Chore/kill yalc with fire (#629)
* init * more shifting * Move @babel dependencies up to workspace root * Begin updating dependent libraries to use sync'd webpack builds w/ watches * Commit changes before a long weekend * Split packages into platform and extensions * Consolidate how/where we specify file/module type entrypoints * Make it possible to pass in extensions as App props * Resolve viewer's modules * Target for UMD bundle * Add Webpack Stylus loader * Provide WebPack build options for microscopy, vtk, and ui * Better entrypoint for extensions * Push changes up to switch PCs * Fix ESM symlink build for Viewers * Shift docs to root * Specify additional lerna config props * Begin providing basic readme info * Rename example extension folder * Shift links to bottom of doc * First attempt at a netlify deploy preview * Attempt to fix deploy preview build * push workspace enabled to initial command; remove second yarn install; use npx to call gitbook cli commands * Try to use global gitbook-cli * Export node_modules path * More agressive with modifying PATH * Follow deploy log output advice * try again to set bin path * Try swapping bash with a new shell * Try bash -l instead of exec bash * Annd let's try again * and again * We may have figured it out johnny, boy * We need to pull cornerstone-wado-image-loader files from hoisted node_modules * Attempt to fix ticks/escapes * Change copy syntax; try running tests on viewers from root for circleci * Lower version to match circleci image * Try alternative jest-canvas-mock location and version file syntax * Run version command instead of calling node directly * Try alternative jest transform * Set path and enable workspaces * Add codecov flags * Use cpx so our copying finishes? * Get all platform unit tests to run * Run and report individually and in parallel * Try once relying on codecov yaml to split w/ flags * Add projects to split by flags * Generate separate reports * Trigger codecov after everything has finished running; these may not support flags * Use recommended flags from issue comments for codecov * Fix typo * Remove clear flag * Shift back to calling codecov from root * Generate example for codecov issue * Try fixing paths * Simplify * Try using codecov orb * Bump circleci version * Upload core and viewer * Use full string paths * Remove individual codecov calls * Fix dir * Combine files before upload * Escape anchors * tryfix syntax * Escape string literal * Combine lines to reduce path * long paths * Use home alias * Fix filename * Try to see the contents of our cat'd file * Also upload `core` * Try running with aliased folder * Fix path; split PR and Merge unit tests into separate jobs * Set default threshold * Fix typo * Changing to scoped package names * Adding note * Catch more updates * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.0 - @ohif/extension-dicom-html@0.0.4-alpha.0 - @ohif/extension-dicom-microscopy@0.0.9-alpha.0 - @ohif/extension-dicom-pdf@0.0.8-alpha.0 - @ohif/extension-vtk@0.1.4-alpha.0 - @ohif/core@0.11.1-alpha.0 - @ohif/i18n@0.2.3-alpha.0 - @ohif/ui@0.2.18-alpha.0 - @ohif/viewer@0.0.22-alpha.0 * Clean up primary readme * Support for dev and dev:* commands * Shift build command; satisfy default PWA build * Remove old scripts * Clean up UI to set webpack scripts * Tidy up project links * Clean duplicate code in UI project * Update UI project's docs * Clean up ui and i18n config * Reduce duplicate code in `@ohif/core` * Fix @ohif/ui versions * bump @ohif/core versions * Redux testkit dep * Remove unused/duplicate config files for projects/packages * ohif-core --> @ohif/core * Safer publish command * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.1 - @ohif/extension-dicom-html@0.0.4-alpha.1 - @ohif/extension-dicom-microscopy@0.0.9-alpha.1 - @ohif/extension-dicom-pdf@0.0.8-alpha.1 - @ohif/extension-vtk@0.1.4-alpha.1 - @ohif/core@0.11.1-alpha.1 - @ohif/i18n@0.2.3-alpha.1 - @ohif/ui@0.2.18-alpha.1 - @ohif/viewer@0.0.22-alpha.1 * test version bump * Add global prettier config * chore(release): publish %s [skip ci] - @ohif/viewer@0.0.22-alpha.2 * test lerna publish * Update package.jsons * Fix build scripts * catch changes * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.2 - @ohif/extension-dicom-html@0.0.4-alpha.2 - @ohif/extension-dicom-microscopy@0.0.9-alpha.2 - @ohif/extension-dicom-pdf@0.0.8-alpha.2 - @ohif/extension-vtk@0.1.4-alpha.2 - @ohif/core@0.11.1-alpha.2 - @ohif/i18n@0.2.3-alpha.2 - @ohif/ui@0.2.18-alpha.2 - @ohif/viewer@0.0.22-alpha.3 * fix eslint issues caused by eslint 6 and our react-app config * Publish with canary tag * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.3 - @ohif/extension-dicom-html@0.0.4-alpha.3 - @ohif/extension-dicom-microscopy@0.0.9-alpha.3 - @ohif/extension-dicom-pdf@0.0.8-alpha.3 - @ohif/extension-vtk@0.1.4-alpha.3 - @ohif/core@0.11.1-alpha.3 - @ohif/i18n@0.2.3-alpha.3 - @ohif/ui@0.2.18-alpha.3 - @ohif/viewer@0.0.22-alpha.4 * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.4 - @ohif/extension-dicom-html@0.0.4-alpha.4 - @ohif/extension-dicom-microscopy@0.0.9-alpha.4 - @ohif/extension-dicom-pdf@0.0.8-alpha.4 - @ohif/extension-vtk@0.1.4-alpha.4 - @ohif/core@0.11.1-alpha.4 - @ohif/i18n@0.2.3-alpha.4 - @ohif/ui@0.2.18-alpha.4 - @ohif/viewer@0.0.22-alpha.5 * Simplify build * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.5 - @ohif/extension-dicom-html@0.0.4-alpha.5 - @ohif/extension-dicom-microscopy@0.0.9-alpha.5 - @ohif/extension-dicom-pdf@0.0.8-alpha.5 - @ohif/extension-vtk@0.1.4-alpha.5 - @ohif/core@0.11.1-alpha.5 - @ohif/i18n@0.2.3-alpha.5 - @ohif/ui@0.2.18-alpha.5 - @ohif/viewer@0.0.22-alpha.6 * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.6 - @ohif/extension-dicom-html@0.0.4-alpha.6 - @ohif/extension-dicom-microscopy@0.0.9-alpha.6 - @ohif/extension-dicom-pdf@0.0.8-alpha.6 - @ohif/extension-vtk@0.1.4-alpha.6 - @ohif/core@0.11.1-alpha.6 - @ohif/i18n@0.2.3-alpha.6 - @ohif/ui@0.2.18-alpha.6 - @ohif/viewer@0.0.22-alpha.7 * Split version and publish * chore(release): publish %s [skip ci] - @ohif/extension-cornerstone@0.0.39-alpha.7 - @ohif/extension-dicom-html@0.0.4-alpha.7 - @ohif/extension-dicom-microscopy@0.0.9-alpha.7 - @ohif/extension-dicom-pdf@0.0.8-alpha.7 - @ohif/extension-vtk@0.1.4-alpha.7 - @ohif/core@0.11.1-alpha.7 - @ohif/i18n@0.2.3-alpha.7 - @ohif/ui@0.2.18-alpha.7 - @ohif/viewer@0.0.22-alpha.8 * Try simplify netlify build * react-viewerbase --> @ohif/ui * add test for stylus loader * Try new way to specify publish path * Use an output folder that won't be ignored * Try move command * fiddle with paths * Dig for some information * Make sure we're in root for our commands * Remove discovery * Setup script-tag example * Fix typo * Move config folder * Update cornerstone extension to use shared/root webpack configs * capture changes * Update extension webpack configs * Don't check in docz output * Fix babel runtime resolution issue * Simplify ui build steps * Push in progress * Shift directories * Get viewer dev path to work * Fix viewer commonjs build * Fix build pwa config for viewers * Make sure our package specific command can be called from root * Update notes * Fix imports and misc. merge notes * Bump wado-image-loader version * Switch up commands to remove webworkers copy * Fix CI config * Fix more broken package references * Add react-dropzone * Persist so e2e test can use * Fix lockfile * Use cypress orb to simplify CI * Fix config * Try again * Install yarn latest for orb * Install yarn a different way * Wait on correct port * Run tests in viewer project * Fix cypress config * Make Cypress happier - use default location * Simplify e2e testing * Capture UI changes since fork * Catch core up * Grab latest deps after merge * Fix broken import * Make sure cornerstone-wado-image-loader resolves to 3+ * Note regarding orbs * Fix refresh on 404 routes * Fix odd error for cornerstone-wado-image-loader * Different target for UMD * Simplify dev script * Try to get fancy with netlify output * Let's do it again * Try to fix measurementTools issue * See if we can get our lerna magic to work on merge to monorepo branch
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@@ -0,0 +1,377 @@
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import React, { Component } from 'react';
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import PropTypes from 'prop-types';
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import classNames from 'classnames';
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import { MODULE_TYPES } from '@ohif/core';
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import OHIF from '@ohif/core';
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import moment from 'moment';
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import WhiteLabellingContext from '../WhiteLabellingContext.js';
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import ConnectedHeader from './ConnectedHeader.js';
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import ConnectedToolbarRow from './ConnectedToolbarRow.js';
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import ConnectedLabellingOverlay from './ConnectedLabellingOverlay';
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import ConnectedStudyBrowser from './ConnectedStudyBrowser.js';
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import ConnectedViewerMain from './ConnectedViewerMain.js';
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import SidePanel from './../components/SidePanel.js';
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import { extensionManager } from './../App.js';
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import UserManagerContext from '../UserManagerContext';
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import './Viewer.css';
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/**
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* Inits OHIF Hanging Protocol's onReady.
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* It waits for OHIF Hanging Protocol to be ready to instantiate the ProtocolEngine
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* Hanging Protocol will use OHIF LayoutManager to render viewports properly
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*/
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/*const initHangingProtocol = () => {
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// When Hanging Protocol is ready
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HP.ProtocolStore.onReady(() => {
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// Gets all StudyMetadata objects: necessary for Hanging Protocol to access study metadata
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const studyMetadataList = OHIF.viewer.StudyMetadataList.all();
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// Instantiate StudyMetadataSource: necessary for Hanging Protocol to get study metadata
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const studyMetadataSource = new OHIF.studies.classes.OHIFStudyMetadataSource();
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// Get prior studies map
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const studyPriorsMap = OHIF.studylist.functions.getStudyPriorsMap(studyMetadataList);
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// Creates Protocol Engine object with required arguments
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const ProtocolEngine = new HP.ProtocolEngine(layoutManager, studyMetadataList, studyPriorsMap, studyMetadataSource);
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// Sets up Hanging Protocol engine
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HP.setEngine(ProtocolEngine);
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});
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};*/
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/*const viewportUtils = OHIF.viewerbase.viewportUtils;
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OHIF.viewer.functionList = {
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toggleCineDialog: viewportUtils.toggleCineDialog,
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toggleCinePlay: viewportUtils.toggleCinePlay,
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clearTools: viewportUtils.clearTools,
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resetViewport: viewportUtils.resetViewport,
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invert: viewportUtils.invert
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};*/
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class Viewer extends Component {
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static propTypes = {
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studies: PropTypes.array,
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studyInstanceUids: PropTypes.array,
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onTimepointsUpdated: PropTypes.func,
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onMeasurementsUpdated: PropTypes.func,
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// window.store.getState().viewports.viewportSpecificData
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viewports: PropTypes.object.isRequired,
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// window.store.getState().viewports.activeViewportIndex
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activeViewportIndex: PropTypes.number.isRequired,
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};
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constructor(props) {
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super(props);
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OHIF.measurements.MeasurementApi.setConfiguration({
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dataExchange: {
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retrieve: this.retrieveMeasurements,
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store: this.storeMeasurements,
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},
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});
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OHIF.measurements.TimepointApi.setConfiguration({
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dataExchange: {
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retrieve: this.retrieveTimepoints,
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store: this.storeTimepoints,
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remove: this.removeTimepoint,
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update: this.updateTimepoint,
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disassociate: this.disassociateStudy,
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},
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});
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}
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state = {
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isLeftSidePanelOpen: true,
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isRightSidePanelOpen: false,
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selectedRightSidePanel: '',
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selectedLeftSidePanel: 'studies', // TODO: Don't hardcode this
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thumbnails: [],
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};
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retrieveMeasurements = (patientId, timepointIds) => {
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OHIF.log.info('retrieveMeasurements');
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// TODO: Retrieve the measurements from the latest available SR
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return Promise.resolve();
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};
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storeMeasurements = (measurementData, timepointIds) => {
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OHIF.log.info('storeMeasurements');
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// TODO: Store the measurements into a new SR sent to the active server
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return Promise.resolve();
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};
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retrieveTimepoints = filter => {
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OHIF.log.info('retrieveTimepoints');
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// Get the earliest and latest study date
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let earliestDate = new Date().toISOString();
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let latestDate = new Date().toISOString();
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if (this.props.studies) {
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latestDate = new Date('1000-01-01').toISOString();
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this.props.studies.forEach(study => {
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const studyDate = moment(study.studyDate, 'YYYYMMDD').toISOString();
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if (studyDate < earliestDate) {
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earliestDate = studyDate;
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}
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if (studyDate > latestDate) {
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latestDate = studyDate;
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}
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});
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}
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// Return a generic timepoint
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return Promise.resolve([
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{
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timepointType: 'baseline',
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timepointId: 'TimepointId',
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studyInstanceUids: this.props.studyInstanceUids,
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patientId: filter.patientId,
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earliestDate,
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latestDate,
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isLocked: false,
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},
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]);
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};
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storeTimepoints = timepointData => {
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OHIF.log.info('storeTimepoints');
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return Promise.resolve();
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};
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updateTimepoint = (timepointData, query) => {
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OHIF.log.info('updateTimepoint');
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return Promise.resolve();
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};
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removeTimepoint = timepointId => {
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OHIF.log.info('removeTimepoint');
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return Promise.resolve();
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};
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disassociateStudy = (timepointIds, studyInstanceUid) => {
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OHIF.log.info('disassociateStudy');
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return Promise.resolve();
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};
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onTimepointsUpdated = timepoints => {
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if (this.props.onTimepointsUpdated) {
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this.props.onTimepointsUpdated(timepoints);
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}
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};
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onMeasurementsUpdated = measurements => {
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if (this.props.onMeasurementsUpdated) {
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this.props.onMeasurementsUpdated(measurements);
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}
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};
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componentDidMount() {
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const { studies } = this.props;
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const { TimepointApi, MeasurementApi } = OHIF.measurements;
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const currentTimepointId = 'TimepointId';
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const timepointApi = new TimepointApi(currentTimepointId, {
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onTimepointsUpdated: this.onTimepointsUpdated,
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});
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const measurementApi = new MeasurementApi(timepointApi, {
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onMeasurementsUpdated: this.onMeasurementsUpdated,
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});
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this.currentTimepointId = currentTimepointId;
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this.timepointApi = timepointApi;
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this.measurementApi = measurementApi;
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if (studies) {
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const patientId = studies[0] && studies[0].patientId;
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timepointApi.retrieveTimepoints({ patientId });
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measurementApi.retrieveMeasurements(patientId, [currentTimepointId]);
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this.setState({
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thumbnails: _mapStudiesToThumbnails(studies),
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});
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}
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}
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componentDidUpdate(prevProps) {
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if (this.props.studies !== prevProps.studies) {
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const { studies } = this.props;
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const patientId = studies[0] && studies[0].patientId;
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const currentTimepointId = this.currentTimepointId;
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this.timepointApi.retrieveTimepoints({ patientId });
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this.measurementApi.retrieveMeasurements(patientId, [currentTimepointId]);
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this.setState({
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thumbnails: _mapStudiesToThumbnails(studies),
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});
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}
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}
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render() {
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let VisiblePanelLeft, VisiblePanelRight;
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const panelExtensions = extensionManager.modules[MODULE_TYPES.PANEL];
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panelExtensions.forEach(panelExt => {
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panelExt.module.components.forEach(comp => {
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if (comp.id === this.state.selectedRightSidePanel) {
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VisiblePanelRight = comp.component;
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} else if (comp.id === this.state.selectedLeftSidePanel) {
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VisiblePanelLeft = comp.component;
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}
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});
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});
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return (
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<>
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{/* HEADER */}
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<WhiteLabellingContext.Consumer>
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{whiteLabelling => (
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<UserManagerContext.Consumer>
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{userManager => (
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<ConnectedHeader home={false} userManager={userManager}>
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{whiteLabelling.logoComponent}
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</ConnectedHeader>
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)}
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</UserManagerContext.Consumer>
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)}
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</WhiteLabellingContext.Consumer>
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{/* TOOLBAR */}
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<ConnectedToolbarRow
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isLeftSidePanelOpen={this.state.isLeftSidePanelOpen}
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isRightSidePanelOpen={this.state.isRightSidePanelOpen}
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selectedLeftSidePanel={
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this.state.isLeftSidePanelOpen
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? this.state.selectedLeftSidePanel
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: ''
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}
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selectedRightSidePanel={
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this.state.isRightSidePanelOpen
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? this.state.selectedRightSidePanel
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: ''
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}
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handleSidePanelChange={(side, selectedPanel) => {
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const sideClicked = side && side[0].toUpperCase() + side.slice(1);
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const openKey = `is${sideClicked}SidePanelOpen`;
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const selectedKey = `selected${sideClicked}SidePanel`;
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const updatedState = Object.assign({}, this.state);
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const isOpen = updatedState[openKey];
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const prevSelectedPanel = updatedState[selectedKey];
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// RoundedButtonGroup returns `null` if selected button is clicked
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const isSameSelectedPanel =
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prevSelectedPanel === selectedPanel || selectedPanel === null;
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updatedState[selectedKey] = selectedPanel || prevSelectedPanel;
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const isClosedOrShouldClose = !isOpen || isSameSelectedPanel;
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if (isClosedOrShouldClose) {
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updatedState[openKey] = !updatedState[openKey];
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}
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this.setState(updatedState);
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}}
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/>
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{/*<ConnectedStudyLoadingMonitor studies={this.props.studies} />*/}
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{/*<StudyPrefetcher studies={this.props.studies} />*/}
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{/* VIEWPORTS + SIDEPANELS */}
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<div className="FlexboxLayout">
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{/* LEFT */}
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<SidePanel from="left" isOpen={this.state.isLeftSidePanelOpen}>
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{VisiblePanelLeft ? (
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<VisiblePanelLeft
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viewports={this.props.viewports}
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activeIndex={this.props.activeViewportIndex}
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/>
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) : (
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<ConnectedStudyBrowser studies={this.state.thumbnails} />
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)}
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</SidePanel>
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{/* MAIN */}
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<div className={classNames('main-content')}>
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<ConnectedViewerMain studies={this.props.studies} />
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</div>
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{/* RIGHT */}
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<SidePanel from="right" isOpen={this.state.isRightSidePanelOpen}>
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{VisiblePanelRight && (
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<VisiblePanelRight
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viewports={this.props.viewports}
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activeIndex={this.props.activeViewportIndex}
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/>
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)}
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</SidePanel>
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</div>
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<ConnectedLabellingOverlay />
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</>
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);
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}
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}
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export default Viewer;
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/**
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* What types are these? Why do we have "mapping" dropped in here instead of in
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* a mapping layer?
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*
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* TODO[react]:
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* - Add sorting of display sets
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* - Add showStackLoadingProgressBar option
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*
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* @param {Study[]} studies
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* @param {DisplaySet[]} studies[].displaySets
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*/
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const _mapStudiesToThumbnails = function(studies) {
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return studies.map(study => {
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const { studyInstanceUid } = study;
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const thumbnails = study.displaySets.map(displaySet => {
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const {
|
||||
displaySetInstanceUid,
|
||||
seriesDescription,
|
||||
seriesNumber,
|
||||
instanceNumber,
|
||||
numImageFrames,
|
||||
} = displaySet;
|
||||
|
||||
let imageId;
|
||||
let altImageText;
|
||||
|
||||
if (displaySet.modality && displaySet.modality === 'SEG') {
|
||||
// TODO: We want to replace this with a thumbnail showing
|
||||
// the segmentation map on the image, but this is easier
|
||||
// and better than what we have right now.
|
||||
altImageText = 'SEG';
|
||||
} else if (displaySet.images && displaySet.images.length) {
|
||||
const imageIndex = Math.floor(displaySet.images.length / 2);
|
||||
|
||||
imageId = displaySet.images[imageIndex].getImageId();
|
||||
} else {
|
||||
altImageText = displaySet.modality ? displaySet.modality : 'UN';
|
||||
}
|
||||
|
||||
return {
|
||||
imageId,
|
||||
altImageText,
|
||||
displaySetInstanceUid,
|
||||
seriesDescription,
|
||||
seriesNumber,
|
||||
instanceNumber,
|
||||
numImageFrames,
|
||||
};
|
||||
});
|
||||
|
||||
return {
|
||||
studyInstanceUid,
|
||||
thumbnails,
|
||||
};
|
||||
});
|
||||
};
|
||||
Reference in new issue
Block a user