumbnail" in scans[id])) {
scans[
id
].thumbnail = `${capture.links.download.href}?thumbnail=true`;
}
}
}
return scans;
},
scanList: function() {
// List of scans, obtained from this.allScans values
return Object.values(this.allScans);
},
itemList: function() {
// Get list of current items to show
// If galleryFolder (ie inside a scan folder), show scan captures
// Otherwise, show root captures and scan cards
if (this.galleryFolder) {
console.log(this.allScans[this.galleryFolder].captures);
return this.allScans[this.galleryFolder].captures;
} else {
return this.noScanCaptures.concat(this.scanList);
}
},
filteredItems: function() {
// Filter itemList by checkedTags
return this.filterCaptures(this.itemList, this.checkedTags);
},
filteredCaptures: function() {
var captures = {};
for (var item of this.filteredItems) {
// If it's a dataset
if ("captures" in item) {
for (var capture of item.captures) {
// Get the ID of each capture in the set
captures[capture.metadata.image.id] = capture;
}
} else {
// If it's a single capture, get the ID of the capture
captures[item.metadata.image.id] = item;
}
}
return captures;
},
sortedItems: function() {
// Sort filteredItems using sortCaptures function
return this.sortCaptures(this.filteredItems);
}
},
mounted() {
// Update on mount (does nothing if not connected)
this.updateCaptures();
// A global signal listener to perform a gallery refresh
this.$root.$on("globalUpdateCaptures", () => {
this.updateCaptures();
});
// A global signal listener to set the gallery folder
this.$root.$on("globalUpdateCaptureFolder", folder => {
this.galleryFolder = folder;
});
},
created: function() {
// Watch for host 'ready', then update status
this.unwatchStoreFunction = this.$store.watch(
(state, getters) => {
return getters.ready;
},
ready => {
if (ready) {
// If the connection is now ready, update capture list
this.updateCaptures();
} else {
// If the connection is now disconnected, empty capture list
this.captures = {};
}
}
);
},
beforeDestroy() {
// Remove global signal listener to perform a gallery refresh
this.$root.$off("globalUpdateCaptures");
// Remove global signal listener to set the gallery folder
this.$root.$off("globalUpdateCaptureFolder");
// Then we call that function here to unwatch
if (this.unwatchStoreFunction) {
this.unwatchStoreFunction();
this.unwatchStoreFunction = null;
}
},
methods: {
updateCaptures: function() {
if (this.$store.state.available) {
console.log("Updating capture list...");
axios
.get(this.capturesUri)
.then(response => {
this.captures = response.data;
})
.catch(error => {
this.modalError(error); // Let mixin handle error
});
} else {
console.log("Delaying capture update until connection is available");
}
},
filterCaptures: function(list, filterTags) {
// Filter a list of captures by an array of tags
var result = [];
for (var capture of list) {
// Assume exclusion
var includeCapture = false;
// Filter by selected tags
var tags = capture.metadata.image.tags;
let checker = (arr, target) => target.every(v => arr.includes(v));
// True if all tags match
includeCapture = checker(tags, filterTags);
// Add to capture list if matched
if (includeCapture == true) {
result.push(capture);
}
}
return result;
},
sortCaptures: function(list) {
// Sort a list of captures by metadata time
function compare(a, b) {
if (a.metadata.image.acquisitionDate < b.metadata.image.acquisitionDate)
return -1;
if (a.metadata.image.acquisitionDate > b.metadata.image.acquisitionDate)
return 1;
return 0;
}
if (this.sortDescending == true) {
return list.sort(compare).reverse();
} else {
return list.sort(compare);
}
}
}
};
</script>
<style scoped lang="less">
.gallery-navbar {
border-width: 0 0 1px 0;
border-style: solid;
border-color: rgba(180, 180, 180, 0.25);
}
.gallery-navbar,
.gallery-folder-heading {
margin-bottom: 30px;
}
.gallery-grid {
display: grid;
grid-template-columns: repeat(auto-fill, 320px);
justify-content: center;
}
.gallery-grid > div {
display: inline-block;
margin-bottom: 20px;
}
/deep/ .capture-card {
width: 300px;
height: 100%; // Used to have all cards in a row match their heights
margin-left: auto;
margin-right: auto;
}
</style>

View file

@ -1,224 +0,0 @@
<template>
<!-- Grid managing tab content -->
<div uk-grid class="uk-height-1-1 uk-margin-remove uk-padding-remove">
<div class="settings-nav">
<ul class="uk-nav uk-nav-default">
<li class="uk-nav-header">Application settings</li>
<li>
<tabIcon
id="settings-display-icon"
tab-i-d="display"
:show-title="false"
:show-tooltip="false"
:require-connection="false"
:current-tab="currentTab"
@set-tab="setTab"
>
Display
</tabIcon>
</li>
<li>
<tabIcon
id="settings-features-icon"
tab-i-d="features"
:show-title="false"
:show-tooltip="false"
:require-connection="false"
:current-tab="currentTab"
@set-tab="setTab"
>
Features
</tabIcon>
</li>
<li class="uk-nav-header">Microscope settings</li>
<li>
<tabIcon
id="settings-camera-icon"
tab-i-d="camera"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
Camera
</tabIcon>
</li>
<li>
<tabIcon
id="settings-stage-icon"
tab-i-d="stage"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
Stage
</tabIcon>
</li>
<li>
<tabIcon
id="settings-mapping-icon"
tab-i-d="mapping"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
Camera/stage mapping
</tabIcon>
</li>
<li>
<tabIcon
id="settings-microscope-icon"
tab-i-d="microscope"
:show-title="false"
:show-tooltip="false"
:require-connection="true"
:current-tab="currentTab"
@set-tab="setTab"
>
General
</tabIcon>
</li>
</ul>
</div>
<div class="view-component uk-width-expand uk-padding-small">
<tabContent
tab-i-d="display"
:require-connection="false"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<appSettings />
<streamSettings />
</div>
</tabContent>
<tabContent
tab-i-d="features"
:require-connection="false"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<featuresSettings />
</div>
</tabContent>
<tabContent
tab-i-d="camera"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<cameraSettings />
</div>
</tabContent>
<tabContent
tab-i-d="stage"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<stageSettings />
</div>
</tabContent>
<tabContent
tab-i-d="mapping"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<h3>Camera/stage mapping</h3>
<p>
Camera/stage mapping allows the stage to move relative to the camera
view. This enables functions like click-to-move, and more precise
tile scans.
</p>
<CSMSettings />
</div>
</tabContent>
<tabContent
tab-i-d="microscope"
:require-connection="true"
:current-tab="currentTab"
>
<div class="settings-pane uk-padding-small">
<h3>Microscope settings</h3>
<microscopeSettings />
</div>
</tabContent>
</div>
</div>
</template>
<script>
import streamSettings from "./settingsComponents/streamSettings.vue";
import microscopeSettings from "./settingsComponents/microscopeSettings.vue";
import cameraSettings from "./settingsComponents/cameraSettings.vue";
import appSettings from "./settingsComponents/appSettings.vue";
import featuresSettings from "./settingsComponents/featuresSettings.vue";
import CSMSettings from "./settingsComponents/CSMSettings.vue";
import stageSettings from "./settingsComponents/stageSettings.vue";
// Import generic components
import tabIcon from "../genericComponents/tabIcon";
import tabContent from "../genericComponents/tabContent";
// Export main app
export default {
name: "SettingsDisplay",
components: {
streamSettings,
cameraSettings,
stageSettings,
microscopeSettings,
CSMSettings,
appSettings,
featuresSettings,
tabIcon,
tabContent
},
data: function() {
return {
selected: "display",
currentTab: "display"
};
},
methods: {
setTab: function(event, tab) {
if (!(this.currentTab == tab)) {
this.currentTab = tab;
}
}
}
};
</script>
<style lang="less" scoped>
// Custom UIkit CSS modifications
@import "../../assets/less/theme.less";
.settings-nav {
overflow-y: auto;
overflow-x: hidden;
width: 250px;
padding: 10px;
background-color: rgba(180, 180, 180, 0.03);
border-width: 0 1px 0 0;
border-style: solid;
border-color: rgba(180, 180, 180, 0.25);
}
.settings-nav li > a {
padding-left: 6px !important;
border-radius: @button-border-radius;
}
</style>

View file

@ -484,6 +484,7 @@ class PiCameraStreamer(BaseCamera):
use_video_port: bool = False,
resize: Tuple[int, int] = None,
bayer: bool = True,
thumbnail: tuple = None,
):
"""
Capture a still image to a StreamObject.
@ -515,6 +516,7 @@ class PiCameraStreamer(BaseCamera):
resize=resize,
bayer=(not use_video_port) and bayer,
use_video_port=use_video_port,
thumbnail=thumbnail,
)
# Set resolution and start stream recording if necessary

View file

@ -8,15 +8,12 @@ import uuid
from collections import OrderedDict
import dateutil.parser
from PIL import Image
from openflexure_microscope.camera import piexif
from openflexure_microscope.camera.piexif._exceptions import InvalidImageDataError
from openflexure_microscope.config import JSONEncoder
PIL_FORMATS = ["JPG", "JPEG", "PNG", "TIF", "TIFF"]
EXIF_FORMATS = ["JPG", "JPEG", "TIF", "TIFF"]
THUMBNAIL_SIZE = (200, 150)
def pull_usercomment_dict(filepath):
@ -145,9 +142,6 @@ class CaptureObject(object):
# List for storing tags
self.tags = []
# Thumbnail (populated only for PIL captures)
self.thumb_bytes = None
def write(self, s):
logging.debug("Writing to %s", self)
self.stream.write(s)
@ -349,21 +343,12 @@ class CaptureObject(object):
"""
Returns a thumbnail of the capture data, for supported image formats.
"""
# If no thumbnail exists, try and make one
if not self.thumb_bytes:
logging.info("Building thumbnail")
self.thumb_bytes = io.BytesIO()
if self.format.upper() in PIL_FORMATS:
im = Image.open(self.data)
im.thumbnail(THUMBNAIL_SIZE)
im.save(self.thumb_bytes, self.format)
self.thumb_bytes.seek(0)
else:
self.thumb_bytes.seek(0)
# Copy the buffer, to avoid closing the file
data = io.BytesIO(self.thumb_bytes.getbuffer())
return data
exif_dict = piexif.load(self.file)
thumbnail = exif_dict.pop("thumbnail")
if thumbnail:
return io.BytesIO(thumbnail)
# If no thumbnail exists, serve the full image
return self.data.getvalue()
def save(self) -> None:
"""Write stream to file, and save/update metadata file"""

View file

@ -384,6 +384,9 @@ class Microscope:
)
# Capture to output object
extras = {}
if fmt == "jpeg":
extras["thumbnail"] = (200, 150, 85)
logging.info("Starting microscope capture %s", output.file)
self.camera.capture(
output,
@ -391,6 +394,7 @@ class Microscope:
resize=resize,
bayer=bayer,
fmt=fmt,
**extras,
)
output.put_and_save(tags, annotations, full_metadata)

View file

@ -60,7 +60,7 @@ pylint = "^2.3"
black = {version = "^18.3-alpha.0",allow-prereleases = true}
[tool.black]
exclude = '(\.eggs|\.git|\.venv)'
exclude = '(\.eggs|\.git|\.venv|node_modules/)'
[tool.isort]
multi_line_output = 3