@openneuro/app 4.4.10 → 4.6.0-alpha.0

package/src/scripts/refactor_2021/dataset/dataset-routes.jsx

@@ -1,163 +0,0 @@
-import React, { useEffect } from 'react'
-import PropTypes from 'prop-types'
-import { Route, Switch } from 'react-router-dom'
-import AdminDataset from './routes/admin-datalad.jsx'
-import AdminExports from './routes/admin-exports.jsx'
-
-import SnapshotContainer from './snapshot-container'
-import DraftContainer from './draft-container'
-import DownloadDataset from './routes/download-dataset'
-import Publish from './routes/publish.jsx'
-import Share from './routes/manage-permissions.jsx'
-import Snapshot from './routes/snapshot.jsx'
-import AddMetadata from './routes/add-metadata.jsx'
-import DeletePage from './routes/delete-page'
-import { DeprecateSnapshotPage } from './routes/deprecate-snapshot-page'
-import { FileDisplay } from './files'
-
-//TODO imports
-
-const stubComponent = () => null
-
-const DatasetRoutes = ({ dataset, error }) => {
-  useEffect(() => {
-    if (error) {
-      throw error
-    }
-  }, [dataset, error])
-
-  return (
-    <Switch>
-      <Route
-        exact
-        path="/datasets/:datasetId"
-        render={() => <DraftContainer dataset={dataset} />}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/download"
-        component={() => (
-          <DownloadDataset
-            worker={dataset.worker}
-            datasetPermissions={dataset.permissions}
-          />
-        )}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/admin-datalad"
-        component={() => <AdminDataset dataset={dataset} />}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/admin-exports"
-        component={() => <AdminExports dataset={dataset} />}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/publish"
-        component={() => (
-          <Publish datasetId={dataset.id} metadata={dataset.metadata} />
-        )}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/snapshot"
-        component={() => (
-          <Snapshot
-            datasetId={dataset.id}
-            snapshots={dataset.snapshots}
-            issues={dataset.draft.issues}
-            description={dataset.draft.description}
-          />
-        )}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/share"
-        component={() => (
-          <Share
-            datasetId={dataset.id}
-            permissions={dataset.permissions}
-            reviewers={dataset.reviewers}
-          />
-        )}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/file-edit"
-        component={stubComponent}
-      />
-      <Route
-        path="/datasets/:datasetId/file-display/:filePath"
-        render={({
-          match: {
-            params: { datasetId, filePath },
-          },
-        }) => {
-          return <FileDisplay datasetId={datasetId} filePath={filePath} />
-        }}
-      />
-      {/* Snapshot routes */}
-      <Route
-        exact
-        path="/datasets/:datasetId/versions/:tag"
-        render={({
-          match: {
-            params: { tag },
-          },
-        }) => {
-          return <SnapshotContainer dataset={dataset} tag={tag} />
-        }}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/versions/:snapshotId/download"
-        component={() => (
-          <DownloadDataset
-            worker={dataset.worker}
-            datasetPermissions={dataset.permissions}
-          />
-        )}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/versions/:snapshotTag/deprecate"
-        component={() => <DeprecateSnapshotPage />}
-      />
-      <Route
-        path="/datasets/:datasetId/versions/:snapshotTag/file-display/:filePath"
-        render={({
-          match: {
-            params: { datasetId, filePath, snapshotTag },
-          },
-        }) => {
-          return (
-            <FileDisplay
-              datasetId={datasetId}
-              snapshotTag={snapshotTag}
-              filePath={filePath}
-            />
-          )
-        }}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/metadata"
-        component={() => <AddMetadata dataset={dataset} />}
-      />
-      <Route
-        exact
-        path="/datasets/:datasetId/delete"
-        component={() => <DeletePage dataset={dataset} />}
-      />
-    </Switch>
-  )
-}
-
-DatasetRoutes.propTypes = {
-  dataset: PropTypes.object,
-  error: PropTypes.object,
-}
-
-export default DatasetRoutes

package/src/scripts/refactor_2021/dataset/draft-container.tsx

@@ -1,435 +0,0 @@
-import React from 'react'
-import Markdown from 'markdown-to-jsx'
-import { useLocation, Redirect } from 'react-router-dom'
-import pluralize from 'pluralize'
-import formatDistanceToNow from 'date-fns/formatDistanceToNow'
-import parseISO from 'date-fns/parseISO'
-
-import Validation from '../validation/validation.jsx'
-import Files from './files'
-import { config } from '../../config'
-import {
-  getUnexpiredProfile,
-  hasEditPermissions,
-  hasDatasetAdminPermissions,
-} from '../authentication/profile'
-import { useCookies } from 'react-cookie'
-import Comments from './comments/comments.jsx'
-import { DatasetAlertDraft } from './fragments/dataset-alert-draft'
-import {
-  MetaDataBlock,
-  ModalitiesMetaDataBlock,
-  BrainLifeButton,
-  ValidationBlock,
-  CloneDropdown,
-  DatasetHeader,
-  DatasetHeaderMeta,
-  DatasetPage,
-  DatasetGitAccess,
-  VersionList,
-  DatasetTools,
-} from '@openneuro/components/dataset'
-import { ReadMore } from '@openneuro/components/read-more'
-
-import { FollowDataset } from './mutations/follow'
-import { StarDataset } from './mutations/star'
-
-import EditDescriptionField from './fragments/edit-description-field.jsx'
-import EditDescriptionList from './fragments/edit-description-list.jsx'
-import { DOILink } from './fragments/doi-link'
-
-export interface DraftContainerProps {
-  dataset
-  tag?: string
-}
-
-const formatDate = dateObject =>
-  new Date(dateObject).toISOString().split('T')[0]
-
-// Helper function for getting version from URL
-const snapshotVersion = location => {
-  const matches = location.pathname.match(/versions\/(.*?)(\/|$)/)
-  return matches && matches[1]
-}
-const DraftContainer: React.FC<DraftContainerProps> = ({ dataset }) => {
-  const location = useLocation()
-  const activeDataset = snapshotVersion(location) || 'draft'
-
-  const [selectedVersion, setSelectedVersion] = React.useState(activeDataset)
-
-  const summary = dataset.draft.summary
-  const description = dataset.draft.description
-  const datasetId = dataset.id
-
-  const numSessions =
-    summary && summary.sessions.length > 0 ? summary.sessions.length : 1
-
-  const dateAdded = formatDate(dataset.created)
-  const dateAddedDifference = formatDistanceToNow(parseISO(dataset.created))
-  const dateModified = formatDate(dataset.draft.modified)
-  const dateUpdatedDifference = formatDistanceToNow(
-    parseISO(dataset.draft.modified),
-  )
-  const isSnapshot = activeDataset !== 'draft'
-
-  const [cookies] = useCookies()
-  const profile = getUnexpiredProfile(cookies)
-  const isAdmin = profile?.admin
-  const hasEdit =
-    hasEditPermissions(dataset.permissions, profile?.sub) || isAdmin
-  const hasDraftChanges =
-    dataset.snapshots.length === 0 ||
-    dataset.draft.head !==
-      dataset.snapshots[dataset.snapshots.length - 1].hexsha
-  const isDatasetAdmin =
-    hasDatasetAdminPermissions(dataset.permissions, profile?.sub) || isAdmin
-
-  return (
-    <>
-      {dataset.snapshots && !hasEdit && (
-        <Redirect
-          to={`/datasets/${dataset.id}/versions/${
-            dataset.snapshots.length &&
-            dataset.snapshots[dataset.snapshots.length - 1].tag
-          }`}
-        />
-      )}
-      <DatasetPage
-        modality={summary?.modalities[0] || ''}
-        renderHeader={() => (
-          <>
-            <DatasetHeader
-              pageHeading={description.Name}
-              modality={summary?.modalities[0] || null}
-              renderEditor={() => (
-                <EditDescriptionField
-                  datasetId={datasetId}
-                  field="Name"
-                  rows={2}
-                  description={description.Name}
-                  editMode={hasEdit}>
-                  {description.Name}
-                </EditDescriptionField>
-              )}
-            />
-          </>
-        )}
-        renderAlert={() => (
-          <>
-            {hasEdit && (
-              <DatasetAlertDraft
-                isPrivate={!dataset.public}
-                datasetId={dataset.id}
-                hasDraftChanges={hasDraftChanges}
-                hasSnapshot={dataset.snapshots.length !== 0}
-              />
-            )}
-          </>
-        )}
-        renderHeaderMeta={() => (
-          <>
-            {summary && (
-              <DatasetHeaderMeta
-                size={summary.size}
-                totalFiles={summary.totalFiles}
-                datasetId={datasetId}
-              />
-            )}
-          </>
-        )}
-        renderFollowBookmark={() => (
-          <>
-            <FollowDataset
-              profile={profile}
-              datasetId={dataset.id}
-              following={dataset.following}
-              followers={dataset.followers.length}
-            />
-            <StarDataset
-              profile={profile}
-              datasetId={dataset.id}
-              starred={dataset.starred}
-              stars={dataset.stars.length}
-            />
-          </>
-        )}
-        renderBrainLifeButton={() => (
-          <BrainLifeButton
-            datasetId={datasetId}
-            onBrainlife={dataset.onBrainlife}
-          />
-        )}
-        renderValidationBlock={() => (
-          <ValidationBlock>
-            <Validation datasetId={dataset.id} issues={dataset.draft.issues} />
-          </ValidationBlock>
-        )}
-        renderCloneDropdown={() => (
-          <CloneDropdown
-            gitAccess={
-              <DatasetGitAccess
-                hasEdit={hasEdit}
-                configGithub={config.github}
-                configUrl={config.url}
-                worker={dataset.worker}
-                datasetId={datasetId}
-                gitHash={dataset.draft.head}
-              />
-            }
-          />
-        )}
-        renderToolButtons={() => (
-          <DatasetTools
-            hasEdit={hasEdit}
-            isPublic={dataset.public}
-            datasetId={datasetId}
-            isAdmin={isAdmin}
-            hasSnapshot={dataset.snapshots.length !== 0}
-            isDatasetAdmin={isDatasetAdmin}
-          />
-        )}
-        renderFiles={() => (
-          <ReadMore
-            fileTree={true}
-            id="collapse-tree"
-            expandLabel="Expand File Tree"
-            collapseLabel="Collapse File Tree">
-            <Files
-              datasetId={datasetId}
-              snapshotTag={null}
-              datasetName={dataset.draft.description.Name}
-              files={dataset.draft.files}
-              editMode={hasEdit}
-              datasetPermissions={dataset.permissions}
-            />
-          </ReadMore>
-        )}
-        renderReadMe={() => (
-          <MetaDataBlock
-            heading="README"
-            className="dataset-readme markdown-body"
-            item={dataset.draft.readme}
-            renderEditor={() => (
-              <EditDescriptionField
-                datasetId={datasetId}
-                field="readme"
-                rows={12}
-                description={dataset.draft.readme}
-                editMode={hasEdit}>
-                <ReadMore
-                  id="readme"
-                  expandLabel="Read More"
-                  collapseLabel="Collapse">
-                  <Markdown>{dataset.draft.readme || 'N/A'}</Markdown>
-                </ReadMore>
-              </EditDescriptionField>
-            )}
-          />
-        )}
-        renderSidebar={() => (
-          <>
-            <EditDescriptionList
-              className="dmb-inline-list"
-              datasetId={datasetId}
-              field="Authors"
-              heading="Authors"
-              description={description.Authors}
-              editMode={hasEdit}>
-              {description?.Authors?.length ? description.Authors : ['N/A']}
-            </EditDescriptionList>
-
-            {summary && (
-              <ModalitiesMetaDataBlock
-                items={summary.modalities}
-                className="dmb-modalities"
-              />
-            )}
-
-            <MetaDataBlock
-              heading={dataset.snapshots.length ? 'Versions' : 'Version'}
-              item={
-                <div className="version-block">
-                  <VersionList
-                    datasetId={datasetId}
-                    hasEdit={hasEdit}
-                    items={dataset.snapshots}
-                    className="version-dropdown"
-                    activeDataset={activeDataset}
-                    dateModified={dateModified}
-                    selected={selectedVersion}
-                    setSelected={setSelectedVersion}
-                  />
-                </div>
-              }
-            />
-            {summary && (
-              <MetaDataBlock
-                heading="Tasks"
-                item={summary.tasks.length ? summary.tasks.join(', ') : 'N/A'}
-                className="dmb-inline-list"
-              />
-            )}
-            {summary?.modalities.includes('pet') ||
-              summary?.modalities.includes('Pet') ||
-              (summary?.modalities.includes('PET') && (
-                <>
-                  <MetaDataBlock
-                    heading={pluralize('Target', summary.pet?.BodyPart)}
-                    item={summary.pet?.BodyPart}
-                  />
-                  <MetaDataBlock
-                    heading={pluralize(
-                      'Scanner Manufacturer',
-                      summary.pet?.ScannerManufacturer,
-                    )}
-                    item={
-                      summary.pet?.ScannerManufacturer
-                        ? summary.pet?.ScannerManufacturer
-                        : 'N/A'
-                    }
-                  />
-
-                  <MetaDataBlock
-                    heading={pluralize(
-                      'Scanner Model',
-                      summary.pet?.ScannerManufacturersModelName,
-                    )}
-                    item={
-                      summary.pet?.ScannerManufacturersModelName
-                        ? summary.pet?.ScannerManufacturersModelName
-                        : 'N/A'
-                    }
-                  />
-                  <MetaDataBlock
-                    heading={pluralize(
-                      'Radionuclide',
-                      summary.pet?.TracerRadionuclide,
-                    )}
-                    item={
-                      summary.pet?.TracerRadionuclide
-                        ? summary.pet?.TracerRadionuclide
-                        : 'N/A'
-                    }
-                  />
-                  <MetaDataBlock
-                    heading={pluralize('Radiotracer', summary.pet?.TracerName)}
-                    item={
-                      summary.pet?.TracerName ? summary.pet?.TracerName : 'N/A'
-                    }
-                  />
-                </>
-              ))}
-
-            <MetaDataBlock
-              heading="Uploaded by"
-              item={
-                <>
-                  {dataset.uploader.name} on {dateAdded} - {dateAddedDifference}{' '}
-                  ago
-                </>
-              }
-            />
-
-            {dataset.snapshots?.length ? (
-              <MetaDataBlock
-                heading="Last Updated"
-                item={
-                  <>
-                    {dateModified} - {dateUpdatedDifference} ago
-                  </>
-                }
-              />
-            ) : null}
-            <MetaDataBlock heading="Sessions" item={numSessions} />
-            <>
-              {summary && (
-                <MetaDataBlock
-                  heading="Participants"
-                  item={summary.subjects.length}
-                />
-              )}
-            </>
-
-            <MetaDataBlock
-              heading="Dataset DOI"
-              item={<DOILink DOI={description.DatasetDOI} />}
-            />
-            <MetaDataBlock heading="License" item={description.License} />
-
-            <MetaDataBlock
-              heading="Acknowledgements"
-              item={description.Acknowledgements}
-              renderEditor={() => (
-                <EditDescriptionField
-                  datasetId={datasetId}
-                  field="Acknowledgements"
-                  rows={2}
-                  description={description.Acknowledgements}
-                  editMode={hasEdit}>
-                  <Markdown>{description.Acknowledgements || 'N/A'}</Markdown>
-                </EditDescriptionField>
-              )}
-            />
-
-            <MetaDataBlock
-              heading="How to Acknowledge"
-              item={description.HowToAcknowledge}
-              renderEditor={() => (
-                <EditDescriptionField
-                  datasetId={datasetId}
-                  field="HowToAcknowledge"
-                  rows={2}
-                  description={description.HowToAcknowledge}
-                  editMode={hasEdit}>
-                  <Markdown>{description.HowToAcknowledge || 'N/A'}</Markdown>
-                </EditDescriptionField>
-              )}
-            />
-
-            <EditDescriptionList
-              className="dmb-list"
-              datasetId={datasetId}
-              field="Funding"
-              heading="Funding"
-              description={description.Funding}
-              editMode={hasEdit}>
-              {description.Funding?.length ? description.Funding : ['N/A']}
-            </EditDescriptionList>
-
-            <EditDescriptionList
-              className="dmb-list"
-              datasetId={datasetId}
-              field="ReferencesAndLinks"
-              heading="References and Links"
-              description={description.ReferencesAndLinks}
-              editMode={hasEdit}>
-              {description.ReferencesAndLinks?.length
-                ? description.ReferencesAndLinks
-                : ['N/A']}
-            </EditDescriptionList>
-
-            <EditDescriptionList
-              className="dmb-list"
-              datasetId={datasetId}
-              field="EthicsApprovals"
-              heading="Ethics Approvals"
-              description={description.EthicsApprovals}
-              editMode={hasEdit}>
-              {description.EthicsApprovals?.length
-                ? description.EthicsApprovals
-                : ['N/A']}
-            </EditDescriptionList>
-          </>
-        )}
-        renderComments={() => (
-          <Comments
-            datasetId={dataset.id}
-            uploader={dataset.uploader}
-            comments={dataset.comments}
-          />
-        )}
-      />
-    </>
-  )
-}
-export default DraftContainer

package/src/scripts/refactor_2021/dataset/fragments/dataset-history.jsx

@@ -1,103 +0,0 @@
-import React from 'react'
-import PropTypes from 'prop-types'
-import styled from '@emotion/styled'
-import { gql, useQuery } from '@apollo/client'
-
-import Revalidate from '../mutations/revalidate.jsx'
-import UpdateRef from '../mutations/update-ref.jsx'
-
-const GET_HISTORY = gql`
-  query getHistory($datasetId: ID!) {
-    dataset(id: $datasetId) {
-      id
-      history {
-        id
-        authorName
-        authorEmail
-        date
-        references
-        message
-      }
-      worker
-    }
-  }
-`
-
-const DatasetHistoryTable = styled.div`
-  .row {
-    line-height: 1.2em;
-  }
-  .row:nth-of-type(2n) {
-    padding-top: 1em;
-  }
-  .row:nth-of-type(2n + 1) {
-    padding-bottom: 1em;
-  }
-  .row:nth-of-type(4n),
-  .row:nth-of-type(4n + 1) {
-    background: #f4f4f4;
-  }
-`
-
-const DatasetHistory = ({ datasetId }) => {
-  const { loading, data } = useQuery(GET_HISTORY, {
-    variables: { datasetId },
-    errorPolicy: 'all',
-  })
-  if (loading) {
-    return <div className="dataset-history">Loading...</div>
-  } else {
-    return (
-      <div className="grid dataset-history">
-        <div className="col col-12">
-          <h3>Worker Assignment</h3> {data.dataset.worker}
-        </div>
-        <div className="col col-12">
-          <h3>Git History</h3>
-          <DatasetHistoryTable>
-            <div className="grid faux-table-header">
-              <h4 className="col-lg col col-4">Commit</h4>
-              <h4 className="col-lg col col-2">Date</h4>
-              <h4 className="col-lg col col-2">Author</h4>
-              <h4 className="col-lg col col-2">References</h4>
-              <h4 className="col-lg col col-2 text--right">Action</h4>
-            </div>
-            {data.dataset.history.map(commit => (
-              <React.Fragment key={commit.id}>
-                <div className="grid faux-table">
-                  <div className="commit col-lg col col-4">
-                    <label>Commit: </label>
-                    {commit.id}
-                  </div>
-                  <div className="col-lg col col-2">
-                    <label>Date: </label>
-                    {commit.date}
-                  </div>
-                  <div className="col-lg col col-2">
-                    <label>Author: </label>
-                    {commit.authorName} &lt;{commit.authorEmail}&gt;
-                  </div>
-                  <div className="col-lg col col-2">
-                    <label>References: </label>
-                    {commit.references}
-                  </div>
-                  <div className="col-lg col col-2 grid actions">
-                    <Revalidate datasetId={datasetId} revision={commit.id} />
-                    <UpdateRef datasetId={datasetId} revision={commit.id} />
-                  </div>
-                  <div className="col-lg col col-12">{commit.message}</div>
-                </div>
-              </React.Fragment>
-            ))}
-          </DatasetHistoryTable>
-        </div>
-      </div>
-    )
-  }
-}
-
-DatasetHistory.propTypes = {
-  datasetId: PropTypes.string,
-}
-
-export default DatasetHistory