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
This commit is contained in:
Danny Brown authored and GitHub committed 2019-08-13 15:36:46 -04:00
1 parent cac911f08e
commit 08ff214ea6
919 files changed
+45652 -52097

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@@ -0,0 +1,26 @@
import { connect } from 'react-redux';
import DicomFileUploaderModal from './DicomFileUploaderModal.js';
import OHIF from '@ohif/core';
const isActive = a => a.active === true;
const mapStateToProps = state => {
const activeServer = state.servers.servers.find(isActive);
// TODO: Not sure I like this approach since it means we are recreating
// this function every time redux changes
const retrieveAuthHeaderFunction = () =>
OHIF.DICOMWeb.getAuthorizationHeader(activeServer);
return {
retrieveAuthHeaderFunction,
url: activeServer && activeServer.qidoRoot,
};
};
const ConnectedDicomFileUploader = connect(
mapStateToProps,
null
)(DicomFileUploaderModal);
export default ConnectedDicomFileUploader;
@@ -0,0 +1,32 @@
import { connect } from 'react-redux';
import DicomStorePickerModal from './DicomStorePickerModal.js';
const isActive = a => a.active === true;
const mapStateToProps = state => {
const activeServer = state.servers.servers.find(isActive);
return {
user: state.oidc && state.oidc.user,
url: activeServer && activeServer.qidoRoot,
};
};
const mapDispatchToProps = dispatch => {
return {
setServers: servers => {
const action = {
type: 'SET_SERVERS',
servers,
};
dispatch(action);
},
};
};
const ConnectedDicomStorePicker = connect(
mapStateToProps,
mapDispatchToProps
)(DicomStorePickerModal);
export default ConnectedDicomStorePicker;
@@ -0,0 +1,55 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import api from './api/GoogleCloudApi';
import DatasetsList from './DatasetsList';
import './googleCloud.css';
export default class DatasetPicker extends Component {
state = {
error: null,
loading: true,
datasets: [],
};
static propTypes = {
project: PropTypes.object,
location: PropTypes.object,
onSelect: PropTypes.func,
accessToken: PropTypes.string,
};
async componentDidMount() {
api.setAccessToken(this.props.accessToken);
const response = await api.loadDatasets(
this.props.project.projectId,
this.props.location.locationId
);
if (response.isError) {
this.setState({
error: response.message,
});
return;
}
this.setState({
datasets: response.data.datasets || [],
loading: false,
});
}
render() {
const { datasets, loading, error } = this.state;
const { onSelect } = this.props;
return (
<DatasetsList
datasets={datasets}
loading={loading}
error={error}
onSelect={onSelect}
/>
);
}
}
@@ -0,0 +1,158 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import { withTranslation } from 'react-i18next';
import DicomStorePicker from './DicomStorePicker';
import DatasetPicker from './DatasetPicker';
import ProjectPicker from './ProjectPicker';
import LocationPicker from './LocationPicker';
import GoogleCloudApi from './api/GoogleCloudApi';
import './googleCloud.css';
class DatasetSelector extends Component {
state = {
project: null,
location: null,
dataset: null,
unloading: false,
};
static propTypes = {
id: PropTypes.string,
event: PropTypes.string,
user: PropTypes.object,
canClose: PropTypes.string,
setServers: PropTypes.func.isRequired,
};
onProjectSelect = project => {
this.setState({
project,
});
};
onLocationSelect = location => {
this.setState({
location,
});
};
onDatasetSelect = dataset => {
this.setState({
dataset,
});
};
onProjectClick = () => {
this.setState({
dataset: null,
location: null,
project: null,
});
};
onLocationClick = () => {
this.setState({
dataset: null,
location: null,
});
};
onDatasetClick = () => {
this.setState({
dataset: null,
});
};
onDicomStoreSelect = dicomStoreJson => {
const dicomStore = dicomStoreJson.name;
const parts = dicomStore.split('/');
const result = {
wadoUriRoot: GoogleCloudApi.urlBase + `/${dicomStore}/dicomWeb`,
qidoRoot: GoogleCloudApi.urlBase + `/${dicomStore}/dicomWeb`,
wadoRoot: GoogleCloudApi.urlBase + `/${dicomStore}/dicomWeb`,
project: parts[1],
location: parts[3],
dataset: parts[5],
dicomStore: parts[7],
};
this.props.setServers(result);
};
render() {
const accessToken = this.props.user.access_token;
const { project, location, dataset } = this.state;
const {
onProjectClick,
onLocationClick,
onDatasetClick,
onProjectSelect,
onLocationSelect,
onDatasetSelect,
onDicomStoreSelect,
} = this;
let projectBreadcrumbs = (
<div className="gcp-picker--path">
<span>{this.props.t('Select a Project')}</span>
</div>
);
if (project) {
projectBreadcrumbs = (
<div className="gcp-picker--path">
<span onClick={onProjectClick}>{project.name}</span>
{project && location && (
<span onClick={onLocationClick}>
{' '}
-> {location.name.split('/')[3]}
</span>
)}
{project && location && dataset && (
<span onClick={onDatasetClick}>
{' '}
-> {dataset.name.split('/')[5]}
</span>
)}
</div>
);
}
return (
<>
{projectBreadcrumbs}
{!project && (
<ProjectPicker
accessToken={accessToken}
onSelect={onProjectSelect}
/>
)}
{project && !location && (
<LocationPicker
accessToken={accessToken}
project={project}
onSelect={onLocationSelect}
/>
)}
{project && location && !dataset && (
<DatasetPicker
accessToken={accessToken}
project={project}
location={location}
onSelect={onDatasetSelect}
/>
)}
{project && location && dataset && (
<DicomStorePicker
accessToken={accessToken}
dataset={dataset}
onSelect={onDicomStoreSelect}
/>
)}
</>
);
}
}
export default withTranslation('Common')(DatasetSelector);
@@ -0,0 +1,80 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import './googleCloud.css';
import { withTranslation } from 'react-i18next';
import { Icon } from '@ohif/ui';
class DatasetsList extends Component {
state = {
search: '',
};
static propTypes = {
datasets: PropTypes.array,
loading: PropTypes.bool,
error: PropTypes.string,
onSelect: PropTypes.func,
};
static defaultProps = {
loading: true,
};
renderTableRow = dataset => {
return (
<tr
key={dataset.name}
className={
this.state.highlightedItem === dataset.name
? 'noselect active'
: 'noselect'
}
onMouseEnter={() => {
this.onHighlightItem(dataset.name);
}}
onClick={() => {
this.props.onSelect(dataset);
}}
>
<td>{dataset.name.split('/')[5]}</td>
</tr>
);
};
onHighlightItem(dataset) {
this.setState({ highlightedItem: dataset });
}
render() {
if (this.props.error) {
return <p>{this.props.error}</p>;
}
const loadingIcon = (
<Icon name="circle-notch" className="loading-icon-spin loading-icon" />
);
if (this.props.loading) {
return loadingIcon;
}
const body = (
<tbody id="DatasetList">
{this.props.datasets.map(this.renderTableRow)}
</tbody>
);
return (
<table id="tblDatasetList" className="gcp-table table noselect">
<thead>
<tr>
<th>{this.props.t('Dataset')}</th>
</tr>
</thead>
{this.props.datasets && body}
</table>
);
}
}
export default withTranslation('Common')(DatasetsList);
@@ -0,0 +1,49 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import Modal from 'react-bootstrap-modal';
import DicomUploader from './DicomUploader';
import { withTranslation } from 'react-i18next';
class DicomFileUploaderModal extends Component {
static propTypes = {
url: PropTypes.string,
retrieveAuthHeaderFunction: PropTypes.func,
onClose: PropTypes.func,
};
state = {
uploaded: false,
};
render() {
if (!this.props.url) {
return null;
}
return (
<Modal
show={this.props.isOpen}
onHide={this.props.onClose}
aria-labelledby="ModalHeader"
className="modal fade themed in"
backdrop={false}
size={'md'}
keyboard={true}
>
<Modal.Header closeButton>
<Modal.Title>
{this.props.t('Upload DICOM Files')}
</Modal.Title>
</Modal.Header>
<Modal.Body>
<DicomUploader
url={this.props.url}
retrieveAuthHeaderFunction={this.props.retrieveAuthHeaderFunction}
/>
</Modal.Body>
</Modal>
);
}
}
export default withTranslation('Common')(DicomFileUploaderModal);
@@ -0,0 +1,78 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import './googleCloud.css';
import { withTranslation } from 'react-i18next';
import { Icon } from '@ohif/ui';
class DicomStoreList extends Component {
state = {
search: '',
};
static propTypes = {
stores: PropTypes.array,
loading: PropTypes.bool.isRequired,
error: PropTypes.string,
onSelect: PropTypes.func,
};
static defaultProps = {
loading: true,
};
renderTableRow = store => {
return (
<tr
key={store.name}
className={
this.state.highlightedItem === store.name
? 'noselect active'
: 'noselect'
}
onMouseEnter={() => {
this.onHighlightItem(store.name);
}}
onClick={() => {
this.props.onSelect(store);
}}
>
<td className="project">{store.name.split('/')[7]}</td>
</tr>
);
};
onHighlightItem(store) {
this.setState({ highlightedItem: store });
}
render() {
if (this.props.error) {
return <p>{this.props.error}</p>;
}
const loadingIcon = (
<Icon name="circle-notch" className="loading-icon-spin loading-icon" />
);
if (this.props.loading) {
return loadingIcon;
}
const body = (
<tbody id="StoreList">{this.props.stores.map(this.renderTableRow)}</tbody>
);
return (
<table id="tblStoreList" className="gcp-table table noselect">
<thead>
<tr>
<th>{this.props.t('DICOM Store')}</th>
</tr>
</thead>
{this.props.stores && body}
</table>
);
}
}
export default withTranslation('Common')(DicomStoreList);
@@ -0,0 +1,53 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import api from './api/GoogleCloudApi';
import DicomStoreList from './DicomStoreList';
import './googleCloud.css';
export default class DicomStorePicker extends Component {
state = {
error: null,
loading: true,
stores: [],
locations: [],
};
static propTypes = {
dataset: PropTypes.object,
onSelect: PropTypes.func,
accessToken: PropTypes.string.isRequired
};
async componentDidMount() {
api.setAccessToken(this.props.accessToken);
const response = await api.loadDicomStores(this.props.dataset.name);
if (response.isError) {
this.setState({
error: response.message,
});
return;
}
this.setState({
stores: response.data.dicomStores || [],
loading: false,
});
}
render() {
const { stores, loading, error } = this.state;
const { onSelect } = this.props;
return (
<DicomStoreList
stores={stores}
loading={loading}
error={error}
onSelect={onSelect}
/>
);
}
}
@@ -0,0 +1,68 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import Modal from 'react-bootstrap-modal';
import DatasetSelector from './DatasetSelector';
import './googleCloud.css';
import { withTranslation } from 'react-i18next';
class DicomStorePickerModal extends Component {
static propTypes = {
url: PropTypes.string,
user: PropTypes.object.isRequired,
setServers: PropTypes.func.isRequired,
isOpen: PropTypes.bool.isRequired,
onClose: PropTypes.func,
};
static defaultProps = {
isOpen: false,
};
handleEvent = data => {
const servers = [
{
name: data.dicomStore,
imageRendering: 'wadors',
thumbnailRendering: 'wadors',
qidoSupportsIncludeField: false,
type: 'dicomWeb',
qidoRoot: data.qidoRoot,
wadoRoot: data.wadoRoot,
wadoUriRoot: data.wadoUriRoot,
active: true,
supportsFuzzyMatching: false,
},
];
this.props.setServers(servers);
};
render() {
return (
<Modal
show={this.props.isOpen}
onHide={this.props.onClose}
aria-labelledby="ModalHeader"
className="modal fade themed in"
backdrop={false}
size={'md'}
keyboard={true}
>
<Modal.Header closeButton>
<Modal.Title>
{this.props.t('Google Cloud Healthcare API')}
</Modal.Title>
</Modal.Header>
<Modal.Body>
<DatasetSelector
setServers={this.handleEvent}
user={this.props.user}
url={this.props.url}
/>
</Modal.Body>
</Modal>
);
}
}
export default withTranslation('Common')(DicomStorePickerModal);
@@ -0,0 +1,20 @@
.dicom-uploader .button {
float: left;
margin: 5px;
}
.invisible-input {
position: absolute;
display: none;
z-index: -1000;
max-width: 0 !important;
max-height: 0 !important;
}
.dicom-uploader .table-header {
color: #ffffff;
font-size: 16px;
font-weight: 28px;
text-align: left;
margin: 20px auto;
}
@@ -0,0 +1,188 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import { formatFileSize } from './utils/helpers';
import CancellationToken from './utils/CancellationToken';
import dicomUploader from './api/DicomUploadService';
import './DicomUploader.css';
export default class DicomUploader extends Component {
state = {
status: 'Upload',
isCancelled: false,
errorsCount: 0,
files: null,
uploadedVolume: null,
wholeVolumeStr: null,
isFilesListHidden: true,
timeLeft: null,
uploadedList: null,
totalCount: 0,
successfullyUploadedCount: 0,
lastFile: '',
uploadContext: null, // this is probably not needed, but we use this variable to distinguish between different downloads
};
static propTypes = {
id: PropTypes.string,
event: PropTypes.string,
url: PropTypes.string,
retrieveAuthHeaderFunction: PropTypes.func,
};
filesLeft() {
return (
this.state.uploadedList.length + ' of ' + this.state.totalCount + ' files'
);
}
volumeLeft() {
let left = formatFileSize(this.state.uploadedVolume);
return left + ' of ' + this.state.wholeVolumeStr;
}
percents() {
return parseInt(
(100 * this.state.uploadedList.length) /
Object.keys(this.state.files).length
);
}
isFinished() {
return (
this.state.isCancelled ||
Object.keys(this.state.files).length === this.state.uploadedList.length
);
}
errorsMessage() {
const errors = this.state.errorsCount === 1 ? ' error' : ' errors';
return (
this.state.errorsCount + errors + ' while uploading, click for more info'
);
}
uploadFiles = files => {
const filesArray = Array.from(files.target.files);
const filesDict = {};
filesArray.forEach((file, i) => {
const fileDesc = {
id: i,
name: file.name,
path: file.webkitRelativePath || file.name,
size: file.size,
error: null,
processed: false,
processedInUI: false,
};
filesDict[i] = fileDesc;
file.fileId = i;
});
const wholeVolume = filesArray.map(f => f.size).reduce((a, b) => a + b);
const uploadContext = Math.random();
this.setState({
status: 'Uploading...',
files: filesDict,
uploadedList: [],
uploadedVolume: 0,
lastFile: filesArray[0].name,
totalCount: filesArray.length,
wholeVolumeStr: formatFileSize(wholeVolume),
uploadContext: uploadContext,
cancellationToken: new CancellationToken(),
});
const cancellationToken = new CancellationToken();
const uploadCallback = (fileId, error) =>
uploadContext === this.state.uploadContext &&
this.uploadCallback.call(this, fileId, error);
dicomUploader.setRetrieveAuthHeaderFunction(this.props.retrieveAuthHeaderFunction);
dicomUploader.smartUpload(
files.target.files,
this.props.url,
uploadCallback,
cancellationToken
);
};
uploadCallback(fileId, error) {
const file = this.state.files[fileId];
file.processed = true;
if (!error) {
let uploadedVolume = this.state.uploadedVolume + file.size;
this.setState({ uploadedVolume });
} else {
file.error = error;
this.setState({ errorsCount: this.state.errorsCount + 1 });
}
this.setState({ lastFile: file.name });
let uploadedList = this.state.uploadedList;
uploadedList.push(file);
this.setState({ uploadedList });
}
renderTableRow = file => {
let error = null;
if (file.error !== null) {
error = <p style={{ color: 'red' }}>{file.error}</p>;
}
return (
<tr key={file.id}>
<td className="project">
{file.name} {error}
</td>
</tr>
);
};
render() {
if (this.state.files === null) {
return (
<div className="dicom-uploader">
<div className="button">
<label htmlFor="file">
<img src="./assets/Button_File.svg" alt="upload file"></img>
</label>
<input
className="invisible-input"
onChange={this.uploadFiles}
type="file"
id="file"
multiple
/>
</div>
<div className="button">
<label htmlFor="folder">
<img src="./assets/Button_Folder.svg" alt="upload folder"></img>
</label>
<input
className="invisible-input"
type="file"
onChange={this.uploadFiles}
id="folder"
webkitdirectory="true"
mozdirectory="true"
multiple
/>
</div>
</div>
);
}
return (
<table id="tblProjectList" className="table noselect">
<thead>
<tr>
<th className="table-header">
{this.percents()}% {this.filesLeft()}
</th>
</tr>
</thead>
<tbody id="ProjectList">
{this.state.uploadedList.map(this.renderTableRow)}
</tbody>
</table>
);
}
}
@@ -0,0 +1,51 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import api from './api/GoogleCloudApi';
import LocationsList from './LocationsList';
import './googleCloud.css';
export default class LocationPicker extends Component {
state = {
error: null,
loading: true,
locations: [],
};
static propTypes = {
project: PropTypes.object,
onSelect: PropTypes.func,
accessToken: PropTypes.string,
};
async componentDidMount() {
api.setAccessToken(this.props.accessToken);
const response = await api.loadLocations(this.props.project.projectId);
if (response.isError) {
this.setState({
error: response.message,
});
return;
}
this.setState({
locations: response.data.locations || [],
loading: false,
});
}
render() {
const { locations, loading, error } = this.state;
const { onSelect } = this.props;
return (
<LocationsList
locations={locations}
loading={loading}
error={error}
onSelect={onSelect}
/>
);
}
}
@@ -0,0 +1,80 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import './googleCloud.css';
import { withTranslation } from 'react-i18next';
import { Icon } from '@ohif/ui';
class LocationsList extends Component {
state = {
search: '',
};
static propTypes = {
locations: PropTypes.array,
loading: PropTypes.bool.isRequired,
error: PropTypes.string,
onSelect: PropTypes.func,
};
static defaultProps = {
loading: true,
};
renderTableRow = location => {
return (
<tr
key={location.locationId}
className={
this.state.highlightedItem === location.locationId
? 'noselect active'
: 'noselect'
}
onMouseEnter={() => {
this.onHighlightItem(location.locationId);
}}
onClick={() => {
this.props.onSelect(location);
}}
>
<td>{location.name.split('/')[3]}</td>
</tr>
);
};
onHighlightItem(locationId) {
this.setState({ highlightedItem: locationId });
}
render() {
if (this.props.error) {
return <p>{this.props.error}</p>;
}
const loadingIcon = (
<Icon name="circle-notch" className="loading-icon-spin loading-icon" />
);
if (this.props.loading) {
return loadingIcon;
}
const body = (
<tbody id="LocationList">
{this.props.locations.map(this.renderTableRow)}
</tbody>
);
return (
<table id="tblLocationList" className="gcp-table table noselect">
<thead>
<tr>
<th>{this.props.t('Location')}</th>
</tr>
</thead>
{this.props.locations && body}
</table>
);
}
}
export default withTranslation('Common')(LocationsList);
@@ -0,0 +1,49 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import api from './api/GoogleCloudApi';
import ProjectsList from './ProjectsList';
import './googleCloud.css';
export default class ProjectPicker extends Component {
state = {
error: null,
loading: true,
projects: [],
};
static propTypes = {
onSelect: PropTypes.func,
accessToken: PropTypes.string,
};
async componentDidMount() {
api.setAccessToken(this.props.accessToken);
const response = await api.loadProjects();
if (response.isError) {
this.setState({
error: response.message,
});
return;
}
this.setState({
projects: response.data.projects || [],
loading: false,
});
}
render() {
const { projects, loading, error } = this.state;
const { onSelect } = this.props;
return (
<ProjectsList
projects={projects}
loading={loading}
error={error}
onSelect={onSelect}
/>
);
}
}
@@ -0,0 +1,85 @@
import React, { Component } from 'react';
import PropTypes from 'prop-types';
import './googleCloud.css';
import { withTranslation } from 'react-i18next';
import { Icon } from '@ohif/ui';
class ProjectsList extends Component {
state = {
search: '',
highlightedItem: null,
};
static propTypes = {
projects: PropTypes.array,
loading: PropTypes.bool.isRequired,
error: PropTypes.string,
onSelect: PropTypes.func.isRequired,
t: PropTypes.func,
};
static defaultProps = {
loading: true,
};
renderTableRow = project => {
return (
<tr
key={project.projectId}
className={
this.state.highlightedItem === project.projectId
? 'noselect active'
: 'noselect'
}
onMouseEnter={() => {
this.onHighlightItem(project.projectId);
}}
onClick={() => {
this.onHighlightItem(project.projectId);
this.props.onSelect(project);
}}
>
<td>{project.name}</td>
<td>{project.projectId}</td>
</tr>
);
};
onHighlightItem(project) {
this.setState({ highlightedItem: project });
}
render() {
if (this.props.error) {
return <p>{this.props.error}</p>;
}
const loadingIcon = (
<Icon name="circle-notch" className="loading-icon-spin loading-icon" />
);
if (this.props.loading) {
return loadingIcon;
}
const body = (
<tbody id="ProjectList">
{this.props.projects.map(this.renderTableRow)}
</tbody>
);
return (
<table id="tblProjectList" className="gcp-table table noselect">
<thead>
<tr>
<th>{this.props.t('Project')}</th>
<th>{this.props.t('ID')}</th>
</tr>
</thead>
{this.props.projects && body}
</table>
);
}
}
export default withTranslation('Common')(ProjectsList);
@@ -0,0 +1,88 @@
import { httpErrorToStr, checkDicomFile } from '../utils/helpers';
import { api } from 'dicomweb-client';
class DicomUploadService {
async smartUpload(files, url, uploadCallback, cancellationToken) {
const CHUNK_SIZE = 1; // Only one file per request is supported so far
const MAX_PARALLEL_JOBS = 50; // FIXME: tune MAX_PARALLEL_JOBS number
let filesArray = Array.from(files);
if (filesArray.length === 0) {
throw new Error('No files were provided.');
}
let parallelJobsCount = Math.min(filesArray.length, MAX_PARALLEL_JOBS);
let completed = false;
const processJob = async (resolve, reject) => {
while (filesArray.length > 0) {
if (cancellationToken.get()) return;
let chunk = filesArray.slice(0, CHUNK_SIZE);
filesArray = filesArray.slice(CHUNK_SIZE);
let error = null;
try {
if (chunk.length > 1) throw new Error('Not implemented');
if (chunk.length === 1)
await this.simpleUpload(chunk[0], url);
} catch (err) {
// It looks like a stupid bug of Babel that err is not an actual Exception object
error = httpErrorToStr(err);
}
chunk.forEach(file => uploadCallback(file.fileId, error));
if (!completed && filesArray.length === 0) {
completed = true;
resolve();
return;
}
}
};
await new Promise(resolve => {
for (let i = 0; i < parallelJobsCount; i++) {
processJob(resolve);
}
});
}
async simpleUpload(file, url) {
const client = this.getClient(url);
const loadedFile = await this.readFile(file);
const content = loadedFile.content;
if (!checkDicomFile(content))
throw new Error('This is not a valid DICOM file.');
await client.storeInstances({ datasets: [content] });
}
readFile(file) {
return new Promise((resolve, reject) => {
const reader = new FileReader();
reader.onload = () => {
resolve({
name: file.name,
size: file.size,
type: file.type,
content: reader.result,
});
};
reader.onerror = error => reject(error);
reader.readAsArrayBuffer(file);
});
}
setRetrieveAuthHeaderFunction(func) {
this.retrieveAuthHeaderFunc = func;
}
getClient(url) {
const headers = this.retrieveAuthHeaderFunc();
// TODO: a bit weird we are creating a new dicomweb client instance for every upload
return new api.DICOMwebClient({
url,
headers
});
}
}
export default new DicomUploadService();
@@ -0,0 +1,94 @@
class GoogleCloudApi {
setAccessToken(accessToken) {
if (!accessToken) console.error('Access token is empty');
this.accessToken = accessToken;
}
get fetchConfig() {
if (!this.accessToken) throw new Error('OIDC access_token is not set');
return {
method: 'GET',
headers: {
Authorization: 'Bearer ' + this.accessToken,
},
};
}
get urlBase() {
return `https://healthcare.googleapis.com/v1beta1`;
}
get urlBaseProject() {
return this.urlBase + `/projects`;
}
async doRequest(urlStr, config = {}, params = {}) {
const url = new URL(urlStr);
let data = null;
url.search = new URLSearchParams(params);
try {
const response = await fetch(url, { ...this.fetchConfig, config });
try {
data = await response.json();
} catch (err) {}
if (response.status >= 200 && response.status < 300 && data != null) {
if (data.nextPageToken != null) {
params.pageToken = data.nextPageToken;
let subPage = await this.doRequest(urlStr, config, params);
for (let key in data) {
if (data.hasOwnProperty(key)) {
data[key] = data[key].concat(subPage.data[key]);
}
}
}
return {
isError: false,
status: response.status,
data,
};
} else {
return {
isError: true,
status: response.status,
message:
(data && data.error && data.error.message) || 'Unknown error',
};
}
} catch (err) {
if (data && data.error) {
return {
isError: true,
status: err.status,
message: err.response.data.error.message || 'Unspecified error',
};
}
return {
isError: true,
message: (err && err.message) || 'Oops! Something went wrong',
};
}
}
async loadProjects() {
return this.doRequest(
'https://cloudresourcemanager.googleapis.com/v1/projects'
);
}
async loadLocations(projectId) {
return this.doRequest(`${this.urlBaseProject}/${projectId}/locations`);
}
async loadDatasets(projectId, locationId) {
return this.doRequest(
`${this.urlBaseProject}/${projectId}/locations/${locationId}/datasets`
);
}
async loadDicomStores(dataset) {
return this.doRequest(`${this.urlBase}/${dataset}/dicomStores`);
}
}
export default new GoogleCloudApi();
@@ -0,0 +1,143 @@
.loading-icon-spin {
animation: spin 2s linear infinite;
}
.loading-icon {
font-size: 30px;
margin: 20px 0;
}
@keyframes spin {
100% {
transform: rotate(360deg);
}
}
.gcp-table {
width: 100%;
max-width: 100%;
margin-bottom: 20px;
border-spacing: 0;
border-collapse: collapse;
}
.gcp-table > tr {
height: 20px;
}
.gcp-table > thead {
white-space: nowrap;
}
.gcp-table > thead tr th {
padding: 0;
border-bottom: 1px solid var(--ui-border-color-active);
width: 100%;
text-align: left;
border-top: 0;
}
.gcp-table > tbody tr {
padding: 5px;
background-color: var(--ui-gray-darker);
}
.gcp-table > tbody tr:nth-child(even) {
background-color: var(--ui-gray-dark);
}
.gcp-table > tbody tr td {
padding: 8px;
height: $body-cell-height;
line-height: $body-cell-height;
color: var(--table-text-primary-color);
font-weight: 300;
border-top: 1px solid var(--ui-gray-lighter);
border-bottom: 1px solid var(--ui-gray-lighter);
white-space: nowrap;
}
.gcp-table > tbody tr td.emptyCell {
color: #516873;
}
.gcp-table > tbody tr td.emptyValue {
color: var(--ui-gray-light);
}
.gcp-table > tbody tr:hover,
.gcp-table > tbody tr:active,
.gcp-table > tbody tr.active {
background-color: var(--table-hover-color);
color: var(--text-primary-color);
}
.gcp-table > tbody tr:hover td,
.gcp-table > tbody tr:active td,
.gcp-table > tbody tr.active td {
border-top: 1px solid var(--ui-gray-lighter);
border-bottom: 1px solid var(--ui-gray-lighter);
background-color: var(--table-hover-color);
}
.gcp-files-selector {
display: flex;
justify-content: space-between;
}
.gcp-files-selector__btn-dir,
.gcp-files-selector__btn-file {
height: 80px !important;
width: 228px !important;
font-size: 14px;
border-radius: 8px;
margin: 0 !important;
}
.gcp-files-selector__btn-dir {
background-image: url('/assets/Button_Folder.svg');
}
.gcp-files-selector__btn-file {
background-image: url('/assets/Button_File.svg');
}
.gcp-window {
background-color: #000000;
}
.gcp-hidden {
display: none;
}
.gcp-picker {
box-sizing: border-box;
-webkit-font-smoothing: antialiased;
width: 650px;
height: 600px;
background-color: #161a1f;
padding: 20px 30px;
position: relative;
}
.gcp-dicom-picker__exit {
cursor: pointer;
position: absolute;
top: 30px;
right: 30px;
width: 14px !important;
height: 14px !important;
filter: opacity(0.5);
}
.gcp-dicom-picker__exit:hover {
filter: opacity(1);
}
.gcp-picker--btn {
margin: auto;
}
.gcp-picker--title {
color: #ffffff;
font-size: 24px;
text-align: center;
margin: 20px auto;
}
.gcp-picker--path {
color: #ffffff;
font-size: 16px;
font-weight: 28px;
text-align: left;
margin: 20px auto;
}
@@ -0,0 +1,13 @@
export default class CancellationToken {
constructor() {
this.cancelled = false;
}
get() {
return this.cancelled;
}
set(value) {
this.cancelled = value;
}
}
@@ -0,0 +1,35 @@
export function formatFileSize(size) {
if (size === 0) return '0 B';
const n = Math.floor(Math.log(size) / Math.log(1024));
return (
(size / Math.pow(1024, n)).toFixed(2) * 1 +
' ' +
['B', 'kB', 'MB', 'GB', 'TB'][n]
);
}
export function httpErrorToStr(error) {
if (!error) return 'Unknown error';
if (error.response) {
try {
const jsonResponse = JSON.parse(error.response);
if (
jsonResponse.error &&
jsonResponse.error.code &&
jsonResponse.error.message
)
return jsonResponse.error.code + ' - ' + jsonResponse.error.message;
} catch (err) {
return error.response;
}
}
return error.message || 'Unknown error.';
}
/* eslint-disable */
export function checkDicomFile(arrayBuffer) {
if (arrayBuffer.length <= 132) return false;
const arr = new Uint8Array(arrayBuffer.slice(128, 132));
// bytes from 128 to 132 must be "DICM"
return Array.from('DICM').every((char, i) => char.charCodeAt(0) === arr[i]);
}