-
-
- )
-
- return (
- {download.title}
-
- {downloadLinks}
-
- )
-}
-
-DownloadsRoute.propTypes = {
- match: PropTypes.object.isRequired,
- location: PropTypes.object.isRequired,
- history: PropTypes.object.isRequired,
- atlasUrl: PropTypes.string.isRequired,
- resourcesUrl: PropTypes.string,
- experimentAccession: PropTypes.string.isRequired,
- data: PropTypes.arrayOf(PropTypes.shape({
- title: PropTypes.string,
- files: PropTypes.arrayOf(PropTypes.shape({
- description: PropTypes.string,
- type: PropTypes.string,
- url: PropTypes.string
- }))
- }))
-}
-
-export default DownloadsRoute
\ No newline at end of file
diff --git a/app/src/main/javascript/bundles/experiment-page/src/ExperimentDesignRoute.js b/app/src/main/javascript/bundles/experiment-page/src/ExperimentDesignRoute.js
deleted file mode 100644
index aef1807d5..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/ExperimentDesignRoute.js
+++ /dev/null
@@ -1,44 +0,0 @@
-import React from 'react'
-import PropTypes from 'prop-types'
-import URI from 'urijs'
-
-import ExperimentDesignTable from './experiment-design/ExperimentDesignTable'
-
-const ExperimentDesignRoute = ({atlasUrl, downloadUrl, table}) =>
-
-
-
-ExperimentDesignRoute.propTypes = {
- match: PropTypes.object.isRequired,
- location: PropTypes.object.isRequired,
- history: PropTypes.object.isRequired,
- atlasUrl: PropTypes.string.isRequired,
- resourcesUrl: PropTypes.string,
- experimentAccession: PropTypes.string.isRequired,
- downloadUrl: PropTypes.string.isRequired,
- table: PropTypes.shape({
- headers: PropTypes.arrayOf(PropTypes.shape({
- name: PropTypes.string.isRequired,
- values: PropTypes.arrayOf(PropTypes.string.isRequired).isRequired
- }).isRequired).isRequired,
- data: PropTypes.arrayOf(PropTypes.shape({
- properties: PropTypes.oneOfType([
- PropTypes.shape({
- analysed: PropTypes.bool.isRequired
- }).isRequired
- ]),
- values: PropTypes.arrayOf(PropTypes.arrayOf(PropTypes.string.isRequired).isRequired).isRequired
- }).isRequired).isRequired
- }).isRequired
-}
-
-
-export default ExperimentDesignRoute
\ No newline at end of file
diff --git a/app/src/main/javascript/bundles/experiment-page/src/ExperimentPageRouter.js b/app/src/main/javascript/bundles/experiment-page/src/ExperimentPageRouter.js
deleted file mode 100644
index 02da09501..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/ExperimentPageRouter.js
+++ /dev/null
@@ -1,139 +0,0 @@
-import React from 'react'
-import PropTypes from 'prop-types'
-import { BrowserRouter, Route, Redirect, Switch, NavLink, withRouter } from 'react-router-dom'
-
-import URI from 'urijs'
-
-import TSnePlotViewRoute from './TSnePlotViewRoute'
-import ExperimentDesignRoute from './ExperimentDesignRoute'
-import SupplementaryInformationRoute from './SupplementaryInformationRoute'
-import DownloadsRoute from './DownloadsRoute'
-
-const RoutePropTypes = {
- match: PropTypes.object.isRequired,
- location: PropTypes.object.isRequired,
- history: PropTypes.object.isRequired
-}
-
-const TabCommonPropTypes = {
- atlasUrl: PropTypes.string.isRequired,
- experimentAccession: PropTypes.string.isRequired,
- species: PropTypes.string.isRequired,
- accessKey: PropTypes.string,
- resourcesUrl: PropTypes.string
-}
-
-// What component each tab type should render, coupled to ExperimentController.java
-const tabTypeComponent = {
- 'results' : TSnePlotViewRoute,
- 'experiment-design' : ExperimentDesignRoute,
- 'supplementary-information' : SupplementaryInformationRoute,
- 'downloads' : DownloadsRoute
-}
-
-const TopRibbon = ({tabs, routeProps}) =>
-
-
- Download
-
-
-
-
-
- -
- {
- tabs.map((tab) =>
-
-
-
- {tab.name} - -
- )}
-
-
-
- {
- tabs.map((tab) =>
-
-
-
-
-
-
- )
- }
- )
-
- return (
- {section.name}
- { isAnnDataTextNeeded &&{annDataText}
} -
-
- )
-}
-
-SupplementaryInformationRoute.propTypes = {
- match: PropTypes.object.isRequired,
- location: PropTypes.object.isRequired,
- history: PropTypes.object.isRequired,
- atlasUrl: PropTypes.string.isRequired,
- resourcesUrl: PropTypes.string,
- experimentAccession: PropTypes.string.isRequired,
- sections: PropTypes.arrayOf(PropTypes.shape({
- name: PropTypes.string.isRequired,
- type: PropTypes.string.isRequired,
- props: PropTypes.object.isRequired
- }))
-}
-
-export default SupplementaryInformationRoute
\ No newline at end of file
diff --git a/app/src/main/javascript/bundles/experiment-page/src/TSnePlotViewRoute.js b/app/src/main/javascript/bundles/experiment-page/src/TSnePlotViewRoute.js
deleted file mode 100644
index d2cdb405c..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/TSnePlotViewRoute.js
+++ /dev/null
@@ -1,338 +0,0 @@
-import React from 'react'
-import PropTypes from 'prop-types'
-import URI from 'urijs'
-import { BrowserRouter, Route, NavLink, Switch, Redirect, withRouter } from 'react-router-dom'
-
-import AnatomogramCellTypeHeatmapView from './results/AnatomogramCellTypeHeatmapView'
-
-import TSnePlotView from '@ebi-gene-expression-group/scxa-tsne-plot'
-import { ClustersHeatmapView } from '@ebi-gene-expression-group/scxa-marker-gene-heatmap'
-
-import BioentityInformation from '@ebi-gene-expression-group/atlas-bioentity-information'
-import { withFetchLoader } from '@ebi-gene-expression-group/atlas-react-fetch-loader'
-
-import {intersection as _intersection, first as _first, map as _map} from 'lodash'
-
-const BioentityInformationWithFetchLoader = withFetchLoader(BioentityInformation)
-
-const RedirectWithSearchAndHash = (props) =>
-
- {sections}
-
-
-
-
-
- -
-
-
-
- {routes[0].title} -
- -
-
- {routes[1].title} -
- {
- species === `homo sapiens` && Object.keys(anatomogram).length > 0 &&
- -
-
- {routes[2].title} -
- }
- {
- search.geneId &&
- -
-
- {routes[3].title} -
- }
-
-
- {routes.map((route, index) => (
-
-
-
- (
- {
- Header: headerGroup.name,
- columns:
- headerGroup.values.map((header, jx) => ({
- aggregate: curry(aggregateText, 2)(header),
- Header: header,
- id: ix*1000 +jx +1,
- accessor: r => r.values[ix][jx]
- }))
- }
- ))
- }
- className={`-striped`}
- style={{fontSize: `small`}}
- data={data} />
-
-
-ExperimentDesignTable.propTypes = {
- data: PropTypes.array.isRequired,
- headers: PropTypes.array.isRequired
-}
-
-export default ExperimentDesignTable
\ No newline at end of file
diff --git a/app/src/main/javascript/bundles/experiment-page/src/experiment-design/ReactTableStyle.js b/app/src/main/javascript/bundles/experiment-page/src/experiment-design/ReactTableStyle.js
deleted file mode 100644
index d00034f09..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/experiment-design/ReactTableStyle.js
+++ /dev/null
@@ -1,491 +0,0 @@
-import React from 'react'
-import { createGlobalStyle } from 'styled-components'
-
-// node_modules/react-table/react-table.css
-const ReactTableStyle = createGlobalStyle`
-.ReactTable {
- position: relative;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: vertical;
- -webkit-box-direction: normal;
- -ms-flex-direction: column;
- flex-direction: column;
- border: 1px solid rgba(0, 0, 0, 0.1);
-}
-
-.ReactTable * {
- box-sizing: border-box
-}
-
-.ReactTable .rt-table {
- -webkit-box-flex: 1;
- -ms-flex: auto 1;
- flex: auto 1;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: vertical;
- -webkit-box-direction: normal;
- -ms-flex-direction: column;
- flex-direction: column;
- -webkit-box-align: stretch;
- -ms-flex-align: stretch;
- align-items: stretch;
- width: 100%;
- border-collapse: collapse;
- overflow: auto
-}
-
-.ReactTable .rt-thead {
- -webkit-box-flex: 1;
- -ms-flex: 1 0 auto;
- flex: 1 0 auto;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: vertical;
- -webkit-box-direction: normal;
- -ms-flex-direction: column;
- flex-direction: column;
- -webkit-user-select: none;
- -moz-user-select: none;
- -ms-user-select: none;
- user-select: none;
-}
-
-.ReactTable .rt-thead.-headerGroups {
- background: rgba(0, 0, 0, 0.03);
- border-bottom: 1px solid rgba(0, 0, 0, 0.05)
-}
-
-.ReactTable .rt-thead.-filters {
- border-bottom: 1px solid rgba(0, 0, 0, 0.05);
-}
-
-.ReactTable .rt-thead.-filters input, .ReactTable .rt-thead.-filters select {
- border: 1px solid rgba(0, 0, 0, 0.1);
- background: #fff;
- padding: 5px 7px;
- font-size: inherit;
- border-radius: 3px;
- font-weight: normal;
- outline: none
-}
-
-.ReactTable .rt-thead.-filters .rt-th {
- border-right: 1px solid rgba(0, 0, 0, 0.02)
-}
-
-.ReactTable .rt-thead.-header {
- box-shadow: 0 2px 15px 0 rgba(0, 0, 0, 0.15)
-}
-
-.ReactTable .rt-thead .rt-tr {
- text-align: center
-}
-
-.ReactTable .rt-thead .rt-th, .ReactTable .rt-thead .rt-td {
- padding: 5px 5px;
- line-height: normal;
- position: relative;
- border-right: 1px solid rgba(0, 0, 0, 0.05);
- transition: box-shadow .3s cubic-bezier(.175, .885, .32, 1.275);
- box-shadow: inset 0 0 0 0 transparent;
-}
-
-.ReactTable .rt-thead .rt-th.-sort-asc, .ReactTable .rt-thead .rt-td.-sort-asc {
- box-shadow: inset 0 3px 0 0 rgba(0, 0, 0, 0.6)
-}
-
-.ReactTable .rt-thead .rt-th.-sort-desc, .ReactTable .rt-thead .rt-td.-sort-desc {
- box-shadow: inset 0 -3px 0 0 rgba(0, 0, 0, 0.6)
-}
-
-.ReactTable .rt-thead .rt-th.-cursor-pointer, .ReactTable .rt-thead .rt-td.-cursor-pointer {
- cursor: pointer
-}
-
-.ReactTable .rt-thead .rt-th:last-child, .ReactTable .rt-thead .rt-td:last-child {
- border-right: 0
-}
-
-.ReactTable .rt-thead .rt-resizable-header {
- overflow: visible;
-}
-
-.ReactTable .rt-thead .rt-resizable-header:last-child {
- overflow: hidden
-}
-
-.ReactTable .rt-thead .rt-resizable-header-content {
- overflow: hidden;
- text-overflow: ellipsis
-}
-
-.ReactTable .rt-thead .rt-header-pivot {
- border-right-color: #f7f7f7
-}
-
-.ReactTable .rt-thead .rt-header-pivot:after, .ReactTable .rt-thead .rt-header-pivot:before {
- left: 100%;
- top: 50%;
- border: solid transparent;
- content: " ";
- height: 0;
- width: 0;
- position: absolute;
- pointer-events: none
-}
-
-.ReactTable .rt-thead .rt-header-pivot:after {
- border-color: rgba(255, 255, 255, 0);
- border-left-color: #fff;
- border-width: 8px;
- margin-top: -8px
-}
-
-.ReactTable .rt-thead .rt-header-pivot:before {
- border-color: rgba(102, 102, 102, 0);
- border-left-color: #f7f7f7;
- border-width: 10px;
- margin-top: -10px
-}
-
-.ReactTable .rt-tbody {
- -webkit-box-flex: 99999;
- -ms-flex: 99999 1 auto;
- flex: 99999 1 auto;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: vertical;
- -webkit-box-direction: normal;
- -ms-flex-direction: column;
- flex-direction: column;
- overflow: auto;
-}
-
-.ReactTable .rt-tbody .rt-tr-group {
- border-bottom: solid 1px rgba(0, 0, 0, 0.05);
-}
-
-.ReactTable .rt-tbody .rt-tr-group:last-child {
- border-bottom: 0
-}
-
-.ReactTable .rt-tbody .rt-td {
- border-right: 1px solid rgba(0, 0, 0, 0.02);
-}
-
-.ReactTable .rt-tbody .rt-td:last-child {
- border-right: 0
-}
-
-.ReactTable .rt-tbody .rt-expandable {
- cursor: pointer;
- text-overflow: clip
-}
-
-.ReactTable .rt-tr-group {
- -webkit-box-flex: 1;
- -ms-flex: 1 0 auto;
- flex: 1 0 auto;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: vertical;
- -webkit-box-direction: normal;
- -ms-flex-direction: column;
- flex-direction: column;
- -webkit-box-align: stretch;
- -ms-flex-align: stretch;
- align-items: stretch
-}
-
-.ReactTable .rt-tr {
- -webkit-box-flex: 1;
- -ms-flex: 1 0 auto;
- flex: 1 0 auto;
- display: -webkit-inline-box;
- display: -ms-inline-flexbox;
- display: inline-flex
-}
-
-.ReactTable .rt-th, .ReactTable .rt-td {
- -webkit-box-flex: 1;
- -ms-flex: 1 0 0px;
- flex: 1 0 0;
- white-space: nowrap;
- text-overflow: ellipsis;
- padding: 7px 5px;
- overflow: hidden;
- transition: .3s ease;
- transition-property: width, min-width, padding, opacity;
-}
-
-.ReactTable .rt-th.-hidden, .ReactTable .rt-td.-hidden {
- width: 0 !important;
- min-width: 0 !important;
- padding: 0 !important;
- border: 0 !important;
- opacity: 0 !important
-}
-
-.ReactTable .rt-expander {
- display: inline-block;
- position: relative;
- margin: 0;
- color: transparent;
- margin: 0 10px;
-}
-
-.ReactTable .rt-expander:after {
- content: '';
- position: absolute;
- width: 0;
- height: 0;
- top: 50%;
- left: 50%;
- -webkit-transform: translate(-50%, -50%) rotate(-90deg);
- transform: translate(-50%, -50%) rotate(-90deg);
- border-left: 5.04px solid transparent;
- border-right: 5.04px solid transparent;
- border-top: 7px solid rgba(0, 0, 0, 0.8);
- transition: all .3s cubic-bezier(.175, .885, .32, 1.275);
- cursor: pointer
-}
-
-.ReactTable .rt-expander.-open:after {
- -webkit-transform: translate(-50%, -50%) rotate(0);
- transform: translate(-50%, -50%) rotate(0)
-}
-
-.ReactTable .rt-resizer {
- display: inline-block;
- position: absolute;
- width: 36px;
- top: 0;
- bottom: 0;
- right: -18px;
- cursor: col-resize;
- z-index: 10
-}
-
-.ReactTable .rt-tfoot {
- -webkit-box-flex: 1;
- -ms-flex: 1 0 auto;
- flex: 1 0 auto;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: vertical;
- -webkit-box-direction: normal;
- -ms-flex-direction: column;
- flex-direction: column;
- box-shadow: 0 0 15px 0 rgba(0, 0, 0, 0.15);
-}
-
-.ReactTable .rt-tfoot .rt-td {
- border-right: 1px solid rgba(0, 0, 0, 0.05);
-}
-
-.ReactTable .rt-tfoot .rt-td:last-child {
- border-right: 0
-}
-
-.ReactTable.-striped .rt-tr.-odd {
- background: rgba(0, 0, 0, 0.03)
-}
-
-.ReactTable.-highlight .rt-tbody .rt-tr:not(.-padRow):hover {
- background: rgba(0, 0, 0, 0.05)
-}
-
-.ReactTable .-pagination {
- z-index: 1;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-pack: justify;
- -ms-flex-pack: justify;
- justify-content: space-between;
- -webkit-box-align: stretch;
- -ms-flex-align: stretch;
- align-items: stretch;
- -ms-flex-wrap: wrap;
- flex-wrap: wrap;
- padding: 3px;
- box-shadow: 0 0 15px 0 rgba(0, 0, 0, 0.1);
- border-top: 2px solid rgba(0, 0, 0, 0.1);
-}
-
-.ReactTable .-pagination input, .ReactTable .-pagination select {
- border: 1px solid rgba(0, 0, 0, 0.1);
- background: #fff;
- padding: 5px 7px;
- font-size: inherit;
- border-radius: 3px;
- font-weight: normal;
- outline: none
-}
-
-.ReactTable .-pagination .-btn {
- -webkit-appearance: none;
- -moz-appearance: none;
- appearance: none;
- display: block;
- width: 100%;
- height: 100%;
- border: 0;
- border-radius: 3px;
- padding: 6px;
- font-size: 1em;
- color: rgba(0, 0, 0, 0.6);
- background: rgba(0, 0, 0, 0.1);
- transition: all .1s ease;
- cursor: pointer;
- outline: none;
-}
-
-.ReactTable .-pagination .-btn[disabled] {
- opacity: .5;
- cursor: default
-}
-
-.ReactTable .-pagination .-btn:not([disabled]):hover {
- background: rgba(0, 0, 0, 0.3);
- color: #fff
-}
-
-.ReactTable .-pagination .-previous, .ReactTable .-pagination .-next {
- -webkit-box-flex: 1;
- -ms-flex: 1;
- flex: 1;
- text-align: center
-}
-
-.ReactTable .-pagination .-center {
- -webkit-box-flex: 1.5;
- -ms-flex: 1.5;
- flex: 1.5;
- text-align: center;
- margin-bottom: 0;
- display: -webkit-box;
- display: -ms-flexbox;
- display: flex;
- -webkit-box-orient: horizontal;
- -webkit-box-direction: normal;
- -ms-flex-direction: row;
- flex-direction: row;
- -ms-flex-wrap: wrap;
- flex-wrap: wrap;
- -webkit-box-align: center;
- -ms-flex-align: center;
- align-items: center;
- -ms-flex-pack: distribute;
- justify-content: space-around
-}
-
-.ReactTable .-pagination .-pageInfo {
- display: inline-block;
- margin: 3px 10px;
- white-space: nowrap
-}
-
-.ReactTable .-pagination .-pageJump {
- display: inline-block;
-}
-
-.ReactTable .-pagination .-pageJump input {
- width: 70px;
- text-align: center;
- /* Fixes size issues in the pagination bar in Firefox and Chrome */
- display: inline-block;
- height: unset;
- margin: unset;
-}
-
-.ReactTable .-pagination .-pageSizeOptions {
- margin: 3px 10px
-}
-
-.ReactTable .rt-noData {
- display: block;
- position: absolute;
- left: 50%;
- top: 50%;
- -webkit-transform: translate(-50%, -50%);
- transform: translate(-50%, -50%);
- background: rgba(255, 255, 255, 0.8);
- transition: all .3s ease;
- z-index: 1;
- pointer-events: none;
- padding: 20px;
- color: rgba(0, 0, 0, 0.5)
-}
-
-.ReactTable .-loading {
- display: block;
- position: absolute;
- left: 0;
- right: 0;
- top: 0;
- bottom: 0;
- background: rgba(255, 255, 255, 0.8);
- transition: all .3s ease;
- z-index: -1;
- opacity: 0;
- pointer-events: none;
-}
-
-.ReactTable .-loading > div {
- position: absolute;
- display: block;
- text-align: center;
- width: 100%;
- top: 50%;
- left: 0;
- font-size: 15px;
- color: rgba(0, 0, 0, 0.6);
- -webkit-transform: translateY(-52%);
- transform: translateY(-52%);
- transition: all .3s cubic-bezier(.25, .46, .45, .94)
-}
-
-.ReactTable .-loading.-active {
- opacity: 1;
- z-index: 2;
- pointer-events: all;
-}
-
-.ReactTable .-loading.-active > div {
- -webkit-transform: translateY(50%);
- transform: translateY(50%)
-}
-
-.ReactTable .rt-resizing .rt-th, .ReactTable .rt-resizing .rt-td {
- transition: none !important;
- cursor: col-resize;
- -webkit-user-select: none;
- -moz-user-select: none;
- -ms-user-select: none;
- user-select: none
-}
-
-/* Display full text on hover */
-.ReactTable .rt-td:hover {
- overflow: visible;
- white-space: normal;
- width: auto;
-}
-
-/* Fixes for sizing issues in the pagination bar in Firefox and Chrome */
-.select-wrap select {
- height: unset;
- margin: unset;
-}
-`
-
-export default ReactTableStyle
diff --git a/app/src/main/javascript/bundles/experiment-page/src/results/AnatomogramCellTypeHeatmapView.js b/app/src/main/javascript/bundles/experiment-page/src/results/AnatomogramCellTypeHeatmapView.js
deleted file mode 100644
index f14b81727..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/results/AnatomogramCellTypeHeatmapView.js
+++ /dev/null
@@ -1,124 +0,0 @@
-import React from 'react'
-import PropTypes from 'prop-types'
-import URI from 'urijs'
-
-import Anatomogram from '@ebi-gene-expression-group/organ-anatomogram'
-import HeatmapView from '@ebi-gene-expression-group/scxa-marker-gene-heatmap'
-import ontologyIds from './ontologyIds.json'
-
-const ontologyAccessionToOntologyUri = (accession) => {
- return accession.startsWith(`EFO`) ?
- `http://www.ebi.ac.uk/efo/${accession}` :
- `http://purl.obolibrary.org/obo/${accession}`
-}
-
-class AnatomogramCellTypeHeatmapView extends React.Component {
- constructor(props) {
- super(props)
- this.state = {
- selectedSpecies: props.organ,
- showIds: props.showIds,
- highlightIds: [],
- selectIds: [],
- selectAllIds: [],
- resource:
- URI(`json/experiments/${props.experimentAccession}/marker-genes/cell-types`, props.host)
- .search({organismPart: ontologyAccessionToOntologyUri(ontologyIds[props.organ][props.organ][0])})
- .toString()
- }
-
- this._addRemoveFromSelectIds = this._addRemoveFromSelectIds.bind(this)
- this._showLinkBoxIds = this._showLinkBoxIds.bind(this)
- this._handleSelectOnChange = this._handleSelectOnChange.bind(this)
- this._afterSwitchView = this._afterSwitchView.bind(this)
- }
-
- _handleSelectOnChange(event) {
- this.setState({
- selectedSpecies: event.target.value
- })
- }
-
- _addRemoveFromSelectIds(ids) {
- if (ids.length === 0 || ids[0].startsWith(`link`)) {
- this.setState({
- selectIds: ids
- })
- } else {
- this.setState({
- selectIds: ids,
- resource:
- URI(`json/experiments/${this.props.experimentAccession}/marker-genes/cell-types`, this.props.host)
- .search({organismPart: ids.map(ontologyAccessionToOntologyUri).join(`,`)})
- .toString()
- })
- }
- }
-
- _afterSwitchView(species, view) {
- let requestOntologyIds = []
-
- if (ontologyIds[species] && ontologyIds[species][view]) {
- requestOntologyIds = ontologyIds[species][view]
- }
-
- this.setState({
- resource:
- URI(`json/experiments/${this.props.experimentAccession}/marker-genes/cell-types`, this.props.host)
- .search({ organismPart: requestOntologyIds.map(ontologyAccessionToOntologyUri).join(`,`) })
- .toString()
- })
- }
-
- _showLinkBoxIds(id) {
- this.setState({
- showIds: [...new Set(id.concat(this.state.showIds))]
- })
- }
-
- render() {
- const {host} = this.props
-
- const heatmapArgs = {
- host: host,
- resource: this.state.resource,
- species: `Homo sapiens`,
- hasDynamicHeight: true,
- heatmapRowHeight: 20,
- wrapperClassName: `row expanded`,
- heatmapType: 'celltypes'
- }
-
- return (
-
-
- )
- }
-}
-
-AnatomogramCellTypeHeatmapView.propTypes = {
- host: PropTypes.string,
- resource: PropTypes.string,
- experimentAccession: PropTypes.string.isRequired,
- showIds: PropTypes.array.isRequired,
- species: PropTypes.string.isRequired,
- organ: PropTypes.string.isRequired
-}
-
-export default AnatomogramCellTypeHeatmapView
diff --git a/app/src/main/javascript/bundles/experiment-page/src/results/ontologyIds.json b/app/src/main/javascript/bundles/experiment-page/src/results/ontologyIds.json
deleted file mode 100644
index ba45bf241..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/results/ontologyIds.json
+++ /dev/null
@@ -1,78 +0,0 @@
-{
- "kidney": {
- "kidney": ["UBERON_0002113"],
- "nephron": ["UBERON_0001285"],
- "glomerulus": ["UBERON_0000074"],
- "duct": ["UBERON_0001232"]
- },
- "liver": {
- "liver": ["UBERON_0002107"],
- "lobule": [
- "CL_0000182", "CL_0000632", "UBERON_0001282", "CL_1000488", "UBERON_0001193", "UBERON_0006841",
- "UBERON_0001639", "EFO_0010704", "UBERON_0001281", "CL_1000398", "EFO_0010705", "EFO_0010706", "CL_0000091"
- ]
- },
- "lung": {
- "lung": ["UBERON_0002048"],
- "airway": [
- "CL_0002633", "CL_1001567", "CL_1000271", "CL_0000158", "EFO_0010666", "CL_0002370", "UBERON_0003504",
- "CL_0002598"
- ],
- "alveoli_fin": ["UBERON_0002299", "UBERON_0002188", "UBERON_0016405"],
- "alveoli_section": [
- "CL_0002062", "CL_0002063", "UBERON_0003456", "EFO_0010667", "EFO_0010668", "EFO_0010669"
- ]
- },
- "pancreas": {
- "pancreas": ["UBERON_0001264"],
- "acinus": [
- "CL_0000173", "CL_0000171", "CL_0000169", "CL_0002275", "CL_0005019", "CL_0002410", "CL_0000622"
- ]
- },
- "placenta": {
- "placenta": ["UBERON_0001987"],
- "cells": [
- "CL_2000002", "EFO_0010710", "CL_3000001", "UBERON_0000371", "UBERON_0000319", "UBERON_0000426",
- "EFO_0010712", "EFO_0010711", "CL_0002601", "EFO_0010708"
- ]
- },
- "gut": {
- "gut": ["UBERON_0004920"],
- "colon": [
- "UBERON_8410051", "UBERON_8410015", "UBERON_8410048", "UBERON_8410057",
- "UBERON_0007178", "UBERON_8410000", "UBERON_8410061", "UBERON_8410058", "UBERON_8410059",
- "CL_0009043", "CL_0009042", "CL_0009041", "CL_1000347", "CL_0009039", "CL_0009011",
- "CL_0009009", "CL_0009025", "CL_0009038", "CL_0009040", "UBERON_8410060"
- ],
- "intestine": [
- "CL_1000275", "CL_1000334", "UBERON_8410002", "UBERON_0018410", "UBERON_8410004",
- "UBERON_8410001", "UBERON_8410063", "UBERON_8410064", "UBERON_0001210", "UBERON_0012401",
- "UBERON_0012402", "CL_0009012", "CL_1000495", "CL_1000343", "CL_1000353", "CL_0009080",
- "CL_0009017", "CL_0009006", "CL_0009024", "CL_0009022", "CL_1000411", "CL_0009015", "CL_0009007", "UBERON_8410068"
- ]
- },
- "ovary": {
- "ovary": ["UBERON_0000992"],
- "ovariole": [
- "FBbt_00048555", "FBbt_00048554", "FBbt_00048556", "FBbt_00004906", "FBbt_00004905",
- "FBbt_00000046", "FBbt_00000043", "FBbt_00000045", "FBbt_00000047", "FBbt_00004878",
- "FBbt_00007031", "FBbt_00004866", "FBbt_00004886", "FBbt_00005406", "FBbt_00004903"
- ],
- "germarium": [
- "FBbt_00048532", "FBbt_00004886", "FBbt_00048534", "FBbt_00048531", "FBbt_00004877",
- "FBbt_00004903", "FBbt_00048537", "FBbt_00047835", "FBbt_00048536", "FBbt_00048535",
- "FBbt_00004873", "FBbt_00004868", "FBbt_00047029", "FBbt_00004904", "FBbt_00048288",
- "FBbt_00048533"
- ]
- },
- "reproduction": {
- "reproduction": ["UBERON_0000473"],
- "testis": [
- "FBbt_00057009", "FBbt_00057010", "FBbt_00004942", "FBbt_00004941", "FBbt_00059174",
- "FBbt_00059175", "FBbt_00005286", "FBbt_00004929", "FBbt_00004933", "FBbt_00059172",
- "FBbt_00004935", "FBbt_00004931", "FBbt_00004934", "FBbt_00004930", "FBbt_00004928",
- "FBbt_00005287", "FBbt_00004938", "FBbt_00007138", "FBbt_00004931", "FBbt_00007141",
- "FBbt_00005259", "FBbt_00004954"
- ]
- }
-}
diff --git a/app/src/main/javascript/bundles/experiment-page/src/supplementary-information/AnalysisMethodsTable.js b/app/src/main/javascript/bundles/experiment-page/src/supplementary-information/AnalysisMethodsTable.js
deleted file mode 100644
index 8cdb21a4d..000000000
--- a/app/src/main/javascript/bundles/experiment-page/src/supplementary-information/AnalysisMethodsTable.js
+++ /dev/null
@@ -1,32 +0,0 @@
-import React from 'react'
-import PropTypes from 'prop-types'
-
-import Linkify from 'linkifyjs/react'
-
-const AnalysisMethodsTable = ({data}) =>
-
-
-
-
-
- | {element} | )} -
|---|
|
- |
- )}
-
-
- )
-}
-
-
-class ResourcesTab extends Component {
- render() {
- const {resourcesFetch, atlasUrl} = this.props
-
- if (resourcesFetch.pending) {
- return (
- -
- {
- subsections.filter(el=>el).length < 2
- ? values.map((value, ix, self) => (
-
-
-
-
-
- -- {value.description} -
- ))
- : subsections.map((subsectionName, ix) => (
- -
-
-
- {
- subsectionName}
-
- {
- values.filter((value) => (
- subsectionName === value.group
- ))
- .map((value, jx, self) => (
-
-
-
- -- -
-
-- {value.description} -
- ))
- }
-
- ))
- }
- -
-
-
- 
-
- )
- } else if (resourcesFetch.rejected) {
- return (
-
-
-
- )
- } else if (resourcesFetch.fulfilled) {
- return (
- Error: {resourcesFetch.reason}
-
-
-
- )
-
- return (
-
- {links}
-
- )
-}
-
-const Icon = ({type}) => {
- const iconSrcMap = {
- 'icon-ae': iconAe,
- 'icon-gsea-reactome': iconGseaReactome,
- 'icon-gsea-interpro': iconGseaInterpro,
- 'icon-gsea-go': iconGseaGo,
- 'icon-ma': iconMa,
- 'icon-experiment-design': iconExperimentDesign,
- 'icon-tsv': iconTsv,
- 'icon-Rdata': iconRData
- }
-
- return (
-