@weng-lab/ui-components 3.0.1 → 3.1.1

package/dist/ui-components.es58.js.map

@@ -1 +1 @@
-{"version":3,"file":"ui-components.es58.js","sources":["../src/components/GenomeSearch/utils.ts"],"sourcesContent":["import { CCREResponse, GeneResponse, ICREResponse, LegacyCcreResponse, Result, ResultType, SnpResponse, StudyResponse } from \"./types\";\n\n/**\n * Get the coordinates from a string input.\n * @param input - The input string to search for coordinates\n * @param assembly - The assembly to search for coordinates\n * @returns An array of results with the coordinates\n */\nexport function getCoordinates(input: string, assembly: string): Result[] {\n  const results: Result[] = [];\n  input = input.replace(/,/g, \"\");\n\n  let chromosome: string, start: number, end: number;\n\n  if (input.includes(\":\") && input.includes(\"-\")) {\n    chromosome = input.split(\":\")[0];\n    start = parseInt(input.split(\":\")[1].split(\"-\")[0]) || 0;\n    end = parseInt(input.split(\":\")[1].split(\"-\")[1]) || start + 1000;\n  } else if (input.includes(\"\\t\")) {\n    const [chr, startStr, endStr] = input.split(\"\\t\");\n    chromosome = chr;\n    start = parseInt(startStr);\n    end = parseInt(endStr);\n  } else {\n    return results;\n  }\n\n  // Normalize chromosome name to use capital X and Y\n  const normalizedChromosome = chromosome.replace(/chrx$/, \"chrX\").replace(/chry$/, \"chrY\");\n\n  const chrLength = chromosomeLengths[assembly][normalizedChromosome];\n  if (end > start && chrLength && end <= chrLength) {\n    results.push({\n      title: `${normalizedChromosome}:${start.toLocaleString()}-${end.toLocaleString()}`,\n      domain: {\n        chromosome: normalizedChromosome,\n        start: start,\n        end: end,\n      },\n      description: `${normalizedChromosome}:${start.toLocaleString()}-${end.toLocaleString()}`,\n      type: \"Coordinate\",\n    });\n  }\n\n  return results;\n}\n\n// Common interface for result formatting options\ninterface ResultFormatterOptions<T> {\n  getTitle: (result: T) => string;\n  getDescription: (result: T) => string;\n  type: string;\n}\n\n// Generic formatter function\nfunction formatResults<T extends { coordinates: { chromosome: string; start: number; end: number } }>(\n  results: T[] | null,\n  limit: number,\n  options: ResultFormatterOptions<T>\n): Result[] {\n  if (!results) {\n    return [];\n  }\n  return results.slice(0, limit).map((result) => ({\n    title: options.getTitle(result),\n    description: options.getDescription(result),\n    domain: {\n      chromosome: result.coordinates.chromosome,\n      start: result.coordinates.start,\n      end: result.coordinates.end,\n    },\n    type: options.type as ResultType,\n  }));\n}\n\n// Specific formatters using the generic function\nexport function snpResultList(results: SnpResponse[], limit: number): Result[] {\n  return formatResults(results, limit, {\n    getTitle: (result) => result.id,\n    getDescription: (result) =>\n      `${result.coordinates.chromosome}:${result.coordinates.start}-${result.coordinates.end}`,\n    type: \"SNP\",\n  });\n}\n\nexport function geneResultList(results: GeneResponse[], limit: number, showVersions: boolean): Result[] {\n  return formatResults(results, limit, {\n    getTitle: (result) => result.name,\n    getDescription: (result) => {\n      let idStr = \"\";\n      result.versions.forEach(\n        (x, i) => (idStr += \"V\" + x.version + \" \" + x.id + (i === result.versions.length - 1 ? \"\" : \"\\n\"))\n      );\n      return `${result.description}\\n${idStr}\\n${result.coordinates.chromosome}:${result.coordinates.start}-${result.coordinates.end}`;\n    },\n    type: \"Gene\",\n  });\n}\n\nexport function studyResultList(results: StudyResponse[], limit: number): Result[] {\n  return results.slice(0, limit).map((result) => ({\n    title: result.disease_trait,\n    description: `${result.author.replace(\"_\", \" \")} (${result.studyid.split(\"-\")[1]})\\n${result.parent_terms.join(\",\")}\\n ${result.has_enrichment_info ? \"Biosample Enrichment\" : \"\"}`,\n    domain: undefined,\n    id: result.studyid,\n    type: \"Study\",\n  }));\n}\n\nexport function omeResultsList(results: OmeOption[]): Result[] {\n  return results.map((ome) => ({\n    title: ome.label,\n    description: ome.description ?? \"\",\n    domain: undefined,\n    id: ome.value,\n    type: \"Ome\",\n  }));\n}\n\nexport function icreResultList(results: ICREResponse[], limit: number): Result[] {\n  return formatResults(results, limit, {\n    getTitle: (result) => result.accession,\n    getDescription: (result) =>\n      `${result.coordinates.chromosome}:${result.coordinates.start}-${result.coordinates.end}`,\n    type: \"iCRE\",\n  });\n}\n\nexport function ccreResultList(results: CCREResponse[], limit: number): Result[] {\n  return formatResults(results, limit, {\n    getTitle: (result) => result.accession,\n    getDescription: (result) =>\n      `${result.coordinates.chromosome}:${result.coordinates.start}-${\n        result.coordinates.end\n      }${result.isiCRE ? \", iCRE\" : \"\"}`,\n    type: \"cCRE\",\n  });\n}\n\nexport function legacyCcreResultList(results: LegacyCcreResponse[], limit: number): Result[] {\n  return results\n    .filter((result) => result.input !== result.v4_match_or_intersecting) //filter v4 cCREs\n    .slice(0, limit)\n    .map((result) => {\n      const region = result.input_region;\n      const overlapping = result.v4_match_or_intersecting\n      return {\n        title: result.input,\n        // !!! Do not change this format without also modifying SCREEN's /search page. This specific formatting is relied upon\n        // At most two overlapping v4 cCREs are ever returned, so a single (non-global) comma replace is sufficient for the \"a, b\" rendering.\n        description: `(Registry ${result.input_latest_previous_version})\\n${result.input_region}\\n${overlapping ? `Intersects v4 cCRE${overlapping.includes(\",\") ? \"s\" : \"\"}: ${overlapping.replace(\",\", \", \")}` : \"No intersecting v4 cCREs\"}`,\n        domain: {\n          chromosome: region.split(\":\")[0],\n          start: parseInt(region.split(\":\")[1].split(\"-\")[0]),\n          end: parseInt(region.split(\":\")[1].split(\"-\")[1]),\n        },\n        type: \"Legacy cCRE\",\n      };\n    });\n}\n\nexport interface OmeOption {\n  label: string;\n  value: string;\n  keywords?: string[];\n  description?: string;\n}\n//allows the user to search more freely and get the result they are looking for\n//will look at label as well as keywords\nexport const OmesList: OmeOption[] = [\n  {\n    label: \"Proteomics\",\n    value: \"proteomics\",\n    keywords: [\"protein\", \"mass spec\"],\n  },\n  {\n    label: \"WGS\",\n    value: \"WGS\",\n    keywords: [\"whole genome sequencing\", \"genome sequencing\", \"genomics\"],\n    description: \"Whole Genome Sequencing\"\n  },\n  {\n    label: \"WGBS\",\n    value: \"WGBS\",\n    keywords: [\"whole genome bisulfite sequencing\", \"epigenomics\", \"methylation\"],\n    description: \"Whole Genome Bisulfite Sequencing\"\n  },\n  {\n    label: \"ATAC\",\n    value: \"ATAC\",\n    keywords: [\"chromatin accessibility\", \"atac-seq\"],\n    description: \"ATAC-seq\"\n  },\n  {\n    label: \"RNA\",\n    value: \"RNA\",\n    keywords: [\"rna-seq\", \"transcriptomics\", \"gene expression\"],\n    description: \"RNA-seq\"\n  },\n  {\n    label: \"Metabolomics\",\n    value: \"metabolomics\",\n  },\n  {\n    label: \"Lipidomics\",\n    value: \"lipidomics\",\n  },\n  {\n    label: \"Metallomics\",\n    value: \"metallomics\",\n  },\n  {\n  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getIconButtonUtilityClass } from \"./iconButtonClasses.js\";\nimport { jsx as _jsx, jsxs as _jsxs } from \"react/jsx-runtime\";\nconst useUtilityClasses = ownerState => {\n  const {\n    classes,\n    disabled,\n    color,\n    edge,\n    size,\n    loading\n  } = ownerState;\n  const slots = {\n    root: ['root', loading && 'loading', disabled && 'disabled', color !== 'default' && `color${capitalize(color)}`, edge && `edge${capitalize(edge)}`, `size${capitalize(size)}`],\n    loadingIndicator: ['loadingIndicator'],\n    loadingWrapper: ['loadingWrapper']\n  };\n  return composeClasses(slots, getIconButtonUtilityClass, classes);\n};\nconst IconButtonRoot = styled(ButtonBase, {\n  name: 'MuiIconButton',\n  slot: 'Root',\n  overridesResolver: (props, styles) => {\n    const {\n      ownerState\n    } = props;\n    return [styles.root, ownerState.loading && styles.loading, ownerState.color !== 'default' && styles[`color${capitalize(ownerState.color)}`], ownerState.edge && styles[`edge${capitalize(ownerState.edge)}`], styles[`size${capitalize(ownerState.size)}`]];\n  }\n})(memoTheme(({\n  theme\n}) => ({\n  textAlign: 'center',\n  flex: '0 0 auto',\n  fontSize: theme.typography.pxToRem(24),\n  padding: 8,\n  borderRadius: '50%',\n  color: (theme.vars || theme).palette.action.active,\n  transition: theme.transitions.create('background-color', {\n    duration: theme.transitions.duration.shortest\n  }),\n  variants: [{\n    props: props => !props.disableRipple,\n    style: {\n      '--IconButton-hoverBg': theme.alpha((theme.vars || theme).palette.action.active, (theme.vars || theme).palette.action.hoverOpacity),\n      '&:hover': {\n        backgroundColor: 'var(--IconButton-hoverBg)',\n        // Reset on touch devices, it doesn't add specificity\n        '@media (hover: none)': {\n          backgroundColor: 'transparent'\n        }\n      }\n    }\n  }, {\n    props: {\n      edge: 'start'\n    },\n    style: {\n      marginLeft: -12\n    }\n  }, {\n    props: {\n      edge: 'start',\n      size: 'small'\n    },\n    style: {\n      marginLeft: -3\n    }\n  }, {\n    props: {\n      edge: 'end'\n    },\n    style: {\n      marginRight: -12\n    }\n  }, {\n    props: {\n      edge: 'end',\n      size: 'small'\n    },\n    style: {\n      marginRight: -3\n    }\n  }]\n})), memoTheme(({\n  theme\n}) => ({\n  variants: [{\n    props: {\n      color: 'inherit'\n    },\n    style: {\n      color: 'inherit'\n    }\n  }, ...Object.entries(theme.palette).filter(createSimplePaletteValueFilter()) // check all the used fields in the style below\n  .map(([color]) => ({\n    props: {\n      color\n    },\n    style: {\n      color: (theme.vars || theme).palette[color].main\n    }\n  })), ...Object.entries(theme.palette).filter(createSimplePaletteValueFilter()) // check all the used fields in the style below\n  .map(([color]) => ({\n    props: {\n      color\n    },\n    style: {\n      '--IconButton-hoverBg': theme.alpha((theme.vars || theme).palette[color].main, (theme.vars || theme).palette.action.hoverOpacity)\n    }\n  })), {\n    props: {\n      size: 'small'\n    },\n    style: {\n      padding: 5,\n      fontSize: theme.typography.pxToRem(18)\n    }\n  }, {\n    props: {\n      size: 'large'\n    },\n    style: {\n      padding: 12,\n      fontSize: theme.typography.pxToRem(28)\n    }\n  }],\n  [`&.${iconButtonClasses.disabled}`]: {\n    backgroundColor: 'transparent',\n    color: (theme.vars || theme).palette.action.disabled\n  },\n  [`&.${iconButtonClasses.loading}`]: {\n    color: 'transparent'\n  }\n})));\nconst IconButtonLoadingIndicator = styled('span', {\n  name: 'MuiIconButton',\n  slot: 'LoadingIndicator'\n})(({\n  theme\n}) => ({\n  display: 'none',\n  position: 'absolute',\n  visibility: 'visible',\n  top: '50%',\n  left: '50%',\n  transform: 'translate(-50%, -50%)',\n  color: (theme.vars || theme).palette.action.disabled,\n  variants: [{\n    props: {\n      loading: true\n    },\n    style: {\n      display: 'flex'\n    }\n  }]\n}));\n\n/**\n * Refer to the [Icons](/material-ui/icons/) section of the documentation\n * regarding the available icon options.\n */\nconst IconButton = /*#__PURE__*/React.forwardRef(function IconButton(inProps, ref) {\n  const props = useDefaultProps({\n    props: inProps,\n    name: 'MuiIconButton'\n  });\n  const {\n    edge = false,\n    children,\n    className,\n    color = 'default',\n    disabled = false,\n    disableFocusRipple = false,\n    size = 'medium',\n    id: idProp,\n    loading = null,\n    loadingIndicator: loadingIndicatorProp,\n    ...other\n  } = props;\n  const loadingId = useId(idProp);\n  const loadingIndicator = loadingIndicatorProp ?? /*#__PURE__*/_jsx(CircularProgress, {\n    \"aria-labelledby\": loadingId,\n    color: \"inherit\",\n    size: 16\n  });\n  const ownerState = {\n    ...props,\n    edge,\n    color,\n    disabled,\n    disableFocusRipple,\n    loading,\n    loadingIndicator,\n    size\n  };\n  const classes = useUtilityClasses(ownerState);\n  return /*#__PURE__*/_jsxs(IconButtonRoot, {\n    id: loading ? loadingId : idProp,\n    className: clsx(classes.root, className),\n    centerRipple: true,\n    focusRipple: !disableFocusRipple,\n    disabled: disabled || loading,\n    ref: ref,\n    ...other,\n    ownerState: ownerState,\n    children: [typeof loading === 'boolean' &&\n    /*#__PURE__*/\n    // use plain HTML span to minimize the runtime overhead\n    _jsx(\"span\", {\n      className: classes.loadingWrapper,\n      style: {\n        display: 'contents'\n      },\n      children: /*#__PURE__*/_jsx(IconButtonLoadingIndicator, {\n        className: classes.loadingIndicator,\n        ownerState: ownerState,\n        children: loading && loadingIndicator\n      })\n    }), children]\n  });\n});\nprocess.env.NODE_ENV !== \"production\" ? IconButton.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   * The icon to display.\n   */\n  children: chainPropTypes(PropTypes.node, props => {\n    const found = React.Children.toArray(props.children).some(child => /*#__PURE__*/React.isValidElement(child) && child.props.onClick);\n    if (found) {\n      return new Error(['MUI: You are providing an onClick event listener to a child of a button element.', 'Prefer applying it to the IconButton directly.', 'This guarantees that the whole <button> will be responsive to click events.'].join('\\n'));\n    }\n    return null;\n  }),\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 'default'\n   */\n  color: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf(['inherit', 'default', 'primary', 'secondary', 'error', 'info', 'success', 'warning']), PropTypes.string]),\n  /**\n   * If `true`, the component is disabled.\n   * @default false\n   */\n  disabled: PropTypes.bool,\n  /**\n   * If `true`, the  keyboard focus ripple is disabled.\n   * @default false\n   */\n  disableFocusRipple: PropTypes.bool,\n  /**\n   * If `true`, the ripple effect is disabled.\n   *\n   * ⚠️ Without a ripple there is no styling for :focus-visible by default. Be sure\n   * to highlight the element by applying separate styles with the `.Mui-focusVisible` class.\n   * @default false\n   */\n  disableRipple: PropTypes.bool,\n  /**\n   * If given, uses a negative margin to counteract the padding on one\n   * side (this is often helpful for aligning the left or right\n   * side of the icon with content above or below, without ruining the border\n   * size and shape).\n   * @default false\n   */\n  edge: PropTypes.oneOf(['end', 'start', false]),\n  /**\n   * @ignore\n   */\n  id: PropTypes.string,\n  /**\n   * If `true`, the loading indicator is visible and the button is disabled.\n   * If `true | false`, the loading wrapper is always rendered before the children to prevent [Google Translation Crash](https://github.com/mui/material-ui/issues/27853).\n   * @default null\n   */\n  loading: PropTypes.bool,\n  /**\n   * Element placed before the children if the button is in loading state.\n   * The node should contain an element with `role=\"progressbar\"` with an accessible name.\n   * By default, it renders a `CircularProgress` that is labeled by the button itself.\n   * @default <CircularProgress color=\"inherit\" size={16} />\n   */\n  loadingIndicator: PropTypes.node,\n  /**\n   * The size of the component.\n   * `small` is equivalent to the dense button styling.\n   * @default 'medium'\n   */\n  size: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf(['small', 'medium', 'large']), PropTypes.string]),\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} : void 0;\nexport default 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package/dist/ui-components.es59.js

@@ -1,248 +1,124 @@
-const d = `
-  query suggestions($assembly: String!, $snpid: String!, $limit: Int) {
-    snpAutocompleteQuery(assembly: $assembly, snpid: $snpid, limit: $limit) {
-      id
-      coordinates {
-        chromosome
-        start
-        end
-      }
-    }
-  }
-`, u = `
-  query Genes(
-      $name_prefix: [String!]
-      $idprefix: [String!]
-      $limit: Int
-      $assembly: String!
-      $version: Int
-  ) {
-      gene(
-          name_prefix: $name_prefix
-          idprefix: $idprefix
-          limit: $limit
-          assembly: $assembly
-          orderby: "name"
-          version: $version
-      ) {
-          id
-          name
-          coordinates {
-              chromosome
-              start
-              end
-          }
-      }
+import * as d from "react";
+import o from "./ui-components.es91.js";
+import { clsx as f } from "./ui-components.es92.js";
+import u from "./ui-components.es110.js";
+import { getToolbarUtilityClass as g } from "./ui-components.es183.js";
+import { j as b } from "./ui-components.es16.js";
+import { useDefaultProps as v } from "./ui-components.es95.js";
+import T from "./ui-components.es103.js";
+import y from "./ui-components.es56.js";
+const x = (s) => {
+  const {
+    classes: t,
+    disableGutters: r,
+    variant: e
+  } = s;
+  return T({
+    root: ["root", !r && "gutters", e]
+  }, g, t);
+}, R = y("div", {
+  name: "MuiToolbar",
+  slot: "Root",
+  overridesResolver: (s, t) => {
+    const {
+      ownerState: r
+    } = s;
+    return [t.root, !r.disableGutters && t.gutters, t[r.variant]];
   }
-`, _ = `
-  query iCREQuery($accession_prefix: [String!], $limit: Int) {
-      iCREQuery(accession_prefix: $accession_prefix, limit: $limit) {
-          rdhs
-          accession
-          celltypes
-          coordinates {
-              start
-              end
-              chromosome
-          }
+})(u(({
+  theme: s
+}) => ({
+  position: "relative",
+  display: "flex",
+  alignItems: "center",
+  variants: [{
+    props: ({
+      ownerState: t
+    }) => !t.disableGutters,
+    style: {
+      paddingLeft: s.spacing(2),
+      paddingRight: s.spacing(2),
+      [s.breakpoints.up("sm")]: {
+        paddingLeft: s.spacing(3),
+        paddingRight: s.spacing(3)
       }
-  }
-`, h = `
-  query cCREAutocompleteQuery(
-    $accession: [String!]
-    $accession_prefix: [String!]
-    $assembly: String!
-    $includeiCREs: Boolean
-    $limit: Int
-  ) {
-    cCREAutocompleteQuery(
-      includeiCREs: $includeiCREs
-      assembly: $assembly
-      limit: $limit
-      accession: $accession
-      accession_prefix: $accession_prefix
-    ) {
-      accession
-      isiCRE
-      coordinates {
-        chromosome
-        start
-        end
-      }
-    }
-  }
-`, C = `
-  query getv2v3CcreMapping($accessions: [String], $assembly: String!) {
-    ccreMappings: getv2cCREMappings(
-      v2_accession: $accessions
-      assembly: $assembly
-    ) {
-      input: v2_accession
-      input_latest_previous_version: ccre_version
-      input_region: v2_region
-      v4_match_or_intersecting: v4_accession
-      v4_region
     }
-  }
-`, g = `
-query getGWASStudyMetadata($limit: Int, $studyname_prefix: [String]){
-    getGWASStudiesMetadata(limit: $limit, studyname_prefix: $studyname_prefix )
-    {
-        studyid
-        author
-        disease_trait
-        has_enrichment_info
-        population
-        parent_terms
-        total_ld_blocks
-        ld_blocks_overlapping_ccres
-        overlapping_ccres
-    }
-}
-`, b = async (e, s, i, t) => (await fetch(i, {
-  method: "POST",
-  body: JSON.stringify({
-    query: _,
-    variables: {
-      accession_prefix: [e],
-      limit: s
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: t
-})).json(), v = async (e, s, i, t, n, p) => {
-  const a = e.length === 12;
-  return (await fetch(n, {
-    method: "POST",
-    body: JSON.stringify({
-      query: h,
-      variables: {
-        ...a ? {
-          accession: [e.toUpperCase()]
-        } : {
-          accession_prefix: [e]
-        },
-        assembly: s,
-        limit: i,
-        includeiCREs: t
-      }
-    }),
-    headers: {
-      "Content-Type": "application/json"
+  }, {
+    props: {
+      variant: "dense"
     },
-    signal: p
-  })).json();
-}, R = async (e, s, i, t) => (await fetch(i, {
-  method: "POST",
-  body: JSON.stringify({
-    query: C,
-    variables: {
-      accessions: [e],
-      assembly: s
+    style: {
+      minHeight: 48
     }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: t
-})).json(), x = async (e, s, i, t, n, p) => {
-  let a = t ? typeof t == "number" ? [t] : t : [s === "GRCh38" ? 40 : 25];
-  a = a.sort((o, r) => r - o);
-  const m = await Promise.all(a.map((o) => fetch(n, {
-    method: "POST",
-    body: JSON.stringify({
-      query: u,
-      variables: {
-        assembly: s.toLowerCase(),
-        ...s.toLowerCase() === "mm10" && e.toUpperCase().startsWith("ENSMUSG") || s.toLowerCase() === "grch38" && e.toUpperCase().startsWith("ENSG") ? {
-          idprefix: e.split(".")[0]
-        } : {
-          name_prefix: e
-        },
-        version: o,
-        limit: i
-      }
-    }),
-    headers: {
-      "Content-Type": "application/json"
+  }, {
+    props: {
+      variant: "regular"
     },
-    signal: p
-  }).then((r) => r.json()))), l = /* @__PURE__ */ new Map();
-  return m.forEach((o, r) => {
-    (o.data.gene || []).forEach((c) => {
-      l.has(c.name) ? l.get(c.name).versions.push({
-        id: c.id,
-        version: a[r]
-      }) : l.set(c.name, {
-        gene: c,
-        versions: [{
-          id: c.id,
-          version: a[r]
-        }]
-      });
-    });
-  }), await Promise.all(Array.from(l.values()).map(async ({
-    gene: o,
-    versions: r
-  }) => {
-    const y = await E(o.name);
-    return {
-      ...o,
-      description: `${f(y || o.name)}`,
-      versions: r
-    };
-  }));
-}, f = (e) => e.split(" ").map((s) => s.charAt(0).toUpperCase() + s.slice(1)).join(" ");
-async function E(e) {
-  try {
-    const i = await (await fetch("https://clinicaltables.nlm.nih.gov/api/ncbi_genes/v3/search?authenticity_token=&terms=" + e.toUpperCase())).json(), t = i[3] && i[3].filter((n) => n[3] === e.toUpperCase());
-    return t && t.length >= 1 ? t[0][4] : null;
-  } catch {
-    return null;
-  }
-}
-const T = async (e, s, i, t, n) => (await fetch(t, {
-  method: "POST",
-  body: JSON.stringify({
-    query: d,
-    variables: {
-      assembly: s.toLowerCase(),
-      snpid: e,
-      limit: i
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: n
-})).json(), O = async (e, s, i, t) => (await fetch(i, {
-  method: "POST",
-  body: JSON.stringify({
-    query: g,
-    variables: {
-      studyname_prefix: [e],
-      limit: s
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: t
-})).json();
+    style: s.mixins.toolbar
+  }]
+}))), j = /* @__PURE__ */ d.forwardRef(function(t, r) {
+  const e = v({
+    props: t,
+    name: "MuiToolbar"
+  }), {
+    className: a,
+    component: n = "div",
+    disableGutters: p = !1,
+    variant: l = "regular",
+    ...c
+  } = e, i = {
+    ...e,
+    component: n,
+    disableGutters: p,
+    variant: l
+  }, m = x(i);
+  return /* @__PURE__ */ b.jsx(R, {
+    as: n,
+    className: f(m.root, a),
+    ref: r,
+    ownerState: i,
+    ...c
+  });
+});
+process.env.NODE_ENV !== "production" && (j.propTypes = {
+  // ┌────────────────────────────── Warning ──────────────────────────────┐
+  // │ These PropTypes are generated from the TypeScript type definitions. │
+  // │    To update them, edit the d.ts file and run `pnpm proptypes`.     │
+  // └─────────────────────────────────────────────────────────────────────┘
+  /**
+   * The Toolbar children, usually a mixture of `IconButton`, `Button` and `Typography`.
+   * The Toolbar is a flex container, allowing flex item properties to be used to lay out the children.
+   */
+  children: o.node,
+  /**
+   * Override or extend the styles applied to the component.
+   */
+  classes: o.object,
+  /**
+   * @ignore
+   */
+  className: o.string,
+  /**
+   * The component used for the root node.
+   * Either a string to use a HTML element or a component.
+   */
+  component: o.elementType,
+  /**
+   * If `true`, disables gutter padding.
+   * @default false
+   */
+  disableGutters: o.bool,
+  /**
+   * The system prop that allows defining system overrides as well as additional CSS styles.
+   */
+  sx: o.oneOfType([o.arrayOf(o.oneOfType([o.func, o.object, o.bool])), o.func, o.object]),
+  /**
+   * The variant to use.
+   * @default 'regular'
+   */
+  variant: o.oneOfType([o.oneOf(["dense", "regular"]), o.string])
+});
 export {
-  h as CCRE_AUTOCOMPLETE_QUERY,
-  u as GENE_AUTOCOMPLETE_QUERY,
-  g as GWAS_AUTOCOMPLETE_QUERY,
-  _ as ICRE_AUTOCOMPLETE_QUERY,
-  C as LEGACY_CCRE_QUERY,
-  d as SNP_AUTOCOMPLETE_QUERY,
-  v as getCCREs,
-  x as getGenes,
-  b as getICREs,
-  R as getLegacyCCREs,
-  T as getSNPs,
-  O as getStudys
+  j as default
 };
 //# sourceMappingURL=ui-components.es59.js.map

package/dist/ui-components.es59.js.map

@@ -1 +1 @@
-{"version":3,"file":"ui-components.es59.js","sources":["../src/components/GenomeSearch/queries.ts"],"sourcesContent":["import { GenomeSearchProps } from \"./types\";\n\nexport const SNP_AUTOCOMPLETE_QUERY = `\n  query suggestions($assembly: String!, $snpid: String!, $limit: Int) {\n    snpAutocompleteQuery(assembly: $assembly, snpid: $snpid, limit: $limit) {\n      id\n      coordinates {\n        chromosome\n        start\n        end\n      }\n    }\n  }\n`;\n\nexport const GENE_AUTOCOMPLETE_QUERY = `\n  query Genes(\n      $name_prefix: [String!]\n      $idprefix: [String!]\n      $limit: Int\n      $assembly: String!\n      $version: Int\n  ) {\n      gene(\n          name_prefix: $name_prefix\n          idprefix: $idprefix\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: [String!]\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: $accession\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: $assembly\n    ) {\n      input: v2_accession\n      input_latest_previous_version: ccre_version\n      input_region: v2_region\n      v4_match_or_intersecting: v4_accession\n      v4_region\n    }\n  }\n`\n\nexport const GWAS_AUTOCOMPLETE_QUERY = `\nquery getGWASStudyMetadata($limit: Int, $studyname_prefix: [String]){\n    getGWASStudiesMetadata(limit: $limit, 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, url: string, signal?: AbortSignal) => {\n  const response = await fetch(url, {\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, url: string, signal?: AbortSignal) => {\n  const isExactAccession = value.length === 12;\n  const response = await fetch(url, {\n    method: \"POST\",\n    body: JSON.stringify({\n      query: CCRE_AUTOCOMPLETE_QUERY,\n      variables: {\n        ...(isExactAccession\n          ? { accession: [value.toUpperCase()] }\n          : { accession_prefix: [value] }),\n        assembly,\n        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\"], url: string, signal?: AbortSignal) => {\n  const response = await fetch(url, {\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  url: string,\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(url, {\n      method: \"POST\",\n      body: JSON.stringify({\n        query: GENE_AUTOCOMPLETE_QUERY,\n        variables: {\n          assembly: assembly.toLowerCase(),\n          ...(\n            (\n              (assembly.toLowerCase() === \"mm10\" && value.toUpperCase().startsWith(\"ENSMUSG\")) ||\n              (assembly.toLowerCase() === \"grch38\" && value.toUpperCase().startsWith(\"ENSG\"))\n            )\n              ? { idprefix: value.split(\".\")[0] }\n              : { name_prefix: value }\n          ),\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  try {\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  } catch {\n    return null;\n  }\n}\n\nexport const getSNPs = async (value: string, assembly: GenomeSearchProps[\"assembly\"], limit: number, url: string, signal?: AbortSignal) => {\n  const response = await fetch(url, {\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, url: string, signal?: AbortSignal) => {\n  const response = await fetch(url, {\n    method: \"POST\",\n    body: JSON.stringify({\n      query: GWAS_AUTOCOMPLETE_QUERY,\n      variables: {\n        studyname_prefix: [value],\n        limit,\n      },\n    }),\n    headers: { \"Content-Type\": \"application/json\" },\n    signal,\n  });\n\n  return 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package/dist/ui-components.es6.js

@@ -1,11 +1,11 @@
-import { j as t } from "./ui-components.es15.js";
-import { c as ve } from "./ui-components.es16.js";
+import { j as t } from "./ui-components.es16.js";
+import { c as ve } from "./ui-components.es23.js";
 import { TableChartRounded as He, CloseFullscreenRounded as Be, DragHandle as Ve } from "@mui/icons-material";
 import { useTheme as Ne, useMediaQuery as G, IconButton as Te, Tooltip as ye, Button as Oe, Typography as $e, Stack as Ce, Box as ee, Divider as ze, Tab as Le, Tabs as Ee } from "@mui/material";
-import ke from "./ui-components.es18.js";
+import ke from "./ui-components.es35.js";
 import { useState as te, useRef as Fe } from "react";
-import Ue from "./ui-components.es60.js";
-import Qe from "./ui-components.es61.js";
+import Ue from "./ui-components.es36.js";
+import Qe from "./ui-components.es37.js";
 function We(i) {
   const e = ve.c(10), l = Ne();
   let s;

package/dist/ui-components.es6.js.map

@@ -1 +1 @@
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+{"version":3,"file":"ui-components.es6.js","sources":["../src/components/TwoPaneLayout/TwoPaneLayout.tsx"],"sourcesContent":["import { CloseFullscreenRounded, DragHandle, TableChartRounded } from \"@mui/icons-material\";\r\nimport {\r\n  Stack,\r\n  Box,\r\n  Typography,\r\n  Tabs,\r\n  Tab,\r\n  IconButton,\r\n  Tooltip,\r\n  Button,\r\n  useMediaQuery,\r\n  useTheme,\r\n  Divider,\r\n} from \"@mui/material\";\r\nimport DownloadIcon from \"@mui/icons-material/Download\";\r\nimport React, { useMemo, useRef, useState } from \"react\";\r\nimport DownloadModal from \"./DownloadModal\";\r\nimport FigurePanel from \"./FigurePanel\";\r\nimport type { Direction, ResponsiveDirection, TwoPaneLayoutProps } from \"./types\";\r\n\r\nfunction useResolvedDirection(direction: ResponsiveDirection): Direction {\r\n  const theme = useTheme();\r\n\r\n  const matches = {\r\n    xs: useMediaQuery(theme.breakpoints.up(\"xs\")),\r\n    sm: useMediaQuery(theme.breakpoints.up(\"sm\")),\r\n    md: useMediaQuery(theme.breakpoints.up(\"md\")),\r\n    lg: useMediaQuery(theme.breakpoints.up(\"lg\")),\r\n    xl: useMediaQuery(theme.breakpoints.up(\"xl\")),\r\n  };\r\n\r\n  if (typeof direction === \"string\") return direction;\r\n\r\n  for (const bp of [\"xl\", \"lg\", \"md\", \"sm\", \"xs\"] as const) {\r\n    if (matches[bp] && direction[bp]) return direction[bp];\r\n  }\r\n\r\n  return \"column\";\r\n}\r\n\r\nconst TwoPaneLayout = ({ TableComponent, plots, direction = \"row\", columnHeight = \"500px\", rowHeight = \"max(60vh, 600px)\" }: TwoPaneLayoutProps) => {\r\n  const [tab, setTab] = useState<number>(0);\r\n  const [tableOpen, setTableOpen] = useState(true);\r\n  const [modalOpen, setModalOpen] = useState<boolean>(false);\r\n  const [leftPct, setLeftPct] = useState(40);\r\n  const containerRef = useRef<HTMLDivElement>(null);\r\n\r\n  const resolvedDirection = useResolvedDirection(direction);\r\n  const isColumn = resolvedDirection === \"column\";\r\n\r\n  const tabValue = Math.min(tab, plots.length - 1);\r\n  const activePlot = plots[tabValue];\r\n  const hasDownload = !!(activePlot?.onDownloadSVG || activePlot?.onDownloadPNG);\r\n  const paneHeight = isColumn ? columnHeight : rowHeight;\r\n\r\n  const handleSetTab = (newTab: number) => {\r\n    setTab(newTab);\r\n  };\r\n\r\n  const handleToggleTable = () => {\r\n    setTableOpen(!tableOpen);\r\n  };\r\n\r\n  const handleOpenDownload = () => {\r\n    if (hasDownload) {\r\n      setModalOpen(true);\r\n    }\r\n  };\r\n\r\n  const plotTabs = useMemo(() => plots.map((x) => ({ tabTitle: x.tabTitle, icon: x.icon })), [plots]);\r\n\r\n  const figures = useMemo(\r\n    () =>\r\n      plots.map((x) => ({\r\n        title: x.tabTitle,\r\n        component: x.plotComponent,\r\n      })),\r\n    [plots]\r\n  );\r\n\r\n  const tableIconButton = (\r\n    <Tooltip title={`${tableOpen ? \"Hide\" : \"Show\"} Table`}>\r\n      <IconButton onClick={handleToggleTable} sx={{ marginLeft: -1, marginRight: tableOpen ? -1 : 0 }}>\r\n        <TableChartRounded color=\"primary\" fontSize=\"small\" />\r\n      </IconButton>\r\n    </Tooltip>\r\n  );\r\n\r\n  const hideTableButton = (\r\n    <Tooltip title=\"Hide Table\">\r\n      <IconButton onClick={handleToggleTable} sx={{ mx: -1 }}>\r\n        <CloseFullscreenRounded color=\"primary\" />\r\n      </IconButton>\r\n    </Tooltip>\r\n  );\r\n\r\n  const downloadButton = isColumn ? (\r\n    <IconButton color=\"primary\" aria-label=\"download\" size=\"small\" onClick={handleOpenDownload}>\r\n      <DownloadIcon />\r\n    </IconButton>\r\n  ) : (\r\n    <Button variant=\"text\" startIcon={<DownloadIcon />} onClick={handleOpenDownload} sx={{ flexShrink: 0 }}>\r\n      Download\r\n    </Button>\r\n  );\r\n\r\n  const handleDividerPointerDown = (e: React.PointerEvent<HTMLDivElement>) => {\r\n    e.currentTarget.setPointerCapture(e.pointerId);\r\n  };\r\n\r\n  const handleDividerPointerMove = (e: React.PointerEvent<HTMLDivElement>) => {\r\n    if (!e.currentTarget.hasPointerCapture(e.pointerId)) return;\r\n    const container = containerRef.current;\r\n    if (!container) return;\r\n    const rect = container.getBoundingClientRect();\r\n    const newPct = ((e.clientX - rect.left) / rect.width) * 100;\r\n    setLeftPct(Math.min(70, Math.max(15, newPct)));\r\n  };\r\n\r\n  const handleDividerPointerUp = (e: React.PointerEvent<HTMLDivElement>) => {\r\n    e.currentTarget.releasePointerCapture(e.pointerId);\r\n  };\r\n\r\n  return (\r\n    <Box\r\n      ref={containerRef}\r\n      display=\"grid\"\r\n      gridTemplateColumns={\r\n        !isColumn && tableOpen\r\n          ? (theme) => `${leftPct}% ${theme.spacing(2)} minmax(0, 1fr)`\r\n          : \"minmax(0, 1fr)\"\r\n      }\r\n      gridTemplateRows={isColumn && tableOpen ? \"auto auto auto auto\" : \"auto 1fr\"}\r\n      rowGap={1}\r\n      columnGap={!isColumn && tableOpen ? 0 : 2}\r\n    >\r\n      {/* Table header — row 1 at all breakpoints */}\r\n      <Stack\r\n        display={tableOpen ? \"flex\" : \"none\"}\r\n        direction=\"row\"\r\n        alignItems=\"center\"\r\n        gap={1}\r\n        gridRow={1}\r\n        gridColumn={1}\r\n      >\r\n        {tableIconButton}\r\n        <Typography variant=\"h6\" sx={{ flexGrow: 1 }}>\r\n          Table View\r\n        </Typography>\r\n        {hideTableButton}\r\n      </Stack>\r\n\r\n      {/* Divider — only visible in row direction when table is open */}\r\n      {tableOpen && !isColumn && (\r\n        <Box\r\n          display=\"flex\"\r\n          alignItems=\"center\"\r\n          justifyContent=\"center\"\r\n          gridRow=\"1 / 3\"\r\n          gridColumn={2}\r\n          sx={{ cursor: \"col-resize\" }}\r\n          onPointerDown={handleDividerPointerDown}\r\n          onPointerMove={handleDividerPointerMove}\r\n          onPointerUp={handleDividerPointerUp}\r\n        >\r\n          <Divider\r\n            orientation=\"vertical\"\r\n            flexItem\r\n            sx={{\r\n              \"& .MuiDivider-wrapperVertical\": {\r\n                padding: 0,\r\n                display: \"flex\",\r\n              },\r\n              mx: \"auto\",\r\n            }}\r\n          >\r\n            <DragHandle sx={{ transform: \"rotate(90deg)\", color: \"divider\" }} />\r\n          </Divider>\r\n        </Box>\r\n      )}\r\n\r\n      {/* Tabs header */}\r\n      <Stack\r\n        direction=\"row\"\r\n        alignItems=\"center\"\r\n        justifyContent=\"space-between\"\r\n        gridRow={isColumn && tableOpen ? 3 : 1}\r\n        gridColumn={!isColumn && tableOpen ? 3 : 1}\r\n      >\r\n        {!tableOpen 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 height={paneHeight}\r\n        minWidth={0}\r\n      >\r\n        <FigurePanel value={tabValue} figures={figures} />\r\n        {modalOpen && (\r\n          <DownloadModal\r\n            open={modalOpen}\r\n            onClose={() => setModalOpen(false)}\r\n            onDownloadSVG={activePlot?.onDownloadSVG}\r\n            onDownloadPNG={activePlot?.onDownloadPNG}\r\n            plotTitle={activePlot?.tabTitle}\r\n          />\r\n        )}\r\n      </Box>\r\n    </Box>\r\n  );\r\n};\r\n\r\nexport default 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