From 797a4452e20064e19a0885f9e3956c8c68d2cb4f Mon Sep 17 00:00:00 2001 From: Fran McDade Date: Fri, 8 Nov 2024 14:58:33 +1000 Subject: [PATCH] chore: upgrade findable-ui to 14.0.0 (#431) (#450) Co-authored-by: Fran McDade --- __tests__/api-refresh.test.ts | 2 +- .../api-tasks-cellxgene-in-progress.test.ts | 2 +- .../TrackerForm/components/Tabs/tabs.tsx | 2 +- .../viewComponentAtlases.tsx | 2 +- .../ViewSourceStudies/viewSourceStudies.tsx | 2 +- .../cellxgeneInProgress.tsx | 2 +- .../Forms/components/Refresh/refresh.tsx | 4 +- .../components/AlertText/alertText.styles.ts | 20 + .../components/AtlasStatus/atlasStatus.tsx | 2 +- .../DetailViewHero/detailViewHero.tsx | 2 +- .../Layout/components/Detail/detailView.tsx | 2 +- .../components/HeroButton/heroButton.tsx | 2 +- .../buttonTextPrimaryCell.styles.ts | 4 + .../groupedRowSelectionCell.tsx | 2 +- .../RowSelectionCell/rowSelectionCell.tsx | 2 +- .../common/Form/components/Select/select.tsx | 4 +- .../common/MDXContent/confidentialNotice.mdx | 19 +- .../TypographyNoWrap/typographyNoWrap.tsx | 2 +- .../typographyTextBody400.tsx | 2 +- app/components/index.ts | 5 +- app/hooks/useFormManager/useFormManager.ts | 2 +- app/services/common/refresh-service.ts | 2 +- app/services/validations.ts | 6 +- mdx-components.tsx | 4 + package-lock.json | 1122 ++++++++--------- package.json | 39 +- site-config/hca-atlas-tracker/local/config.ts | 1 - .../local/viewList/subTitleHero.ts | 22 +- testing/entities.ts | 2 +- 29 files changed, 612 insertions(+), 672 deletions(-) create mode 100644 app/components/Layout/components/Content/components/AlertText/alertText.styles.ts diff --git a/__tests__/api-refresh.test.ts b/__tests__/api-refresh.test.ts index 068ed454..e632f86e 100644 --- a/__tests__/api-refresh.test.ts +++ b/__tests__/api-refresh.test.ts @@ -3,9 +3,9 @@ import httpMocks from "node-mocks-http"; import { ProjectsResponse } from "../app/apis/azul/hca-dcp/common/responses"; import { METHOD } from "../app/common/entities"; import { - RefreshServicesStatuses, REFRESH_ACTIVITY, REFRESH_OUTCOME, + RefreshServicesStatuses, } from "../app/services/common/entities"; import { endPgPool } from "../app/services/database"; import { Handler } from "../app/utils/api-handler"; diff --git a/__tests__/api-tasks-cellxgene-in-progress.test.ts b/__tests__/api-tasks-cellxgene-in-progress.test.ts index 83248f73..16079526 100644 --- a/__tests__/api-tasks-cellxgene-in-progress.test.ts +++ b/__tests__/api-tasks-cellxgene-in-progress.test.ts @@ -3,8 +3,8 @@ import httpMocks from "node-mocks-http"; import { HCAAtlasTrackerDBValidation, ROLE, - TaskStatusesUpdatedByDOIResult, TASK_STATUS, + TaskStatusesUpdatedByDOIResult, VALIDATION_ID, } from "../app/apis/catalog/hca-atlas-tracker/common/entities"; import { METHOD } from "../app/common/entities"; diff --git a/app/components/Detail/components/TrackerForm/components/Tabs/tabs.tsx b/app/components/Detail/components/TrackerForm/components/Tabs/tabs.tsx index 12893cf9..8bc27e23 100644 --- a/app/components/Detail/components/TrackerForm/components/Tabs/tabs.tsx +++ b/app/components/Detail/components/TrackerForm/components/Tabs/tabs.tsx @@ -1,7 +1,7 @@ import { - OnTabChangeFn, Tab as DXTab, TabsProps as DXTabsProps, + OnTabChangeFn, } from "@databiosphere/findable-ui/lib/components/common/Tabs/tabs"; import { Tab as MTab } from "@mui/material"; import { Tabs as SectionTabs } from "./tabs.styles"; diff --git a/app/components/Detail/components/ViewComponentAtlases/viewComponentAtlases.tsx b/app/components/Detail/components/ViewComponentAtlases/viewComponentAtlases.tsx index 7e2da6b5..b41a69b2 100644 --- a/app/components/Detail/components/ViewComponentAtlases/viewComponentAtlases.tsx +++ b/app/components/Detail/components/ViewComponentAtlases/viewComponentAtlases.tsx @@ -7,8 +7,8 @@ import { FormManager } from "../../../../hooks/useFormManager/common/entities"; import { ROUTE } from "../../../../routes/constants"; import { getAtlasComponentAtlasesTableColumns } from "../../../../viewModelBuilders/catalog/hca-atlas-tracker/common/viewModelBuilders"; import { - ButtonLink, BUTTON_COLOR, + ButtonLink, } from "../../../common/Button/components/ButtonLink/buttonLink"; import { Paper } from "../../../Table/components/TablePaper/tablePaper.styles"; import { TablePlaceholder } from "../../../Table/components/TablePlaceholder/tablePlaceholder"; diff --git a/app/components/Detail/components/ViewSourceStudies/viewSourceStudies.tsx b/app/components/Detail/components/ViewSourceStudies/viewSourceStudies.tsx index b4fe5b9b..2301c79c 100644 --- a/app/components/Detail/components/ViewSourceStudies/viewSourceStudies.tsx +++ b/app/components/Detail/components/ViewSourceStudies/viewSourceStudies.tsx @@ -10,8 +10,8 @@ import { FormManager } from "../../../../hooks/useFormManager/common/entities"; import { ROUTE } from "../../../../routes/constants"; import { getAtlasSourceStudiesTableColumns } from "../../../../viewModelBuilders/catalog/hca-atlas-tracker/common/viewModelBuilders"; import { - ButtonLink, BUTTON_COLOR, + ButtonLink, } from "../../../common/Button/components/ButtonLink/buttonLink"; import { Paper } from "../../../Table/components/TablePaper/tablePaper.styles"; import { TablePlaceholder } from "../../../Table/components/TablePlaceholder/tablePlaceholder"; diff --git a/app/components/Forms/components/CellxGeneInProgress/cellxgeneInProgress.tsx b/app/components/Forms/components/CellxGeneInProgress/cellxgeneInProgress.tsx index 7ffe2f79..dbfa47be 100644 --- a/app/components/Forms/components/CellxGeneInProgress/cellxgeneInProgress.tsx +++ b/app/components/Forms/components/CellxGeneInProgress/cellxgeneInProgress.tsx @@ -3,8 +3,8 @@ import { useAuthentication } from "@databiosphere/findable-ui/lib/hooks/useAuthe import { TextField } from "@mui/material"; import { useCallback, useRef, useState } from "react"; import { - TaskStatusesUpdatedByDOIResult, TASK_STATUS, + TaskStatusesUpdatedByDOIResult, } from "../../../../../app/apis/catalog/hca-atlas-tracker/common/entities"; import { METHOD } from "../../../../../app/common/entities"; import { diff --git a/app/components/Forms/components/Refresh/refresh.tsx b/app/components/Forms/components/Refresh/refresh.tsx index b97cccbe..906e8a4f 100644 --- a/app/components/Forms/components/Refresh/refresh.tsx +++ b/app/components/Forms/components/Refresh/refresh.tsx @@ -5,10 +5,10 @@ import { METHOD } from "../../../../../app/common/entities"; import { fetchResource } from "../../../../../app/common/utils"; import { FormResponseErrors } from "../../../../../app/hooks/useForm/common/entities"; import { - RefreshServicesStatuses, - RefreshStatus, REFRESH_ACTIVITY, REFRESH_OUTCOME, + RefreshServicesStatuses, + RefreshStatus, } from "../../../../../app/services/common/entities"; export const RefreshForm = (): JSX.Element => { diff --git a/app/components/Layout/components/Content/components/AlertText/alertText.styles.ts b/app/components/Layout/components/Content/components/AlertText/alertText.styles.ts new file mode 100644 index 00000000..30c316ec --- /dev/null +++ b/app/components/Layout/components/Content/components/AlertText/alertText.styles.ts @@ -0,0 +1,20 @@ +import styled from "@emotion/styled"; + +export const AlertText = styled.div` + ul { + padding-left: 24px; + margin: 8px 0; + + li { + margin: 4px 0; + + &:last-child { + margin-bottom: 0; + } + } + } + + *:last-child { + margin-bottom: 0; + } +`; diff --git a/app/components/Layout/components/Detail/components/DetailViewHero/components/AtlasStatus/atlasStatus.tsx b/app/components/Layout/components/Detail/components/DetailViewHero/components/AtlasStatus/atlasStatus.tsx index 25d9c47a..0d7213e3 100644 --- a/app/components/Layout/components/Detail/components/DetailViewHero/components/AtlasStatus/atlasStatus.tsx +++ b/app/components/Layout/components/Detail/components/DetailViewHero/components/AtlasStatus/atlasStatus.tsx @@ -1,6 +1,6 @@ import { - StatusBadge, STATUS_BADGE_COLOR, + StatusBadge, } from "@databiosphere/findable-ui/lib/components/common/StatusBadge/statusBadge"; import { ATLAS_STATUS } from "../../../../../../../../apis/catalog/hca-atlas-tracker/common/entities"; diff --git a/app/components/Layout/components/Detail/components/DetailViewHero/detailViewHero.tsx b/app/components/Layout/components/Detail/components/DetailViewHero/detailViewHero.tsx index 5135c884..8a131085 100644 --- a/app/components/Layout/components/Detail/components/DetailViewHero/detailViewHero.tsx +++ b/app/components/Layout/components/Detail/components/DetailViewHero/detailViewHero.tsx @@ -4,8 +4,8 @@ import { SubTitle } from "@databiosphere/findable-ui/lib/components/Layout/compo import { ReactNode } from "react"; import { BackButton } from "./components/BackButton/backButton"; import { - DetailViewHero as DetailViewHeroLayout, DetailViewHeroHeadline, + DetailViewHero as DetailViewHeroLayout, HeroHeader, HeroTitle, Statuses, diff --git a/app/components/Layout/components/Detail/detailView.tsx b/app/components/Layout/components/Detail/detailView.tsx index e7c7725d..4f80924a 100644 --- a/app/components/Layout/components/Detail/detailView.tsx +++ b/app/components/Layout/components/Detail/detailView.tsx @@ -1,8 +1,8 @@ import { ReactNode } from "react"; import { DetailViewHero } from "./components/DetailViewHero/detailViewHero"; import { - DetailView as DetailViewLayout, DetailViewContent, + DetailView as DetailViewLayout, } from "./detailView.styles"; export interface DetailViewProps { diff --git a/app/components/Layout/components/IndexPage/components/HeroButton/heroButton.tsx b/app/components/Layout/components/IndexPage/components/HeroButton/heroButton.tsx index 58358fc6..8063229d 100644 --- a/app/components/Layout/components/IndexPage/components/HeroButton/heroButton.tsx +++ b/app/components/Layout/components/IndexPage/components/HeroButton/heroButton.tsx @@ -1,6 +1,6 @@ import { - ButtonLinkProps, BUTTON_COLOR, + ButtonLinkProps, } from "../../../../../common/Button/components/ButtonLink/buttonLink"; import { Button } from "./heroButton.styles"; diff --git a/app/components/Table/components/TableCell/components/ButtonTextPrimaryCell/buttonTextPrimaryCell.styles.ts b/app/components/Table/components/TableCell/components/ButtonTextPrimaryCell/buttonTextPrimaryCell.styles.ts index c7cf001c..64aab92f 100644 --- a/app/components/Table/components/TableCell/components/ButtonTextPrimaryCell/buttonTextPrimaryCell.styles.ts +++ b/app/components/Table/components/TableCell/components/ButtonTextPrimaryCell/buttonTextPrimaryCell.styles.ts @@ -5,4 +5,8 @@ export const ButtonTextPrimaryCell = styled(DXButtonTextPrimary)` flex: unset; font-weight: 400; text-align: left; + text-decoration: underline; + text-decoration-color: currentColor; + text-decoration-skip-ink: none; + text-underline-position: from-font; `; diff --git a/app/components/Table/components/TableCell/components/GroupedRowSelectionCell/groupedRowSelectionCell.tsx b/app/components/Table/components/TableCell/components/GroupedRowSelectionCell/groupedRowSelectionCell.tsx index e3c10778..0baa34aa 100644 --- a/app/components/Table/components/TableCell/components/GroupedRowSelectionCell/groupedRowSelectionCell.tsx +++ b/app/components/Table/components/TableCell/components/GroupedRowSelectionCell/groupedRowSelectionCell.tsx @@ -2,8 +2,8 @@ import { CheckedIcon } from "@databiosphere/findable-ui/lib/components/common/Cu import { IndeterminateIcon } from "@databiosphere/findable-ui/lib/components/common/CustomIcon/components/IndeterminateIcon/indeterminateIcon"; import { UncheckedIcon } from "@databiosphere/findable-ui/lib/components/common/CustomIcon/components/UncheckedIcon/uncheckedIcon"; import { - Checkbox as MCheckbox, FormControlLabel as DXFormControlLabel, + Checkbox as MCheckbox, } from "@mui/material"; import { Row, RowData, RowSelectionState, Table } from "@tanstack/react-table"; import { ChangeEvent, ReactNode, useCallback } from "react"; diff --git a/app/components/Table/components/TableCell/components/RowSelectionCell/rowSelectionCell.tsx b/app/components/Table/components/TableCell/components/RowSelectionCell/rowSelectionCell.tsx index a989323c..18f68c59 100644 --- a/app/components/Table/components/TableCell/components/RowSelectionCell/rowSelectionCell.tsx +++ b/app/components/Table/components/TableCell/components/RowSelectionCell/rowSelectionCell.tsx @@ -1,8 +1,8 @@ import { CheckedIcon } from "@databiosphere/findable-ui/lib/components/common/CustomIcon/components/CheckedIcon/checkedIcon"; import { UncheckedIcon } from "@databiosphere/findable-ui/lib/components/common/CustomIcon/components/UncheckedIcon/uncheckedIcon"; import { - Checkbox as MCheckbox, FormControlLabel as DXFormControlLabel, + Checkbox as MCheckbox, } from "@mui/material"; import { Row, RowData } from "@tanstack/react-table"; import { ReactNode } from "react"; diff --git a/app/components/common/Form/components/Select/select.tsx b/app/components/common/Form/components/Select/select.tsx index 0374c6bd..2bfab96b 100644 --- a/app/components/common/Form/components/Select/select.tsx +++ b/app/components/common/Form/components/Select/select.tsx @@ -4,12 +4,12 @@ import { FormControl } from "../FormControl/formControl.styles"; import { FormHelperText } from "../FormHelperText/formHelperText"; import { FormLabel } from "../FormLabel/formLabel"; -export interface SelectProps extends MSelectProps { +export type SelectProps = MSelectProps & { className?: string; helperText?: ReactNode; isFilled?: boolean; isFullWidth?: boolean; -} +}; export const Select = forwardRef(function Select( { diff --git a/app/components/common/MDXContent/confidentialNotice.mdx b/app/components/common/MDXContent/confidentialNotice.mdx index 2d43aba8..c2f23ce3 100644 --- a/app/components/common/MDXContent/confidentialNotice.mdx +++ b/app/components/common/MDXContent/confidentialNotice.mdx @@ -1,8 +1,15 @@ -Please note that this tracker contains confidential information that must not be distributed beyond the HCA Operations -and Ingest Teams and the Atlas Integration Leads. This tracker includes: + + This tracker is confidential + + Please note that this tracker contains confidential information that must not be distributed beyond the HCA + Operations and Ingest Teams and the Atlas Integration Leads. This tracker includes: -- Sensitive details on unpublished studies, publications, and datasets. -- Provisional lists of potential data contributors who may not have been contacted by the HCA and may not be aware that their datasets have been selected for the atlas. + - Sensitive details on unpublished studies, publications, and datasets. + - Provisional lists of potential data contributors who may not have been contacted by the HCA and may not be aware + that their datasets have been selected for the atlas. -Please email or Slack Ellen Todres ([etodres@humancellatlas.org](mailto:etodres@humancellatlas.org)) with any -questions. + Please email or Slack Ellen Todres ([etodres@humancellatlas.org](mailto:etodres@humancellatlas.org)) with any + questions. + + + diff --git a/app/components/common/Typography/components/TypographyNoWrap/typographyNoWrap.tsx b/app/components/common/Typography/components/TypographyNoWrap/typographyNoWrap.tsx index ad47d1bd..64281a22 100644 --- a/app/components/common/Typography/components/TypographyNoWrap/typographyNoWrap.tsx +++ b/app/components/common/Typography/components/TypographyNoWrap/typographyNoWrap.tsx @@ -1,4 +1,4 @@ -import { Typography, TypographyProps as MTypographyProps } from "@mui/material"; +import { TypographyProps as MTypographyProps, Typography } from "@mui/material"; import { ReactNode } from "react"; export interface TypographyNoWrapProps extends MTypographyProps { diff --git a/app/components/common/Typography/components/TypographyTextBody400/typographyTextBody400.tsx b/app/components/common/Typography/components/TypographyTextBody400/typographyTextBody400.tsx index 6a32b3ae..36596205 100644 --- a/app/components/common/Typography/components/TypographyTextBody400/typographyTextBody400.tsx +++ b/app/components/common/Typography/components/TypographyTextBody400/typographyTextBody400.tsx @@ -1,5 +1,5 @@ import { TEXT_BODY_400 } from "@databiosphere/findable-ui/lib/theme/common/typography"; -import { Typography, TypographyProps as MTypographyProps } from "@mui/material"; +import { TypographyProps as MTypographyProps, Typography } from "@mui/material"; import { ReactNode } from "react"; export interface TypographyNoWrapProps extends MTypographyProps { diff --git a/app/components/index.ts b/app/components/index.ts index 7b670574..2c4bc2ce 100644 --- a/app/components/index.ts +++ b/app/components/index.ts @@ -1,5 +1,4 @@ -export { FluidAlert } from "@databiosphere/findable-ui/lib/components/common/Alert/alert.styles"; -export { AlertText } from "@databiosphere/findable-ui/lib/components/common/Alert/components/AlertText/alertText.styles"; +export { Alert } from "@databiosphere/findable-ui/lib/components/common/Alert/alert"; export { SessionTimeout } from "@databiosphere/findable-ui/lib/components/common/Banner/components/SessionTimeout/sessionTimeout"; export { GitHubIcon } from "@databiosphere/findable-ui/lib/components/common/CustomIcon/components/GitHubIcon/gitHubIcon"; export { UnLinkIcon } from "@databiosphere/findable-ui/lib/components/common/CustomIcon/components/UnLinkIcon/unLinkIcon"; @@ -18,10 +17,12 @@ export { Link } from "@databiosphere/findable-ui/lib/components/Links/components export { BasicCell } from "@databiosphere/findable-ui/lib/components/Table/components/TableCell/components/BasicCell/basicCell"; export { NTagCell } from "@databiosphere/findable-ui/lib/components/Table/components/TableCell/components/NTagCell/nTagCell"; export { RowDrawer } from "@databiosphere/findable-ui/lib/components/Table/components/TableToolbar/components/RowPreview/components/RowDrawer/rowDrawer"; +export { AlertTitle } from "@mui/material"; export { IconButton } from "./common/IconButton/iconButton"; export { ViewSourceDataset } from "./Detail/components/ViewSourceDataset/viewSourceDataset"; export { EditTasks } from "./Index/components/ViewTasks/components/EditTasks/editTasks"; export { PreviewTask } from "./Index/components/ViewTasks/components/PreviewTask/previewTask"; +export { AlertText } from "./Layout/components/Content/components/AlertText/alertText.styles"; export { HCABranding } from "./Layout/components/Footer/components/Branding/components/HCABranding/hcaBranding"; export { LabelIconMenuItem } from "./Layout/components/Header/components/Content/components/Navigation/components/NavigationMenuItems/components/LabelIconMenuItem/labelIconMenuItem"; export { Hero } from "./Layout/components/IndexPage/components/Hero/hero"; diff --git a/app/hooks/useFormManager/useFormManager.ts b/app/hooks/useFormManager/useFormManager.ts index 4966fcce..f352ea34 100644 --- a/app/hooks/useFormManager/useFormManager.ts +++ b/app/hooks/useFormManager/useFormManager.ts @@ -95,7 +95,7 @@ export const useFormManager = ( ); useEffect(() => { - return () => { + return (): void => { setPathRoute(undefined); }; }, []); diff --git a/app/services/common/refresh-service.ts b/app/services/common/refresh-service.ts index dba33a74..a806644f 100644 --- a/app/services/common/refresh-service.ts +++ b/app/services/common/refresh-service.ts @@ -1,4 +1,4 @@ -import { RefreshStatus, REFRESH_ACTIVITY, REFRESH_OUTCOME } from "./entities"; +import { REFRESH_ACTIVITY, REFRESH_OUTCOME, RefreshStatus } from "./entities"; export interface RefreshInfo { attemptingRefresh?: boolean; diff --git a/app/services/validations.ts b/app/services/validations.ts index 9984ab81..9dfcc7fc 100644 --- a/app/services/validations.ts +++ b/app/services/validations.ts @@ -21,14 +21,14 @@ import { HCAAtlasTrackerValidationResult, PublicationInfo, SYSTEM, - TaskStatusesUpdatedByDOIResult, TASK_STATUS, - ValidationDBEntityOfType, - ValidationDifference, + TaskStatusesUpdatedByDOIResult, VALIDATION_ID, VALIDATION_STATUS, VALIDATION_TYPE, VALIDATION_VARIABLE, + ValidationDBEntityOfType, + ValidationDifference, } from "../apis/catalog/hca-atlas-tracker/common/entities"; import { getDbEntityCitation } from "../apis/catalog/hca-atlas-tracker/common/utils"; import { ForbiddenError, NotFoundError } from "../utils/api-handler"; diff --git a/mdx-components.tsx b/mdx-components.tsx index 869487fb..2fc84e55 100644 --- a/mdx-components.tsx +++ b/mdx-components.tsx @@ -1,9 +1,13 @@ import { MDXComponents } from "mdx/types"; import { Link } from "./app/components/Layout/components/Content/components/Link/link"; +import * as C from "./app/components/index"; export function useMDXComponents(components: MDXComponents): MDXComponents { return { ...components, + Alert: C.Alert, + AlertText: C.AlertText, + AlertTitle: C.AlertTitle, a: Link, }; } diff --git a/package-lock.json b/package-lock.json index 720e0a87..91681a22 100644 --- a/package-lock.json +++ b/package-lock.json @@ -8,25 +8,24 @@ "name": "hca-atlas-tracker", "version": "1.0.0", "dependencies": { - "@databiosphere/findable-ui": "10.2.0", - "@emotion/react": "11.11.1", - "@emotion/styled": "11.11.0", + "@databiosphere/findable-ui": "14.0.0", + "@emotion/react": "^11.13.3", + "@emotion/styled": "^11.13.0", "@hookform/resolvers": "^3.3.4", "@mdx-js/loader": "^3.0.1", "@mdx-js/react": "^3.0.1", - "@mui/icons-material": "5.14.1", - "@mui/material": "5.14.1", + "@mui/icons-material": "^6.1.5", + "@mui/material": "^6.1.5", "@next/mdx": "^14.1.0", "@tanstack/react-table": "^8.19.2", - "@types/mdx": "^2.0.11", "date-fns": "^3.6.0", "dequal": "^2.0.3", "isomorphic-dompurify": "0.24.0", - "ky": "^1.2.4", + "ky": "^1.7.2", "next": "^14.1.0", "next-compose-plugins": "^2.2.1", - "react": "^18.2.0", - "react-dom": "^18.2.0", + "react": "^18.3.1", + "react-dom": "^18.3.1", "react-hook-form": "^7.51.2", "react-window": "1.8.9", "string-strip-html": "^13.4.8", @@ -37,22 +36,24 @@ "devDependencies": { "@aws-sdk/rds-signer": "^3.540.0", "@babel/core": "^7.17.10", - "@commitlint/cli": "^17.3.0", - "@commitlint/config-conventional": "^17.3.0", + "@commitlint/cli": "^17.4.2", + "@commitlint/config-conventional": "^17.4.2", "@digitak/esrun": "^3.2.26", + "@mui/types": "^7.2.18", "@next/eslint-plugin-next": "^14.1.0", "@playwright/test": "^1.37.1", "@testing-library/jest-dom": "^5.16.5", - 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"dev": true + "dev": true, + "peer": true }, "node_modules/prompts": { "version": "2.4.2", @@ -16318,12 +16225,6 @@ "url": "https://github.com/sponsors/wooorm" } }, - "node_modules/proxy-from-env": { - "version": "1.1.0", - "resolved": "https://registry.npmjs.org/proxy-from-env/-/proxy-from-env-1.1.0.tgz", - "integrity": "sha512-D+zkORCbA9f1tdWRK0RaCR3GPv50cMxcrz4X8k5LTSUD1Dkw47mKJEZQNunItRTkWwgtaUSo1RVFRIG9ZXiFYg==", - "peer": true - }, "node_modules/psl": { "version": "1.9.0", "resolved": "https://registry.npmjs.org/psl/-/psl-1.9.0.tgz", @@ -16353,6 +16254,17 @@ } ] }, + "node_modules/q": { + "version": "1.5.1", + "resolved": "https://registry.npmjs.org/q/-/q-1.5.1.tgz", + "integrity": "sha512-kV/CThkXo6xyFEZUugw/+pIOywXcDbFYgSct5cT3gqlbkBE1SJdwy6UQoZvodiWF/ckQLZyDE/Bu1M6gVu5lVw==", + "deprecated": "You or someone you depend on is using Q, the JavaScript Promise library that gave JavaScript developers strong feelings about promises. They can almost certainly migrate to the native JavaScript promise now. Thank you literally everyone for joining me in this bet against the odds. Be excellent to each other.\n\n(For a CapTP with native promises, see @endo/eventual-send and @endo/captp)", + "dev": true, + "engines": { + "node": ">=0.6.0", + "teleport": ">=0.2.0" + } + }, "node_modules/querystringify": { "version": "2.2.0", "resolved": "https://registry.npmjs.org/querystringify/-/querystringify-2.2.0.tgz", @@ -16452,9 +16364,9 @@ } }, "node_modules/react": { - "version": "18.2.0", - "resolved": "https://registry.npmjs.org/react/-/react-18.2.0.tgz", - "integrity": "sha512-/3IjMdb2L9QbBdWiW5e3P2/npwMBaU9mHCSCUzNln0ZCYbcfTsGbTJrU/kGemdH2IWmB2ioZ+zkxtmq6g09fGQ==", + "version": "18.3.1", + "resolved": "https://registry.npmjs.org/react/-/react-18.3.1.tgz", + "integrity": "sha512-wS+hAgJShR0KhEvPJArfuPVN1+Hz1t0Y6n5jLrGQbkb4urgPE/0Rve+1kMB1v/oWgHgm4WIcV+i7F2pTVj+2iQ==", "dependencies": { "loose-envify": "^1.1.0" }, @@ -16463,25 +16375,25 @@ } }, "node_modules/react-dom": { - "version": "18.2.0", - "resolved": "https://registry.npmjs.org/react-dom/-/react-dom-18.2.0.tgz", - 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"attr-accept": "^2.2.2", - "file-selector": "^0.6.0", + "attr-accept": "^2.2.4", + "file-selector": "^2.1.0", "prop-types": "^15.8.1" }, "engines": { @@ -16523,9 +16435,9 @@ } }, "node_modules/react-is": { - "version": "18.2.0", - "resolved": "https://registry.npmjs.org/react-is/-/react-is-18.2.0.tgz", - "integrity": "sha512-xWGDIW6x921xtzPkhiULtthJHoJvBbF3q26fzloPCK0hsvxtPVelvftw3zjbHWSkR2km9Z+4uxbDDK/6Zw9B8w==" + "version": "18.3.1", + "resolved": "https://registry.npmjs.org/react-is/-/react-is-18.3.1.tgz", + "integrity": "sha512-/LLMVyas0ljjAtoYiPqYiL8VWXzUUdThrmU5+n20DZv+a+ClRoevUzw5JxU+Ieh5/c87ytoTBV9G1FiKfNJdmg==" }, "node_modules/react-transition-group": { "version": "4.4.5", @@ -17058,9 +16970,9 @@ } }, "node_modules/scheduler": { - "version": "0.23.0", - "resolved": "https://registry.npmjs.org/scheduler/-/scheduler-0.23.0.tgz", - "integrity": "sha512-CtuThmgHNg7zIZWAXi3AsyIzA3n4xx7aNyjwC2VJldO2LMVDhFK+63xGqq6CsJH4rTAt6/M+N4GhZiDYPx9eUw==", + "version": "0.23.2", + "resolved": "https://registry.npmjs.org/scheduler/-/scheduler-0.23.2.tgz", + "integrity": "sha512-UOShsPwz7NrMUqhR6t0hWjFduvOzbtv7toDH1/hIrfRNIDBnnBWd0CwJTGvTpngVlmwGCdP9/Zl/tVrDqcuYzQ==", "dependencies": { "loose-envify": "^1.1.0" } @@ -17373,18 +17285,6 @@ "node": ">=8" } }, - "node_modules/stop-iteration-iterator": { - "version": "1.0.0", - "resolved": "https://registry.npmjs.org/stop-iteration-iterator/-/stop-iteration-iterator-1.0.0.tgz", - "integrity": "sha512-iCGQj+0l0HOdZ2AEeBADlsRC+vsnDsZsbdSiH1yNSjcfKM7fdpCMfqAL/dwF5BLiw/XhRft/Wax6zQbhq2BcjQ==", - "dev": true, - "dependencies": { - "internal-slot": "^1.0.4" - }, - "engines": { - "node": ">= 0.4" - } - }, "node_modules/streamsearch": { "version": "1.1.0", "resolved": "https://registry.npmjs.org/streamsearch/-/streamsearch-1.1.0.tgz", @@ -18055,6 +17955,18 @@ "url": "https://github.com/sponsors/wooorm" } }, + "node_modules/ts-api-utils": { + "version": "1.4.0", + "resolved": "https://registry.npmjs.org/ts-api-utils/-/ts-api-utils-1.4.0.tgz", + "integrity": "sha512-032cPxaEKwM+GT3vA5JXNzIaizx388rhsSW79vGRNGXfRRAdEAn2mvk36PvK5HnOchyWZ7afLEXqYCvPCrzuzQ==", + "dev": true, + "engines": { + "node": ">=16" + }, + "peerDependencies": { + "typescript": ">=4.2.0" + } + }, "node_modules/ts-node": { "version": "10.9.2", "resolved": "https://registry.npmjs.org/ts-node/-/ts-node-10.9.2.tgz", @@ -18120,9 +18032,9 @@ } }, "node_modules/tslib": { - "version": "2.6.2", - "resolved": "https://registry.npmjs.org/tslib/-/tslib-2.6.2.tgz", - "integrity": "sha512-AEYxH93jGFPn/a2iVAwW87VuUIkR1FVUKB77NwMF7nBTDkDrrT/Hpt/IrCJ0QXhW27jTBDcf5ZY7w6RiqTMw2Q==" + "version": "2.8.1", + "resolved": "https://registry.npmjs.org/tslib/-/tslib-2.8.1.tgz", + "integrity": "sha512-oJFu94HQb+KVduSUQL7wnpmqnfmLsOA/nAh6b6EH0wCEoK0/mPeXU6c3wKDV83MkOuHPRHtSXKKU99IBazS/2w==" }, "node_modules/tsutils": { "version": "3.21.0", @@ -18264,16 +18176,16 @@ } }, "node_modules/typescript": { - "version": "4.9.5", - "resolved": "https://registry.npmjs.org/typescript/-/typescript-4.9.5.tgz", - "integrity": "sha512-1FXk9E2Hm+QzZQ7z+McJiHL4NW1F2EzMu9Nq9i3zAaGqibafqYwCVU6WyWAuyQRRzOlxou8xZSyXLEN8oKj24g==", + "version": "5.5.4", + "resolved": "https://registry.npmjs.org/typescript/-/typescript-5.5.4.tgz", + "integrity": "sha512-Mtq29sKDAEYP7aljRgtPOpTvOfbwRWlS6dPRzwjdE+C0R4brX/GUyhHSecbHMFLNBLcJIPt9nl9yG5TZ1weH+Q==", "dev": true, "bin": { "tsc": "bin/tsc", "tsserver": "bin/tsserver" }, "engines": { - "node": ">=4.2.0" + "node": ">=14.17" } }, "node_modules/unbox-primitive": { diff --git a/package.json b/package.json index 2f7c6196..44f47ebf 100644 --- a/package.json +++ b/package.json @@ -16,25 +16,24 @@ "migrate": "ts-node -O '{\"module\": \"commonjs\"}' ./scripts/migration-runner.ts -j ts" }, "dependencies": { - "@databiosphere/findable-ui": "10.2.0", - "@emotion/react": "11.11.1", - "@emotion/styled": "11.11.0", + "@databiosphere/findable-ui": "14.0.0", + "@emotion/react": "^11.13.3", + "@emotion/styled": "^11.13.0", "@hookform/resolvers": "^3.3.4", "@mdx-js/loader": "^3.0.1", "@mdx-js/react": "^3.0.1", - "@mui/icons-material": "5.14.1", - "@mui/material": "5.14.1", + "@mui/icons-material": "^6.1.5", + "@mui/material": "^6.1.5", "@next/mdx": "^14.1.0", "@tanstack/react-table": "^8.19.2", - "@types/mdx": "^2.0.11", "date-fns": "^3.6.0", "dequal": "^2.0.3", "isomorphic-dompurify": "0.24.0", - "ky": "^1.2.4", + "ky": "^1.7.2", "next": "^14.1.0", "next-compose-plugins": "^2.2.1", - "react": "^18.2.0", - "react-dom": "^18.2.0", + "react": "^18.3.1", + "react-dom": "^18.3.1", "react-hook-form": "^7.51.2", "react-window": "1.8.9", "string-strip-html": "^13.4.8", @@ -45,22 +44,24 @@ "devDependencies": { "@aws-sdk/rds-signer": "^3.540.0", "@babel/core": "^7.17.10", - "@commitlint/cli": "^17.3.0", - "@commitlint/config-conventional": "^17.3.0", + "@commitlint/cli": "^17.4.2", + "@commitlint/config-conventional": "^17.4.2", "@digitak/esrun": "^3.2.26", + "@mui/types": "^7.2.18", "@next/eslint-plugin-next": "^14.1.0", "@playwright/test": "^1.37.1", "@testing-library/jest-dom": "^5.16.5", - "@testing-library/react": "^14.2.1", + "@testing-library/react": "^16.0.1", + "@types/mdx": "^2.0.11", "@types/node": "20.10.0", - "@types/react": "^18.2.0", - "@types/react-dom": "^18.2.0", + "@types/react": "^18.3.5", + "@types/react-dom": "^18.3.0", "@types/react-table": "^7.7.12", "@types/uuid": "8.3.4", - "@typescript-eslint/eslint-plugin": "^5.49.0", + "@typescript-eslint/eslint-plugin": "^7.18.0", "babel-loader": "^8.2.5", "eslint": "^8.33.0", - "eslint-config-next": "^14.1.0", + "eslint-config-next": "^14.2.13", "eslint-config-prettier": "^8.6.0", "eslint-plugin-eslint-comments": "^3.2.0", "eslint-plugin-jsdoc": "^48.1.0", @@ -68,9 +69,9 @@ "eslint-plugin-react-hooks": "^4.6.0", "eslint-plugin-sonarjs": "^0.18.0", "eslint-plugin-sort-destructure-keys": "^1.4.0", - "eslint-plugin-typescript-sort-keys": "^2.3.0", + "eslint-plugin-typescript-sort-keys": "^3.2.0", "gray-matter": "^4.0.3", - "husky": "^8.0.0", + "husky": "^8.0.3", "jest": "^29.4.1", "jest-environment-jsdom": "^29.4.1", "next-mdx-remote": "^4.2.0", @@ -79,7 +80,7 @@ "prettier": "^2.8.3", "prettier-plugin-organize-imports": "^3.2.2", "ts-node": "^10.9.2", - "typescript": "^4.6.4" + "typescript": "^5.5.4" }, "engines": { "node": "20.10.0" diff --git a/site-config/hca-atlas-tracker/local/config.ts b/site-config/hca-atlas-tracker/local/config.ts index 13c1c024..ac6619aa 100644 --- a/site-config/hca-atlas-tracker/local/config.ts +++ b/site-config/hca-atlas-tracker/local/config.ts @@ -32,7 +32,6 @@ export function makeConfig(browserUrl: string, portalUrl: string): SiteConfig { browserURL: browserUrl, contentDir: "hca-atlas-tracker", dataSource: { - entityURL: LOCALHOST, url: browserUrl, }, entities: [atlasEntityConfig, tasksEntityConfig, userEntityConfig], diff --git a/site-config/hca-atlas-tracker/local/viewList/subTitleHero.ts b/site-config/hca-atlas-tracker/local/viewList/subTitleHero.ts index ee2cd08d..ff21b5c2 100644 --- a/site-config/hca-atlas-tracker/local/viewList/subTitleHero.ts +++ b/site-config/hca-atlas-tracker/local/viewList/subTitleHero.ts @@ -1,27 +1,19 @@ +import { ALERT_PROPS } from "@databiosphere/findable-ui/lib/components/common/Alert/constants"; import { ComponentConfig, ComponentsConfig, } from "@databiosphere/findable-ui/lib/config/entities"; -import { HCAAtlasTrackerListAtlas } from "../../../../app/apis/catalog/hca-atlas-tracker/common/entities"; +import { SIZE } from "@databiosphere/findable-ui/lib/styles/common/constants/size"; import * as C from "../../../../app/components"; import * as MDX from "../../../../app/components/common/MDXContent/index"; export const subTitleHero: ComponentsConfig = [ { - children: [ - { - children: [ - { - component: MDX.ConfidentialNotice, - } as ComponentConfig, - ], - component: C.AlertText, - } as ComponentConfig, - ], - component: C.FluidAlert, + component: MDX.ConfidentialNotice, props: { - severity: "warning", - title: "This tracker is confidential", + ...ALERT_PROPS.STANDARD_WARNING, + component: C.FluidPaper, + size: SIZE.LARGE, }, - } as ComponentConfig, + } as ComponentConfig, ]; diff --git a/testing/entities.ts b/testing/entities.ts index e55fafa2..f0b45fc0 100644 --- a/testing/entities.ts +++ b/testing/entities.ts @@ -1,7 +1,7 @@ import { ATLAS_STATUS, - DoiPublicationInfo, DOI_STATUS, + DoiPublicationInfo, HCAAtlasTrackerDBUnpublishedSourceStudyInfo, IntegrationLead, LinkInfo,