@weng-lab/ui-components 2.2.3 → 3.0.0-beta.0

package/dist/ui-components.es50.js

@@ -1,256 +1,248 @@
-import * as v from "react";
-import { clsx as w } from "./ui-components.es99.js";
-import t from "./ui-components.es88.js";
-import C from "./ui-components.es102.js";
-import { getSkeletonUtilityClass as k } from "./ui-components.es129.js";
-import { j as x } from "./ui-components.es15.js";
-import R from "./ui-components.es34.js";
-import { getUnit as O, toUnitless as T } from "./ui-components.es130.js";
-import { useDefaultProps as $ } from "./ui-components.es91.js";
-import S from "./ui-components.es111.js";
-import { keyframes as f, css as h } from "@emotion/react";
-const j = (e) => {
-  const {
-    classes: n,
-    variant: o,
-    animation: a,
-    hasChildren: r,
-    width: s,
-    height: i
-  } = e;
-  return S({
-    root: ["root", o, a, r && "withChildren", r && !s && "fitContent", r && !i && "heightAuto"]
-  }, k, n);
-}, l = f`
-  0% {
-    opacity: 1;
-  }
-
-  50% {
-    opacity: 0.4;
-  }
-
-  100% {
-    opacity: 1;
+const d = `
+  query suggestions($assembly: String!, $snpid: String!, $limit: Int) {
+    snpAutocompleteQuery(assembly: $assembly, snpid: $snpid, limit: $limit) {
+      id
+      coordinates {
+        chromosome
+        start
+        end
+      }
+    }
   }
-`, p = f`
-  0% {
-    transform: translateX(-100%);
+`, 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: $version
+      ) {
+          id
+          name
+          coordinates {
+              chromosome
+              start
+              end
+          }
+      }
   }
-
-  50% {
-    /* +0.5s of delay between each loop */
-    transform: translateX(100%);
+`, _ = `
+  query iCREQuery($accession_prefix: [String!], $limit: Int) {
+      iCREQuery(accession_prefix: $accession_prefix, limit: $limit) {
+          rdhs
+          accession
+          celltypes
+          coordinates {
+              start
+              end
+              chromosome
+          }
+      }
   }
-
-  100% {
-    transform: translateX(100%);
+`, 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
+      }
+    }
   }
-`, N = typeof l != "string" ? h`
-        animation: ${l} 2s ease-in-out 0.5s infinite;
-      ` : null, U = typeof p != "string" ? h`
-        &::after {
-          animation: ${p} 2s linear 0.5s infinite;
-        }
-      ` : null, A = R("span", {
-  name: "MuiSkeleton",
-  slot: "Root",
-  overridesResolver: (e, n) => {
-    const {
-      ownerState: o
-    } = e;
-    return [n.root, n[o.variant], o.animation !== !1 && n[o.animation], o.hasChildren && n.withChildren, o.hasChildren && !o.width && n.fitContent, o.hasChildren && !o.height && n.heightAuto];
+`, g = `
+  query getv2v3CcreMapping($accessions: [String], $assembly: String!) {
+    ccreMappings: getv2cCREMappings(
+      v2_accession: $accessions
+      assembly: $assembly
+    ) {
+      input: v2_accession
+      input_latest_previous_version: ccre_version
+      input_region: v2_region
+      v4_match_or_intersecting: v4_accession
+      v4_region
+    }
   }
-})(C(({
-  theme: e
-}) => {
-  const n = O(e.shape.borderRadius) || "px", o = T(e.shape.borderRadius);
-  return {
-    display: "block",
-    // Create a "on paper" color with sufficient contrast retaining the color
-    backgroundColor: e.vars ? e.vars.palette.Skeleton.bg : e.alpha(e.palette.text.primary, e.palette.mode === "light" ? 0.11 : 0.13),
-    height: "1.2em",
-    variants: [{
-      props: {
-        variant: "text"
-      },
-      style: {
-        marginTop: 0,
-        marginBottom: 0,
-        height: "auto",
-        transformOrigin: "0 55%",
-        transform: "scale(1, 0.60)",
-        borderRadius: `${o}${n}/${Math.round(o / 0.6 * 10) / 10}${n}`,
-        "&:empty:before": {
-          content: '"\\00a0"'
-        }
-      }
-    }, {
-      props: {
-        variant: "circular"
-      },
-      style: {
-        borderRadius: "50%"
-      }
-    }, {
-      props: {
-        variant: "rounded"
-      },
-      style: {
-        borderRadius: (e.vars || e).shape.borderRadius
-      }
-    }, {
-      props: ({
-        ownerState: a
-      }) => a.hasChildren,
-      style: {
-        "& > *": {
-          visibility: "hidden"
-        }
-      }
-    }, {
-      props: ({
-        ownerState: a
-      }) => a.hasChildren && !a.width,
-      style: {
-        maxWidth: "fit-content"
-      }
-    }, {
-      props: ({
-        ownerState: a
-      }) => a.hasChildren && !a.height,
-      style: {
-        height: "auto"
-      }
-    }, {
-      props: {
-        animation: "pulse"
-      },
-      style: N || {
-        animation: `${l} 2s ease-in-out 0.5s infinite`
-      }
-    }, {
-      props: {
-        animation: "wave"
-      },
-      style: {
-        position: "relative",
-        overflow: "hidden",
-        /* Fix bug in Safari https://bugs.webkit.org/show_bug.cgi?id=68196 */
-        WebkitMaskImage: "-webkit-radial-gradient(white, black)",
-        "&::after": {
-          background: `linear-gradient(
-                90deg,
-                transparent,
-                ${(e.vars || e).palette.action.hover},
-                transparent
-              )`,
-          content: '""',
-          position: "absolute",
-          transform: "translateX(-100%)",
-          bottom: 0,
-          left: 0,
-          right: 0,
-          top: 0
-        }
+`, C = `
+query getGWASStudyMetadata($limit: Int, $studyname_prefix: [String]){
+    getGWASStudiesMetadata(limit: $limit, studyname_prefix: $studyname_prefix )
+    {
+        studyid
+        author
+        disease_trait
+        has_enrichment_info
+        population
+        parent_terms
+        total_ld_blocks
+        ld_blocks_overlapping_ccres
+        overlapping_ccres
+    }
+}
+`, b = async (e, t, i, s) => (await fetch(i, {
+  method: "POST",
+  body: JSON.stringify({
+    query: _,
+    variables: {
+      accession_prefix: [e],
+      limit: t
+    }
+  }),
+  headers: {
+    "Content-Type": "application/json"
+  },
+  signal: s
+})).json(), v = async (e, t, i, s, n, p) => {
+  const r = e.length === 12;
+  return (await fetch(n, {
+    method: "POST",
+    body: JSON.stringify({
+      query: h,
+      variables: {
+        ...r ? {
+          accession: [e.toUpperCase()]
+        } : {
+          accession_prefix: [e]
+        },
+        assembly: t,
+        limit: i,
+        includeiCREs: s
       }
-    }, {
-      props: {
-        animation: "wave"
-      },
-      style: U || {
-        "&::after": {
-          animation: `${p} 2s linear 0.5s infinite`
-        }
+    }),
+    headers: {
+      "Content-Type": "application/json"
+    },
+    signal: p
+  })).json();
+}, R = async (e, t, i, s) => (await fetch(i, {
+  method: "POST",
+  body: JSON.stringify({
+    query: g,
+    variables: {
+      accessions: [e],
+      assembly: t
+    }
+  }),
+  headers: {
+    "Content-Type": "application/json"
+  },
+  signal: s
+})).json(), x = async (e, t, i, s, n, p) => {
+  let r = s ? typeof s == "number" ? [s] : s : [t === "GRCh38" ? 40 : 25];
+  r = r.sort((o, a) => a - o);
+  const m = await Promise.all(r.map((o) => fetch(n, {
+    method: "POST",
+    body: JSON.stringify({
+      query: u,
+      variables: {
+        assembly: t.toLowerCase(),
+        ...e.toUpperCase().startsWith("ENSG") ? {
+          idprefix: e.split(".")[0]
+        } : {
+          name_prefix: e
+        },
+        version: o,
+        limit: i
       }
-    }]
-  };
-})), M = /* @__PURE__ */ v.forwardRef(function(n, o) {
-  const a = $({
-    props: n,
-    name: "MuiSkeleton"
-  }), {
-    animation: r = "pulse",
-    className: s,
-    component: i = "span",
-    height: m,
-    style: u,
-    variant: y = "text",
-    width: g,
-    ...c
-  } = a, d = {
-    ...a,
-    animation: r,
-    component: i,
-    variant: y,
-    hasChildren: !!c.children
-  }, b = j(d);
-  return /* @__PURE__ */ x.jsx(A, {
-    as: i,
-    ref: o,
-    className: w(b.root, s),
-    ownerState: d,
-    ...c,
-    style: {
-      width: g,
-      height: m,
-      ...u
+    }),
+    headers: {
+      "Content-Type": "application/json"
+    },
+    signal: p
+  }).then((a) => a.json()))), l = /* @__PURE__ */ new Map();
+  return m.forEach((o, a) => {
+    (o.data.gene || []).forEach((c) => {
+      l.has(c.name) ? l.get(c.name).versions.push({
+        id: c.id,
+        version: r[a]
+      }) : l.set(c.name, {
+        gene: c,
+        versions: [{
+          id: c.id,
+          version: r[a]
+        }]
+      });
+    });
+  }), await Promise.all(Array.from(l.values()).map(async ({
+    gene: o,
+    versions: a
+  }) => {
+    const y = await E(o.name);
+    return {
+      ...o,
+      description: `${f(y || o.name)}`,
+      versions: a
+    };
+  }));
+}, f = (e) => e.split(" ").map((t) => t.charAt(0).toUpperCase() + t.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(), s = i[3] && i[3].filter((n) => n[3] === e.toUpperCase());
+    return s && s.length >= 1 ? s[0][4] : null;
+  } catch {
+    return null;
+  }
+}
+const T = async (e, t, i, s, n) => (await fetch(s, {
+  method: "POST",
+  body: JSON.stringify({
+    query: d,
+    variables: {
+      assembly: t.toLowerCase(),
+      snpid: e,
+      limit: i
+    }
+  }),
+  headers: {
+    "Content-Type": "application/json"
+  },
+  signal: n
+})).json(), O = async (e, t, i, s) => (await fetch(i, {
+  method: "POST",
+  body: JSON.stringify({
+    query: C,
+    variables: {
+      studyname_prefix: [e],
+      limit: t
     }
-  });
-});
-process.env.NODE_ENV !== "production" && (M.propTypes = {
-  // ┌────────────────────────────── Warning ──────────────────────────────┐
-  // │ These PropTypes are generated from the TypeScript type definitions. │
-  // │    To update them, edit the d.ts file and run `pnpm proptypes`.     │
-  // └─────────────────────────────────────────────────────────────────────┘
-  /**
-   * The animation.
-   * If `false` the animation effect is disabled.
-   * @default 'pulse'
-   */
-  animation: t.oneOf(["pulse", "wave", !1]),
-  /**
-   * Optional children to infer width and height from.
-   */
-  children: t.node,
-  /**
-   * Override or extend the styles applied to the component.
-   */
-  classes: t.object,
-  /**
-   * @ignore
-   */
-  className: t.string,
-  /**
-   * The component used for the root node.
-   * Either a string to use a HTML element or a component.
-   */
-  component: t.elementType,
-  /**
-   * Height of the skeleton.
-   * Useful when you don't want to adapt the skeleton to a text element but for instance a card.
-   */
-  height: t.oneOfType([t.number, t.string]),
-  /**
-   * @ignore
-   */
-  style: t.object,
-  /**
-   * The system prop that allows defining system overrides as well as additional CSS styles.
-   */
-  sx: t.oneOfType([t.arrayOf(t.oneOfType([t.func, t.object, t.bool])), t.func, t.object]),
-  /**
-   * The type of content that will be rendered.
-   * @default 'text'
-   */
-  variant: t.oneOfType([t.oneOf(["circular", "rectangular", "rounded", "text"]), t.string]),
-  /**
-   * Width of the skeleton.
-   * Useful when the skeleton is inside an inline element with no width of its own.
-   */
-  width: t.oneOfType([t.number, t.string])
-});
+  }),
+  headers: {
+    "Content-Type": "application/json"
+  },
+  signal: s
+})).json();
 export {
-  M as default
+  h as CCRE_AUTOCOMPLETE_QUERY,
+  u as GENE_AUTOCOMPLETE_QUERY,
+  C as GWAS_AUTOCOMPLETE_QUERY,
+  _ as ICRE_AUTOCOMPLETE_QUERY,
+  g 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
 };
 //# sourceMappingURL=ui-components.es50.js.map

package/dist/ui-components.es50.js.map

@@ -1 +1 @@
-{"version":3,"file":"ui-components.es50.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/Skeleton/Skeleton.js"],"sourcesContent":["'use client';\n\nimport * as React from 'react';\nimport clsx from 'clsx';\nimport PropTypes from 'prop-types';\nimport composeClasses from '@mui/utils/composeClasses';\nimport { unstable_getUnit as getUnit, unstable_toUnitless as toUnitless } from \"../styles/index.js\";\nimport { keyframes, css, styled } from \"../zero-styled/index.js\";\nimport memoTheme from \"../utils/memoTheme.js\";\nimport { useDefaultProps } from \"../DefaultPropsProvider/index.js\";\nimport { getSkeletonUtilityClass } from \"./skeletonClasses.js\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nconst useUtilityClasses = ownerState => {\n  const {\n    classes,\n    variant,\n    animation,\n    hasChildren,\n    width,\n    height\n  } = ownerState;\n  const slots = {\n    root: ['root', variant, animation, hasChildren && 'withChildren', hasChildren && !width && 'fitContent', hasChildren && !height && 'heightAuto']\n  };\n  return composeClasses(slots, getSkeletonUtilityClass, classes);\n};\nconst pulseKeyframe = keyframes`\n  0% {\n    opacity: 1;\n  }\n\n  50% {\n    opacity: 0.4;\n  }\n\n  100% {\n    opacity: 1;\n  }\n`;\nconst waveKeyframe = keyframes`\n  0% {\n    transform: translateX(-100%);\n  }\n\n  50% {\n    /* +0.5s of delay between each loop */\n    transform: translateX(100%);\n  }\n\n  100% {\n    transform: translateX(100%);\n  }\n`;\n\n// This implementation is for supporting both Styled-components v4+ and Pigment CSS.\n// A global animation has to be created here for Styled-components v4+ (https://github.com/styled-components/styled-components/blob/main/packages/styled-components/src/utils/errors.md#12).\n// which can be done by checking typeof indeterminate1Keyframe !== 'string' (at runtime, Pigment CSS transform keyframes`` to a string).\nconst pulseAnimation = typeof pulseKeyframe !== 'string' ? css`\n        animation: ${pulseKeyframe} 2s ease-in-out 0.5s infinite;\n      ` : null;\nconst waveAnimation = typeof waveKeyframe !== 'string' ? css`\n        &::after {\n          animation: ${waveKeyframe} 2s linear 0.5s infinite;\n        }\n      ` : null;\nconst SkeletonRoot = styled('span', {\n  name: 'MuiSkeleton',\n  slot: 'Root',\n  overridesResolver: (props, styles) => {\n    const {\n      ownerState\n    } = props;\n    return [styles.root, styles[ownerState.variant], ownerState.animation !== false && styles[ownerState.animation], ownerState.hasChildren && styles.withChildren, ownerState.hasChildren && !ownerState.width && styles.fitContent, ownerState.hasChildren && !ownerState.height && styles.heightAuto];\n  }\n})(memoTheme(({\n  theme\n}) => {\n  const radiusUnit = getUnit(theme.shape.borderRadius) || 'px';\n  const radiusValue = toUnitless(theme.shape.borderRadius);\n  return {\n    display: 'block',\n    // Create a \"on paper\" color with sufficient contrast retaining the color\n    backgroundColor: theme.vars ? theme.vars.palette.Skeleton.bg : theme.alpha(theme.palette.text.primary, theme.palette.mode === 'light' ? 0.11 : 0.13),\n    height: '1.2em',\n    variants: [{\n      props: {\n        variant: 'text'\n      },\n      style: {\n        marginTop: 0,\n        marginBottom: 0,\n        height: 'auto',\n        transformOrigin: '0 55%',\n        transform: 'scale(1, 0.60)',\n        borderRadius: `${radiusValue}${radiusUnit}/${Math.round(radiusValue / 0.6 * 10) / 10}${radiusUnit}`,\n        '&:empty:before': {\n          content: '\"\\\\00a0\"'\n        }\n      }\n    }, {\n      props: {\n        variant: 'circular'\n      },\n      style: {\n        borderRadius: '50%'\n      }\n    }, {\n      props: {\n        variant: 'rounded'\n      },\n      style: {\n        borderRadius: (theme.vars || theme).shape.borderRadius\n      }\n    }, {\n      props: ({\n        ownerState\n      }) => ownerState.hasChildren,\n      style: {\n        '& > *': {\n          visibility: 'hidden'\n        }\n      }\n    }, {\n      props: ({\n        ownerState\n      }) => ownerState.hasChildren && !ownerState.width,\n      style: {\n        maxWidth: 'fit-content'\n      }\n    }, {\n      props: ({\n        ownerState\n      }) => ownerState.hasChildren && !ownerState.height,\n      style: {\n        height: 'auto'\n      }\n    }, {\n      props: {\n        animation: 'pulse'\n      },\n      style: pulseAnimation || {\n        animation: `${pulseKeyframe} 2s ease-in-out 0.5s infinite`\n      }\n    }, {\n      props: {\n        animation: 'wave'\n      },\n      style: {\n        position: 'relative',\n        overflow: 'hidden',\n        /* Fix bug in Safari https://bugs.webkit.org/show_bug.cgi?id=68196 */\n        WebkitMaskImage: '-webkit-radial-gradient(white, black)',\n        '&::after': {\n          background: `linear-gradient(\n                90deg,\n                transparent,\n                ${(theme.vars || theme).palette.action.hover},\n                transparent\n              )`,\n          content: '\"\"',\n          position: 'absolute',\n          transform: 'translateX(-100%)' /* Avoid flash during server-side hydration */,\n          bottom: 0,\n          left: 0,\n          right: 0,\n          top: 0\n        }\n      }\n    }, {\n      props: {\n        animation: 'wave'\n      },\n      style: waveAnimation || {\n        '&::after': {\n          animation: `${waveKeyframe} 2s linear 0.5s infinite`\n        }\n      }\n    }]\n  };\n}));\nconst Skeleton = /*#__PURE__*/React.forwardRef(function Skeleton(inProps, ref) {\n  const props = useDefaultProps({\n    props: inProps,\n    name: 'MuiSkeleton'\n  });\n  const {\n    animation = 'pulse',\n    className,\n    component = 'span',\n    height,\n    style,\n    variant = 'text',\n    width,\n    ...other\n  } = props;\n  const ownerState = {\n    ...props,\n    animation,\n    component,\n    variant,\n    hasChildren: Boolean(other.children)\n  };\n  const classes = useUtilityClasses(ownerState);\n  return /*#__PURE__*/_jsx(SkeletonRoot, {\n    as: component,\n    ref: ref,\n    className: clsx(classes.root, className),\n    ownerState: ownerState,\n    ...other,\n    style: {\n      width,\n      height,\n      ...style\n    }\n  });\n});\nprocess.env.NODE_ENV !== \"production\" ? Skeleton.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 animation.\n   * If `false` the animation effect is disabled.\n   * @default 'pulse'\n   */\n  animation: PropTypes.oneOf(['pulse', 'wave', false]),\n  /**\n   * Optional children to infer width and height from.\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 component used for the root node.\n   * Either a string to use a HTML element or a component.\n   */\n  component: PropTypes.elementType,\n  /**\n   * Height of the skeleton.\n   * Useful when you don't want to adapt the skeleton to a text element but for instance a card.\n   */\n  height: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\n  /**\n   * @ignore\n   */\n  style: PropTypes.object,\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   * The type of content that will be rendered.\n   * @default 'text'\n   */\n  variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf(['circular', 'rectangular', 'rounded', 'text']), PropTypes.string]),\n  /**\n   * Width of the skeleton.\n   * Useful when the skeleton is inside an inline element with no width of its own.\n   */\n  width: PropTypes.oneOfType([PropTypes.number, PropTypes.string])\n} : void 0;\nexport default 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+{"version":3,"file":"ui-components.es50.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            ...(value.toUpperCase().startsWith(\"ENSG\") ? { idprefix: value.split(\".\")[0] } : { 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  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.es51.js

@@ -1,42 +1,9 @@
-import * as p from "react";
-import o from "./ui-components.es88.js";
-import a from "./ui-components.es127.js";
-import d from "./ui-components.es128.js";
-function r(f) {
-  const {
-    children: s,
-    defer: e = !1,
-    fallback: n = null
-  } = f, [c, t] = p.useState(!1);
-  return d(() => {
-    e || t(!0);
-  }, [e]), p.useEffect(() => {
-    e && t(!0);
-  }, [e]), c ? s : n;
-}
-process.env.NODE_ENV !== "production" && (r.propTypes = {
-  // ┌────────────────────────────── Warning ──────────────────────────────┐
-  // │ These PropTypes are generated from the TypeScript type definitions. │
-  // │ To update them, edit the TypeScript types and run `pnpm proptypes`. │
-  // └─────────────────────────────────────────────────────────────────────┘
-  /**
-   * You can wrap a node.
-   */
-  children: o.node,
-  /**
-   * If `true`, the component will not only prevent server-side rendering.
-   * It will also defer the rendering of the children into a different screen frame.
-   * @default false
-   */
-  defer: o.bool,
-  /**
-   * The fallback content to display.
-   * @default null
-   */
-  fallback: o.node
-});
-process.env.NODE_ENV !== "production" && (r.propTypes = a(r.propTypes));
+import { createContext as o, useContext as t } from "react";
+const n = o({
+  onDownload: void 0
+}), r = () => t(n);
 export {
-  r as default
+  n as DownloadContext,
+  r as useDownloadContext
 };
 //# sourceMappingURL=ui-components.es51.js.map

package/dist/ui-components.es51.js.map

@@ -1 +1 @@
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+{"version":3,"file":"ui-components.es51.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;"}