@weng-lab/ui-components 2.1.1 → 2.2.0

package/dist/ui-components.es54.js.map

@@ -1 +1 @@
-{"version":3,"file":"ui-components.es54.js","sources":["../src/components/GenomeSearch/queries.ts"],"sourcesContent":["import { GeneResponse, GenomeSearchProps } from \"./types\";\n\nexport const SNP_AUTOCOMPLETE_QUERY = `\n  query suggestions($assembly: String!, $snpid: String!) {\n      snpAutocompleteQuery(assembly: $assembly, snpid: $snpid) {\n          id\n          coordinates {\n              chromosome\n              start\n              end\n          }\n      }\n  }\n`;\n\nexport const GENE_AUTOCOMPLETE_QUERY = `\n  query Genes(\n      $id: [String]\n      $name: [String]\n      $strand: String\n      $chromosome: String\n      $start: Int\n      $end: Int\n      $gene_type: String\n      $havana_id: String\n      $name_prefix: [String!]\n      $limit: Int\n      $assembly: String!\n      $version: Int\n  ) {\n      gene(\n          id: $id\n          name: $name\n          strand: $strand\n          chromosome: $chromosome\n          start: $start\n          end: $end\n          gene_type: $gene_type\n          havana_id: $havana_id\n          name_prefix: $name_prefix\n          limit: $limit\n          assembly: $assembly\n          orderby: \"name\"\n          version: $version\n      ) {\n          id\n          name\n          coordinates {\n              chromosome\n              start\n              end\n          }\n      }\n  }\n`;\n\nexport const ICRE_AUTOCOMPLETE_QUERY = `\n  query iCREQuery($accession_prefix: [String!], $limit: Int) {\n      iCREQuery(accession_prefix: $accession_prefix, limit: $limit) {\n          rdhs\n          accession\n          celltypes\n          coordinates {\n              start\n              end\n              chromosome\n          }\n      }\n  }\n`;\n\nexport const CCRE_AUTOCOMPLETE_QUERY = `\n  query cCREAutocompleteQuery(\n    $accession_prefix: [String!]\n    $assembly: String!\n    $includeiCREs: Boolean\n    $limit: Int\n  ) {\n    cCREAutocompleteQuery(\n      includeiCREs: $includeiCREs\n      assembly: $assembly\n      limit: $limit\n      accession_prefix: $accession_prefix\n    ) {\n      accession\n      isiCRE\n      coordinates {\n        chromosome\n        start\n        end\n      }\n    }\n  }\n`;\n\nexport const LEGACY_CCRE_QUERY = `\n  query getv2v3CcreMapping($accessions: [String], $assembly: String!) {\n    ccreMappings: getv2cCREMappings(\n      v2_accession: $accessions\n      assembly: $assembly\n    ) {\n      input: v2_accession\n      input_latest_previous_version: ccre_version\n      input_region: v2_region\n      v4_match_or_intersecting: v4_accession\n      v4_region\n    }\n  }\n`\n\nexport const GWAS_AUTOCOMPLETE_QUERY = `\nquery getGWASStudyMetadata($studyid: [String], $limit: Int, $studyname_prefix: [String], $parent_terms: [String]){\n    getGWASStudiesMetadata(studyid: $studyid, limit: $limit, parent_terms: $parent_terms, studyname_prefix: $studyname_prefix )\n    {\n        studyid\n        author\n        disease_trait\n        has_enrichment_info\n        population\n        parent_terms\n        total_ld_blocks\n        ld_blocks_overlapping_ccres\n        overlapping_ccres\n    }\n}\n`;\n\nexport const getICREs = async (value: string, limit: number, signal?: AbortSignal) => {\n  const response = await fetch(\"https://screen.api.wenglab.org/graphql\", {\n    method: \"POST\",\n    body: JSON.stringify({\n      query: ICRE_AUTOCOMPLETE_QUERY,\n      variables: {\n        accession_prefix: [value],\n        limit: limit,\n      },\n    }),\n    headers: { \"Content-Type\": \"application/json\" },\n    signal,\n  });\n  return response.json();\n};\n\nexport const getCCREs = async (value: string, assembly: GenomeSearchProps[\"assembly\"], limit: number, showiCREFlag: boolean, signal?: AbortSignal) => {\n  const response = await fetch(\"https://screen.api.wenglab.org/graphql\", {\n    method: \"POST\",\n    body: JSON.stringify({\n      query: CCRE_AUTOCOMPLETE_QUERY,\n      variables: {\n        accession_prefix: [value],\n        assembly: assembly.toLowerCase(),\n        limit: limit,\n        includeiCREs: showiCREFlag,\n      },\n    }),\n    headers: { \"Content-Type\": \"application/json\" },\n    signal,\n  });\n  return response.json();\n};\n\nexport const getLegacyCCREs = async (value: string, assembly: GenomeSearchProps[\"assembly\"], signal?: AbortSignal) => {\n  const response = await fetch(\"https://screen.api.wenglab.org/graphql\", {\n    method: \"POST\",\n    body: JSON.stringify({\n      query: LEGACY_CCRE_QUERY,\n      variables: {\n        accessions: [value],\n        assembly,\n      },\n    }),\n    headers: { \"Content-Type\": \"application/json\" },\n    signal,\n  });\n  return response.json();\n};\n\nexport const getGenes = async (\n  value: string,\n  assembly: GenomeSearchProps[\"assembly\"],\n  limit: number,\n  geneVersions: GenomeSearchProps[\"geneVersion\"],\n  signal?: AbortSignal\n) => {\n  let versions = geneVersions\n    ? typeof geneVersions === \"number\"\n      ? [geneVersions]\n      : geneVersions\n    : [assembly === \"GRCh38\" ? 40 : 25];\n\n  // sort versions from high to low (prioritize newest versions in map)\n  versions = versions.sort((a, b) => b - a);\n\n  // Fetch genes for all versions\n  const versionResults = await Promise.all(\n    versions.map((version) =>\n      fetch(\"https://screen.api.wenglab.org/graphql\", {\n        method: \"POST\",\n        body: JSON.stringify({\n          query: GENE_AUTOCOMPLETE_QUERY,\n          variables: {\n            assembly: assembly.toLowerCase(),\n            name_prefix: value,\n            version: version,\n            limit: limit,\n          },\n        }),\n        headers: { \"Content-Type\": \"application/json\" },\n        signal,\n      }).then((res) => res.json())\n    )\n  );\n\n  // Combine and deduplicate results\n  const geneMap = new Map<string, { gene: any; versions: { id: string; version: number }[] }>();\n\n  versionResults.forEach((result, idx) => {\n    const genes = result.data.gene || [];\n    genes.forEach((gene: any) => {\n      if (!geneMap.has(gene.name)) {\n        geneMap.set(gene.name, { gene, versions: [{ id: gene.id, version: versions[idx] }] });\n      } else {\n        // if gene already exists, just add legacy versions to list.\n        const existing = geneMap.get(gene.name)!;\n        existing.versions.push({ id: gene.id, version: versions[idx] });\n      }\n    });\n  });\n\n  // Convert map to array and fetch descriptions\n  const out = await Promise.all(\n    Array.from(geneMap.values()).map(async ({ gene, versions }) => {\n      const description = await getDescription(gene.name);\n      return {\n        ...gene,\n        description: `${toTitleCase(description || gene.name)}`,\n        versions,\n      };\n    })\n  );\n\n  return out;\n};\nconst toTitleCase = (str: string) =>\n  str\n    .split(\" \")\n    .map((word) => word.charAt(0).toUpperCase() + word.slice(1))\n    .join(\" \");\n\nasync function getDescription(name: string): Promise<string | null> {\n  const response = await fetch(\n    \"https://clinicaltables.nlm.nih.gov/api/ncbi_genes/v3/search?authenticity_token=&terms=\" + name.toUpperCase()\n  );\n  const data = await response.json();\n  const matches = data[3] && data[3].filter((x: string[]) => x[3] === name.toUpperCase());\n  return matches && matches.length >= 1 ? matches[0][4] : null;\n}\n\nexport const getSNPs = async (value: string, assembly: GenomeSearchProps[\"assembly\"], limit: number, signal?: AbortSignal) => {\n  const response = await fetch(\"https://screen.api.wenglab.org/graphql\", {\n    method: \"POST\",\n    body: JSON.stringify({\n      query: SNP_AUTOCOMPLETE_QUERY,\n      variables: {\n        assembly: assembly.toLowerCase(),\n        snpid: value,\n        limit: limit,\n      },\n    }),\n    headers: { \"Content-Type\": \"application/json\" },\n    signal,\n  });\n  return response.json();\n};\n\nexport const getStudys = async (value: string, limit: number, signal?: 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+{"version":3,"file":"ui-components.es54.js","sources":["../../../node_modules/.pnpm/@mui+material@7.3.9_@emotion+react@11.14.0_@types+react@19.2.14_react@19.2.4__@emotion+_5efc65b7a21bb615fd4ee8d4bf58b896/node_modules/@mui/material/esm/TextField/TextField.js"],"sourcesContent":["'use client';\n\nimport * as React from 'react';\nimport PropTypes from 'prop-types';\nimport clsx from 'clsx';\nimport composeClasses from '@mui/utils/composeClasses';\nimport useId from '@mui/utils/useId';\nimport refType from '@mui/utils/refType';\nimport { styled } from \"../zero-styled/index.js\";\nimport { useDefaultProps } from \"../DefaultPropsProvider/index.js\";\nimport Input from \"../Input/index.js\";\nimport FilledInput from \"../FilledInput/index.js\";\nimport OutlinedInput from \"../OutlinedInput/index.js\";\nimport InputLabel from \"../InputLabel/index.js\";\nimport FormControl from \"../FormControl/index.js\";\nimport FormHelperText from \"../FormHelperText/index.js\";\nimport Select from \"../Select/index.js\";\nimport { getTextFieldUtilityClass } from \"./textFieldClasses.js\";\nimport useSlot from \"../utils/useSlot.js\";\nimport { jsx as _jsx, jsxs as _jsxs } from \"react/jsx-runtime\";\nconst variantComponent = {\n  standard: Input,\n  filled: FilledInput,\n  outlined: OutlinedInput\n};\nconst useUtilityClasses = ownerState => {\n  const {\n    classes\n  } = ownerState;\n  const slots = {\n    root: ['root']\n  };\n  return composeClasses(slots, getTextFieldUtilityClass, classes);\n};\nconst TextFieldRoot = styled(FormControl, {\n  name: 'MuiTextField',\n  slot: 'Root'\n})({});\n\n/**\n * The `TextField` is a convenience wrapper for the most common cases (80%).\n * It cannot be all things to all people, otherwise the API would grow out of control.\n *\n * ## Advanced Configuration\n *\n * It's important to understand that the text field is a simple abstraction\n * on top of the following components:\n *\n * - [FormControl](/material-ui/api/form-control/)\n * - [InputLabel](/material-ui/api/input-label/)\n * - [FilledInput](/material-ui/api/filled-input/)\n * - [OutlinedInput](/material-ui/api/outlined-input/)\n * - [Input](/material-ui/api/input/)\n * - [FormHelperText](/material-ui/api/form-helper-text/)\n *\n * If you wish to alter the props applied to the `input` element, you can do so as follows:\n *\n * ```jsx\n * const inputProps = {\n *   step: 300,\n * };\n *\n * return <TextField id=\"time\" type=\"time\" inputProps={inputProps} />;\n * ```\n *\n * For advanced cases, please look at the source of TextField by clicking on the\n * \"Edit this page\" button above. Consider either:\n *\n * - using the upper case props for passing values directly to the components\n * - using the underlying components directly as shown in the demos\n */\nconst TextField = /*#__PURE__*/React.forwardRef(function TextField(inProps, ref) {\n  const props = useDefaultProps({\n    props: inProps,\n    name: 'MuiTextField'\n  });\n  const {\n    autoComplete,\n    autoFocus = false,\n    children,\n    className,\n    color = 'primary',\n    defaultValue,\n    disabled = false,\n    error = false,\n    FormHelperTextProps: FormHelperTextPropsProp,\n    fullWidth = false,\n    helperText,\n    id: idOverride,\n    InputLabelProps: InputLabelPropsProp,\n    inputProps: inputPropsProp,\n    InputProps: InputPropsProp,\n    inputRef,\n    label,\n    maxRows,\n    minRows,\n    multiline = false,\n    name,\n    onBlur,\n    onChange,\n    onFocus,\n    placeholder,\n    required = false,\n    rows,\n    select = false,\n    SelectProps: SelectPropsProp,\n    slots = {},\n    slotProps = {},\n    type,\n    value,\n    variant = 'outlined',\n    ...other\n  } = props;\n  const ownerState = {\n    ...props,\n    autoFocus,\n    color,\n    disabled,\n    error,\n    fullWidth,\n    multiline,\n    required,\n    select,\n    variant\n  };\n  const classes = useUtilityClasses(ownerState);\n  if (process.env.NODE_ENV !== 'production') {\n    if (select && !children) {\n      console.error('MUI: `children` must be passed when using the `TextField` component with `select`.');\n    }\n  }\n  const id = useId(idOverride);\n  const helperTextId = helperText && id ? `${id}-helper-text` : undefined;\n  const inputLabelId = label && id ? `${id}-label` : undefined;\n  const InputComponent = variantComponent[variant];\n  const externalForwardedProps = {\n    slots,\n    slotProps: {\n      input: InputPropsProp,\n      inputLabel: InputLabelPropsProp,\n      htmlInput: inputPropsProp,\n      formHelperText: FormHelperTextPropsProp,\n      select: SelectPropsProp,\n      ...slotProps\n    }\n  };\n  const inputAdditionalProps = {};\n  const inputLabelSlotProps = externalForwardedProps.slotProps.inputLabel;\n  if (variant === 'outlined') {\n    if (inputLabelSlotProps && typeof inputLabelSlotProps.shrink !== 'undefined') {\n      inputAdditionalProps.notched = inputLabelSlotProps.shrink;\n    }\n    inputAdditionalProps.label = label;\n  }\n  if (select) {\n    // unset defaults from textbox inputs\n    if (!SelectPropsProp || !SelectPropsProp.native) {\n      inputAdditionalProps.id = undefined;\n    }\n    inputAdditionalProps['aria-describedby'] = undefined;\n  }\n  const [RootSlot, rootProps] = useSlot('root', {\n    elementType: TextFieldRoot,\n    shouldForwardComponentProp: true,\n    externalForwardedProps: {\n      ...externalForwardedProps,\n      ...other\n    },\n    ownerState,\n    className: clsx(classes.root, className),\n    ref,\n    additionalProps: {\n      disabled,\n      error,\n      fullWidth,\n      required,\n      color,\n      variant\n    }\n  });\n  const [InputSlot, inputProps] = useSlot('input', {\n    elementType: InputComponent,\n    externalForwardedProps,\n    additionalProps: inputAdditionalProps,\n    ownerState\n  });\n  const [InputLabelSlot, inputLabelProps] = useSlot('inputLabel', {\n    elementType: InputLabel,\n    externalForwardedProps,\n    ownerState\n  });\n  const [HtmlInputSlot, htmlInputProps] = useSlot('htmlInput', {\n    elementType: 'input',\n    externalForwardedProps,\n    ownerState\n  });\n  const [FormHelperTextSlot, formHelperTextProps] = useSlot('formHelperText', {\n    elementType: FormHelperText,\n    externalForwardedProps,\n    ownerState\n  });\n  const [SelectSlot, selectProps] = useSlot('select', {\n    elementType: Select,\n    externalForwardedProps,\n    ownerState\n  });\n  const InputElement = /*#__PURE__*/_jsx(InputSlot, {\n    \"aria-describedby\": helperTextId,\n    autoComplete: autoComplete,\n    autoFocus: autoFocus,\n    defaultValue: defaultValue,\n    fullWidth: fullWidth,\n    multiline: multiline,\n    name: name,\n    rows: rows,\n    maxRows: maxRows,\n    minRows: minRows,\n    type: type,\n    value: value,\n    id: id,\n    inputRef: inputRef,\n    onBlur: onBlur,\n    onChange: onChange,\n    onFocus: onFocus,\n    placeholder: placeholder,\n    inputProps: htmlInputProps,\n    slots: {\n      input: slots.htmlInput ? HtmlInputSlot : undefined\n    },\n    ...inputProps\n  });\n  return /*#__PURE__*/_jsxs(RootSlot, {\n    ...rootProps,\n    children: [label != null && label !== '' && /*#__PURE__*/_jsx(InputLabelSlot, {\n      htmlFor: id,\n      id: inputLabelId,\n      ...inputLabelProps,\n      children: label\n    }), select ? /*#__PURE__*/_jsx(SelectSlot, {\n      \"aria-describedby\": helperTextId,\n      id: id,\n      labelId: inputLabelId,\n      value: value,\n      input: InputElement,\n      ...selectProps,\n      children: children\n    }) : InputElement, helperText && /*#__PURE__*/_jsx(FormHelperTextSlot, {\n      id: helperTextId,\n      ...formHelperTextProps,\n      children: helperText\n    })]\n  });\n});\nprocess.env.NODE_ENV !== \"production\" ? TextField.propTypes /* remove-proptypes */ = {\n  // ┌────────────────────────────── Warning ──────────────────────────────┐\n  // │ These PropTypes are generated from the TypeScript type definitions. │\n  // │    To update them, edit the d.ts file and run `pnpm proptypes`.     │\n  // └─────────────────────────────────────────────────────────────────────┘\n  /**\n   * This prop helps users to fill forms faster, especially on mobile devices.\n   * The name can be confusing, as it's more like an autofill.\n   * You can learn more about it [following the specification](https://html.spec.whatwg.org/multipage/form-control-infrastructure.html#autofill).\n   */\n  autoComplete: PropTypes.string,\n  /**\n   * If `true`, the `input` element is focused during the first mount.\n   * @default false\n   */\n  autoFocus: PropTypes.bool,\n  /**\n   * @ignore\n   */\n  children: PropTypes.node,\n  /**\n   * Override or extend the styles applied to the component.\n   */\n  classes: PropTypes.object,\n  /**\n   * @ignore\n   */\n  className: PropTypes.string,\n  /**\n   * The color of the component.\n   * It supports both default and custom theme colors, which can be added as shown in the\n   * [palette customization guide](https://mui.com/material-ui/customization/palette/#custom-colors).\n   * @default 'primary'\n   */\n  color: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf(['primary', 'secondary', 'error', 'info', 'success', 'warning']), PropTypes.string]),\n  /**\n   * The default value. Use when the component is not controlled.\n   */\n  defaultValue: PropTypes.any,\n  /**\n   * If `true`, the component is disabled.\n   * @default false\n   */\n  disabled: PropTypes.bool,\n  /**\n   * If `true`, the label is displayed in an error state.\n   * @default false\n   */\n  error: PropTypes.bool,\n  /**\n   * Props applied to the [`FormHelperText`](https://mui.com/material-ui/api/form-helper-text/) element.\n   * @deprecated Use `slotProps.formHelperText` instead. This prop will be removed in a future major release. See [Migrating from deprecated APIs](https://mui.com/material-ui/migration/migrating-from-deprecated-apis/) for more details.\n   */\n  FormHelperTextProps: PropTypes.object,\n  /**\n   * If `true`, the input will take up the full width of its container.\n   * @default false\n   */\n  fullWidth: PropTypes.bool,\n  /**\n   * The helper text content.\n   */\n  helperText: PropTypes.node,\n  /**\n   * The id of the `input` element.\n   * Use this prop to make `label` and `helperText` accessible for screen readers.\n   */\n  id: PropTypes.string,\n  /**\n   * Props applied to the [`InputLabel`](https://mui.com/material-ui/api/input-label/) element.\n   * Pointer events like `onClick` are enabled if and only if `shrink` is `true`.\n   * @deprecated Use `slotProps.inputLabel` instead. This prop will be removed in a future major release. See [Migrating from deprecated APIs](https://mui.com/material-ui/migration/migrating-from-deprecated-apis/) for more details.\n   */\n  InputLabelProps: PropTypes.object,\n  /**\n   * [Attributes](https://developer.mozilla.org/en-US/docs/Web/HTML/Reference/Elements/input#attributes) applied to the `input` element.\n   * @deprecated Use `slotProps.htmlInput` instead. This prop will be removed in a future major release. See [Migrating from deprecated APIs](https://mui.com/material-ui/migration/migrating-from-deprecated-apis/) for more details.\n   */\n  inputProps: PropTypes.object,\n  /**\n   * Props applied to the Input element.\n   * It will be a [`FilledInput`](https://mui.com/material-ui/api/filled-input/),\n   * [`OutlinedInput`](https://mui.com/material-ui/api/outlined-input/) or [`Input`](https://mui.com/material-ui/api/input/)\n   * component depending on the `variant` prop value.\n   * @deprecated Use `slotProps.input` instead. This prop will be removed in a future major release. See [Migrating from deprecated APIs](https://mui.com/material-ui/migration/migrating-from-deprecated-apis/) for more details.\n   */\n  InputProps: PropTypes.object,\n  /**\n   * Pass a ref to the `input` element.\n   */\n  inputRef: refType,\n  /**\n   * The label content.\n   */\n  label: PropTypes.node,\n  /**\n   * If `dense` or `normal`, will adjust vertical spacing of this and contained components.\n   * @default 'none'\n   */\n  margin: PropTypes.oneOf(['dense', 'none', 'normal']),\n  /**\n   * Maximum number of rows to display when multiline option is set to true.\n   */\n  maxRows: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\n  /**\n   * Minimum number of rows to display when multiline option is set to true.\n   */\n  minRows: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\n  /**\n   * If `true`, a `textarea` element is rendered instead of an input.\n   * @default false\n   */\n  multiline: PropTypes.bool,\n  /**\n   * Name attribute of the `input` element.\n   */\n  name: PropTypes.string,\n  /**\n   * @ignore\n   */\n  onBlur: PropTypes.func,\n  /**\n   * Callback fired when the value is changed.\n   *\n   * @param {object} event The event source of the callback.\n   * You can pull out the new value by accessing `event.target.value` (string).\n   */\n  onChange: PropTypes.func,\n  /**\n   * @ignore\n   */\n  onFocus: PropTypes.func,\n  /**\n   * The short hint displayed in the `input` before the user enters a value.\n   */\n  placeholder: PropTypes.string,\n  /**\n   * If `true`, the label is displayed as required and the `input` element is required.\n   * @default false\n   */\n  required: PropTypes.bool,\n  /**\n   * Number of rows to display when multiline option is set to true.\n   */\n  rows: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\n  /**\n   * Render a [`Select`](https://mui.com/material-ui/api/select/) element while passing the Input element to `Select` as `input` parameter.\n   * If this option is set you must pass the options of the select as children.\n   * @default false\n   */\n  select: PropTypes.bool,\n  /**\n   * Props applied to the [`Select`](https://mui.com/material-ui/api/select/) element.\n   * @deprecated Use `slotProps.select` instead. This prop will be removed in a future major release. See [Migrating from deprecated APIs](https://mui.com/material-ui/migration/migrating-from-deprecated-apis/) for more details.\n   */\n  SelectProps: PropTypes.object,\n  /**\n   * The size of the component.\n   * @default 'medium'\n   */\n  size: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf(['medium', 'small']), PropTypes.string]),\n  /**\n   * The props used for each slot inside.\n   * @default {}\n   */\n  slotProps: PropTypes /* @typescript-to-proptypes-ignore */.shape({\n    formHelperText: PropTypes.oneOfType([PropTypes.func, PropTypes.object]),\n    htmlInput: PropTypes.oneOfType([PropTypes.func, PropTypes.object]),\n    input: PropTypes.oneOfType([PropTypes.func, PropTypes.object]),\n    inputLabel: PropTypes.oneOfType([PropTypes.func, PropTypes.object]),\n    select: PropTypes.oneOfType([PropTypes.func, PropTypes.object])\n  }),\n  /**\n   * The components used for each slot inside.\n   * @default {}\n   */\n  slots: PropTypes.shape({\n    formHelperText: PropTypes.elementType,\n    htmlInput: PropTypes.elementType,\n    input: PropTypes.elementType,\n    inputLabel: PropTypes.elementType,\n    root: PropTypes.elementType,\n    select: PropTypes.elementType\n  }),\n  /**\n   * The system prop that allows defining system overrides as well as additional CSS styles.\n   */\n  sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\n  /**\n   * Type of the `input` element. 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package/dist/ui-components.es55.js

@@ -1,73 +1,9 @@
-import { j as t } from "./ui-components.es13.js";
-import { c as S } from "./ui-components.es14.js";
-import { Stack as D, Typography as y, IconButton as C, Divider as v, Box as g, Button as _, Modal as k } from "@mui/material";
-import G from "./ui-components.es27.js";
-const P = (o) => {
-  const e = S.c(24), {
-    open: h,
-    onClose: l,
-    onDownloadSVG: b,
-    onDownloadPNG: u,
-    plotTitle: j
-  } = o;
-  let n;
-  e[0] !== u ? (n = {
-    label: "PNG",
-    action: u
-  }, e[0] = u, e[1] = n) : n = e[1];
-  let r;
-  e[2] !== b ? (r = {
-    label: "SVG",
-    action: b
-  }, e[2] = b, e[3] = r) : r = e[3];
-  let d;
-  e[4] !== n || e[5] !== r ? (d = [n, r].filter(I), e[4] = n, e[5] = r, e[6] = d) : d = e[6];
-  const w = d;
-  let m;
-  e[7] === /* @__PURE__ */ Symbol.for("react.memo_cache_sentinel") ? (m = {
-    position: "absolute",
-    top: "50%",
-    left: "50%",
-    transform: "translate(-50%, -50%)",
-    bgcolor: "background.paper",
-    boxShadow: 24,
-    borderRadius: 2,
-    p: 3,
-    width: 360
-  }, e[7] = m) : m = e[7];
-  let i;
-  e[8] !== j ? (i = /* @__PURE__ */ t.jsxs(y, { variant: "h6", fontWeight: 600, mb: 1, children: [
-    "Download ",
-    j
-  ] }), e[8] = j, e[9] = i) : i = e[9];
-  let f;
-  e[10] === /* @__PURE__ */ Symbol.for("react.memo_cache_sentinel") ? (f = /* @__PURE__ */ t.jsx(y, { variant: "body2", color: "text.secondary", mb: 2, children: "Choose a file format to export your plot." }), e[10] = f) : f = e[10];
-  let p;
-  e[11] === /* @__PURE__ */ Symbol.for("react.memo_cache_sentinel") ? (p = /* @__PURE__ */ t.jsx(v, { flexItem: !0 }), e[11] = p) : p = e[11];
-  let a;
-  e[12] !== w ? (a = /* @__PURE__ */ t.jsx(D, { spacing: 1.5, divider: p, children: w.map(B) }), e[12] = w, e[13] = a) : a = e[13];
-  let s;
-  e[14] !== l ? (s = /* @__PURE__ */ t.jsx(g, { mt: 3, textAlign: "right", children: /* @__PURE__ */ t.jsx(_, { onClick: l, children: "Close" }) }), e[14] = l, e[15] = s) : s = e[15];
-  let c;
-  e[16] !== i || e[17] !== a || e[18] !== s ? (c = /* @__PURE__ */ t.jsxs(g, { sx: m, children: [
-    i,
-    f,
-    a,
-    s
-  ] }), e[16] = i, e[17] = a, e[18] = s, e[19] = c) : c = e[19];
-  let x;
-  return e[20] !== l || e[21] !== h || e[22] !== c ? (x = /* @__PURE__ */ t.jsx(k, { open: h, onClose: l, children: c }), e[20] = l, e[21] = h, e[22] = c, e[23] = x) : x = e[23], x;
-};
-function I(o) {
-  return o.action;
-}
-function B(o) {
-  return /* @__PURE__ */ t.jsxs(D, { direction: "row", alignItems: "center", justifyContent: "space-between", children: [
-    /* @__PURE__ */ t.jsx(y, { variant: "body1", children: o.label }),
-    /* @__PURE__ */ t.jsx(C, { color: "primary", onClick: o.action, "aria-label": `Download ${o.label}`, children: /* @__PURE__ */ t.jsx(G, {}) })
-  ] }, o.label);
-}
+import { createContext as o, useContext as t } from "react";
+const n = o({
+  onDownload: void 0
+}), r = () => t(n);
 export {
-  P as default
+  n as DownloadContext,
+  r as useDownloadContext
 };
 //# sourceMappingURL=ui-components.es55.js.map

package/dist/ui-components.es55.js.map

@@ -1 +1 @@
-{"version":3,"file":"ui-components.es55.js","sources":["../src/components/TwoPaneLayout/DownloadModal.tsx"],"sourcesContent":["import React from \"react\";\nimport { Modal, Box, IconButton, Stack, Typography, Divider, Button } from \"@mui/material\";\nimport DownloadIcon from \"@mui/icons-material/Download\";\n\nexport interface DownloadModalProps {\n  open: boolean;\n  onClose: () => void;\n  onDownloadSVG?: () => void;\n  onDownloadPNG?: () => void;\n  plotTitle: string;\n}\n\nconst DownloadModal: React.FC<DownloadModalProps> = ({ open, onClose, onDownloadSVG, onDownloadPNG, plotTitle }) => {\n  const downloadOptions = [\n    { label: \"PNG\", action: onDownloadPNG },\n    { label: \"SVG\", action: onDownloadSVG },\n  ].filter((option) => option.action);\n\n  return (\n    <Modal open={open} onClose={onClose}>\n      <Box\n        sx={{\n          position: \"absolute\",\n          top: \"50%\",\n          left: \"50%\",\n          transform: \"translate(-50%, -50%)\",\n          bgcolor: \"background.paper\",\n          boxShadow: 24,\n          borderRadius: 2,\n          p: 3,\n          width: 360,\n        }}\n      >\n        <Typography variant=\"h6\" fontWeight={600} mb={1}>\n          Download {plotTitle}\n        </Typography>\n        <Typography variant=\"body2\" color=\"text.secondary\" mb={2}>\n          Choose a file format to export your plot.\n        </Typography>\n        <Stack spacing={1.5} divider={<Divider flexItem />}>\n          {downloadOptions.map((option) => (\n            <Stack key={option.label} direction=\"row\" alignItems=\"center\" justifyContent=\"space-between\">\n              <Typography variant=\"body1\">{option.label}</Typography>\n              <IconButton color=\"primary\" onClick={option.action} aria-label={`Download ${option.label}`}>\n                <DownloadIcon />\n              </IconButton>\n            </Stack>\n          ))}\n        </Stack>\n        <Box mt={3} textAlign=\"right\">\n          <Button onClick={onClose}>Close</Button>\n        </Box>\n      </Box>\n    </Modal>\n  );\n};\n\nexport default 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+{"version":3,"file":"ui-components.es55.js","sources":["../src/components/BiosampleTable/DownloadContext.tsx"],"sourcesContent":["import { createContext, useContext } from \"react\";\n\nexport type DownloadContextType = {\n  onDownload?: (url: string, name: string) => void;\n};\n\nexport const DownloadContext = createContext<DownloadContextType>({\n  onDownload: undefined,\n});\n\nexport const useDownloadContext = () => useContext(DownloadContext);\n"],"names":["DownloadContext","createContext","onDownload","undefined","useDownloadContext","useContext"],"mappings":";AAMO,MAAMA,IAAkBC,EAAmC;AAAA,EAChEC,YAAYC;AACd,CAAC,GAEYC,IAAqBA,MAAMC,EAAWL,CAAe;"}

package/dist/ui-components.es56.js

@@ -1,33 +1,57 @@
-import { j as c } from "./ui-components.es13.js";
-import { c as f } from "./ui-components.es14.js";
-import { useState as x } from "react";
-import b from "./ui-components.es21.js";
-function j(l) {
-  const e = f.c(9), {
-    value: t,
-    figures: n
-  } = l;
-  let r;
-  e[0] !== t ? (r = /* @__PURE__ */ new Set([t]), e[0] = t, e[1] = r) : r = e[1];
-  const [o, d] = x(r);
-  o.has(t) || d(/* @__PURE__ */ new Set([...o, t]));
-  let s;
-  if (e[2] !== n || e[3] !== o || e[4] !== t) {
-    let i;
-    e[6] !== o || e[7] !== t ? (i = (u, a) => {
-      const m = t === a, p = o.has(a);
-      return /* @__PURE__ */ c.jsx(b, { display: m ? "block" : "none", height: "100%", width: "100%", overflow: "auto", padding: 1, sx: {
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-        borderRadius: 1,
-        position: "relative"
-      }, children: p && u.component }, `figure-${a}`);
-    }, e[6] = o, e[7] = t, e[8] = i) : i = e[8], s = n.map(i), e[2] = n, e[3] = o, e[4] = t, e[5] = s;
-  } else
-    s = e[5];
-  return s;
+const s = async (e, n) => {
+  try {
+    const a = await fetch(e, {
+      method: "HEAD"
+    });
+    if (!a.ok)
+      throw new Error("Error fetching file size for " + e);
+    const t = a.headers.get("Content-Length");
+    t && n(parseInt(t, 10));
+  } catch (a) {
+    console.error(a), n(-1);
+  }
+}, o = (e) => e === -1 ? "Unknown Size" : (e / 1e6).toFixed(1) + " MB", i = (e) => {
+  switch (e) {
+    case "atac":
+      return "ATAC";
+    case "ctcf":
+      return "CTCF";
+    case "dnase":
+      return "DNase";
+    case "h3k27ac":
+      return "H3K27ac";
+    case "h3k4me3":
+      return "H3K4me3";
+  }
+};
+function f(e) {
+  const {
+    dnase: n,
+    h3k27ac: a,
+    h3k4me3: t,
+    ctcf: c,
+    atac: r
+  } = e;
+  return n && a && t && c && r ? "All assays available" : !n && !a && !t && !c && !r ? "No assays available" : `Available:
+${n ? `DNase
+` : ""}${a ? `H3K27ac
+` : ""}${t ? `H3K4me3
+` : ""}${c ? `CTCF
+` : ""}${r ? `ATAC
+` : ""}`;
 }
+const h = {
+  dnase: "#06DA93",
+  h3k27ac: "#FFCD00",
+  h3k4me3: "#FF0000",
+  ctcf: "#00B0F0",
+  atac: "#02c7b9"
+};
 export {
-  j as default
+  h as ASSAY_COLORS,
+  f as assayHoverInfo,
+  s as fetchFileSize,
+  i as formatAssay,
+  o as formatFileSize
 };
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package/dist/ui-components.es56.js.map

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+{"version":3,"file":"ui-components.es56.js","sources":["../src/components/BiosampleTable/helpers.ts"],"sourcesContent":["/**\n * \n * @param url \n * @param handleSetState \n * \n * Attempts to fetch the file size, and sets state with given fn. -1 if unsucessful\n */\nexport const fetchFileSize = async (url: string, handleSetState: (fileSize: number) => void) => {\n  try {\n    const response = await fetch(url, { method: \"HEAD\" });\n    if (!response.ok) {\n      throw new Error(\"Error fetching file size for \" + url)\n    }\n    const contentLength = response.headers.get(\"Content-Length\");\n    if (contentLength) {\n      handleSetState(parseInt(contentLength, 10));\n    }\n  } catch (error) {\n    console.error(error);\n    handleSetState(-1)\n  }\n};\n\nexport const formatFileSize = (fileSize: number) => fileSize === -1 ? \"Unknown Size\" : (fileSize / 1000000).toFixed(1) + \" MB\"\n/**\n *\n * @param assay\n * @returns Formatted assay name\n */\nexport const formatAssay = (assay: CcreAssay) => {\n  switch (assay) {\n    case \"atac\":\n      return \"ATAC\";\n    case \"ctcf\":\n      return \"CTCF\";\n    case \"dnase\":\n      return \"DNase\";\n    case \"h3k27ac\":\n      return \"H3K27ac\";\n    case \"h3k4me3\":\n      return \"H3K4me3\";\n  }\n};\n\nimport { CcreAssay } from \"./types\";\n\n/**\n *\n * @param assays\n * @returns string to display on hover above available assay wheel\n */\nexport function assayHoverInfo(assays: Record<CcreAssay, string | null>) {\n  const { dnase, h3k27ac, h3k4me3, ctcf, atac } = assays;\n\n  if (dnase && h3k27ac && h3k4me3 && ctcf && atac) {\n    return \"All assays available\";\n  } else if (!dnase && !h3k27ac && !h3k4me3 && !ctcf && !atac) {\n    return \"No assays available\";\n  } else\n    return `Available:\\n${dnase ? \"DNase\\n\" : \"\"}${h3k27ac ? \"H3K27ac\\n\" : \"\"}${h3k4me3 ? \"H3K4me3\\n\" : \"\"}${ctcf ? \"CTCF\\n\" : \"\"}${\n      atac ? \"ATAC\\n\" : \"\"\n    }`;\n}\n\nexport const ASSAY_COLORS: Record<CcreAssay, string> = {\n  dnase: \"#06DA93\",\n  h3k27ac: \"#FFCD00\",\n  h3k4me3: \"#FF0000\",\n  ctcf: \"#00B0F0\",\n  atac: \"#02c7b9\",\n};"],"names":["fetchFileSize","url","handleSetState","response","fetch","method","ok","Error","contentLength","headers","get","parseInt","error","console","formatFileSize","fileSize","toFixed","formatAssay","assay","assayHoverInfo","assays","dnase","h3k27ac","h3k4me3","ctcf","atac","ASSAY_COLORS"],"mappings":"AAOO,MAAMA,IAAgB,OAAOC,GAAaC,MAA+C;AAC9F,MAAI;AACF,UAAMC,IAAW,MAAMC,MAAMH,GAAK;AAAA,MAAEI,QAAQ;AAAA,IAAA,CAAQ;AACpD,QAAI,CAACF,EAASG;AACZ,YAAM,IAAIC,MAAM,kCAAkCN,CAAG;AAEvD,UAAMO,IAAgBL,EAASM,QAAQC,IAAI,gBAAgB;AAC3D,IAAIF,KACFN,EAAeS,SAASH,GAAe,EAAE,CAAC;AAAA,EAE9C,SAASI,GAAO;AACdC,YAAQD,MAAMA,CAAK,GACnBV,EAAe,EAAE;AAAA,EACnB;AACF,GAEaY,IAAiBA,CAACC,MAAqBA,MAAa,KAAK,kBAAkBA,IAAW,KAASC,QAAQ,CAAC,IAAI,OAM5GC,IAAcA,CAACC,MAAqB;AAC/C,UAAQA,GAAAA;AAAAA,IACN,KAAK;AACH,aAAO;AAAA,IACT,KAAK;AACH,aAAO;AAAA,IACT,KAAK;AACH,aAAO;AAAA,IACT,KAAK;AACH,aAAO;AAAA,IACT,KAAK;AACH,aAAO;AAAA,EAAA;AAEb;AASO,SAASC,EAAeC,GAA0C;AACvE,QAAM;AAAA,IAAEC,OAAAA;AAAAA,IAAOC,SAAAA;AAAAA,IAASC,SAAAA;AAAAA,IAASC,MAAAA;AAAAA,IAAMC,MAAAA;AAAAA,EAAAA,IAASL;AAEhD,SAAIC,KAASC,KAAWC,KAAWC,KAAQC,IAClC,yBACE,CAACJ,KAAS,CAACC,KAAW,CAACC,KAAW,CAACC,KAAQ,CAACC,IAC9C,wBAEA;AAAA,EAAeJ,IAAQ;AAAA,IAAY,EAAE,GAAGC,IAAU;AAAA,IAAc,EAAE,GAAGC,IAAU;AAAA,IAAc,EAAE,GAAGC,IAAO;AAAA,IAAW,EAAE,GAC3HC,IAAO;AAAA,IAAW,EAAE;AAE1B;AAEO,MAAMC,IAA0C;AAAA,EACrDL,OAAO;AAAA,EACPC,SAAS;AAAA,EACTC,SAAS;AAAA,EACTC,MAAM;AAAA,EACNC,MAAM;AACR;"}

package/dist/ui-components.es57.js

@@ -1,9 +1,165 @@
-import { createContext as o, useContext as t } from "react";
-const n = o({
-  onDownload: void 0
-}), r = () => t(n);
+import { j as l } from "./ui-components.es15.js";
+import { c as de } from "./ui-components.es16.js";
+import { Box as fe, Divider as me, Typography as ge, IconButton as pe, Tooltip as he, DialogTitle as ue, Checkbox as X, FormControlLabel as Y, DialogContent as xe, Stack as be, Button as Z, DialogActions as je, Dialog as Ce } from "@mui/material";
+import { useState as S } from "react";
+import { Download as _e } from "@mui/icons-material";
+import { ontologyDownloadMap as we } from "./ui-components.es107.js";
+import { formatFileSize as ee, fetchFileSize as le } from "./ui-components.es56.js";
+import { useDownloadContext as De } from "./ui-components.es55.js";
+const ke = (n) => {
+  const e = n.toLowerCase().replace(/\s+/g, "_");
+  return we[e] ?? [];
+}, Oe = (n) => {
+  const e = de.c(66), {
+    ontology: o
+  } = n, [I, F] = S(!1), [c, te] = S(!1), [r, oe] = S(!1), [D, ne] = S(null), [k, ie] = S(null), {
+    onDownload: A
+  } = De();
+  let t, i, E;
+  e[0] !== o ? (t = ke(o), i = t.find(ye)?.filename ?? void 0, E = t.find(Se)?.filename ?? void 0, e[0] = o, e[1] = t, e[2] = i, e[3] = E) : (t = e[1], i = e[2], E = e[3]);
+  const a = E;
+  let v;
+  e[4] !== a || e[5] !== k || e[6] !== i || e[7] !== D ? (v = () => {
+    i && !D && le(`https://downloads.wenglab.org/${i}`, ne), a && !k && le(`https://downloads.wenglab.org/${a}`, ie), F(!0);
+  }, e[4] = a, e[5] = k, e[6] = i, e[7] = D, e[8] = v) : v = e[8];
+  const U = v;
+  let $;
+  e[9] !== r || e[10] !== a || e[11] !== t || e[12] !== i || e[13] !== c || e[14] !== A || e[15] !== o ? ($ = () => {
+    if (!t || t.length === 0)
+      return;
+    const s = [];
+    c && i && s.push({
+      filename: i,
+      label: "excluding_cancer_cell_lines"
+    }), r && a && s.push({
+      filename: a,
+      label: "all_biosamples"
+    }), s.forEach((se, ae) => {
+      const {
+        filename: V,
+        label: ce
+      } = se, W = `https://downloads.wenglab.org/${V}`;
+      setTimeout(() => {
+        if (A) {
+          const re = `${o}_aggregate_ccres_${ce}`;
+          A(W, re);
+        }
+        const y = document.createElement("a");
+        y.href = W, y.download = V, document.body.appendChild(y), y.click(), document.body.removeChild(y);
+      }, ae * 500);
+    });
+  }, e[9] = r, e[10] = a, e[11] = t, e[12] = i, e[13] = c, e[14] = A, e[15] = o, e[16] = $) : $ = e[16];
+  const M = $;
+  let d;
+  e[17] !== t || e[18] !== o ? (d = t.length === 0 ? "No Aggregate cCRE Download Options" : /* @__PURE__ */ l.jsxs(fe, { children: [
+    "Download cCREs in ",
+    o.charAt(0).toUpperCase() + o.slice(1),
+    ":",
+    /* @__PURE__ */ l.jsx("ul", { style: {
+      margin: 0,
+      paddingLeft: 16
+    }, children: t.map(Fe) }),
+    "(Opens Download Dialog)"
+  ] }), e[17] = t, e[18] = o, e[19] = d) : d = e[19];
+  let f;
+  e[20] !== U ? (f = (s) => {
+    s.stopPropagation(), U();
+  }, e[20] = U, e[21] = f) : f = e[21];
+  const q = t.length === 0;
+  let R;
+  e[22] === /* @__PURE__ */ Symbol.for("react.memo_cache_sentinel") ? (R = /* @__PURE__ */ l.jsx(_e, {}), e[22] = R) : R = e[22];
+  let m;
+  e[23] !== f || e[24] !== q ? (m = /* @__PURE__ */ l.jsx("span", { children: /* @__PURE__ */ l.jsx(pe, { onClick: f, disabled: q, children: R }) }), e[23] = f, e[24] = q, e[25] = m) : m = e[25];
+  let g;
+  e[26] !== d || e[27] !== m ? (g = /* @__PURE__ */ l.jsx(he, { title: d, placement: "left", arrow: !0, children: m }), e[26] = d, e[27] = m, e[28] = g) : g = e[28];
+  let T;
+  e[29] === /* @__PURE__ */ Symbol.for("react.memo_cache_sentinel") ? (T = (s) => {
+    s.stopPropagation(), F(!1);
+  }, e[29] = T) : T = e[29];
+  let z;
+  e[30] === /* @__PURE__ */ Symbol.for("react.memo_cache_sentinel") ? (z = {
+    backdrop: {
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+        backdropFilter: "blur(2px)"
+      }
+    }
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 export {
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+  Oe as AggregateDownloadButton,
+  ke as getAvailableFiles
 };
 //# sourceMappingURL=ui-components.es57.js.map

package/dist/ui-components.es57.js.map

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