@weng-lab/ui-components 2.1.1 → 2.2.1

package/dist/ui-components.es54.js

@@ -1,245 +1,42 @@
-const d = `
-  query suggestions($assembly: String!, $snpid: String!) {
-      snpAutocompleteQuery(assembly: $assembly, snpid: $snpid) {
-          id
-          coordinates {
-              chromosome
-              start
-              end
-          }
-      }
-  }
-`, y = `
-  query Genes(
-      $id: [String]
-      $name: [String]
-      $strand: String
-      $chromosome: String
-      $start: Int
-      $end: Int
-      $gene_type: String
-      $havana_id: String
-      $name_prefix: [String!]
-      $limit: Int
-      $assembly: String!
-      $version: Int
-  ) {
-      gene(
-          id: $id
-          name: $name
-          strand: $strand
-          chromosome: $chromosome
-          start: $start
-          end: $end
-          gene_type: $gene_type
-          havana_id: $havana_id
-          name_prefix: $name_prefix
-          limit: $limit
-          assembly: $assembly
-          orderby: "name"
-          version: $version
-      ) {
-          id
-          name
-          coordinates {
-              chromosome
-              start
-              end
-          }
-      }
-  }
-`, g = `
-  query iCREQuery($accession_prefix: [String!], $limit: Int) {
-      iCREQuery(accession_prefix: $accession_prefix, limit: $limit) {
-          rdhs
-          accession
-          celltypes
-          coordinates {
-              start
-              end
-              chromosome
-          }
-      }
-  }
-`, _ = `
-  query cCREAutocompleteQuery(
-    $accession_prefix: [String!]
-    $assembly: String!
-    $includeiCREs: Boolean
-    $limit: Int
-  ) {
-    cCREAutocompleteQuery(
-      includeiCREs: $includeiCREs
-      assembly: $assembly
-      limit: $limit
-      accession_prefix: $accession_prefix
-    ) {
-      accession
-      isiCRE
-      coordinates {
-        chromosome
-        start
-        end
-      }
-    }
-  }
-`, h = `
-  query getv2v3CcreMapping($accessions: [String], $assembly: String!) {
-    ccreMappings: getv2cCREMappings(
-      v2_accession: $accessions
-      assembly: $assembly
-    ) {
-      input: v2_accession
-      input_latest_previous_version: ccre_version
-      input_region: v2_region
-      v4_match_or_intersecting: v4_accession
-      v4_region
-    }
-  }
-`, u = `
-query getGWASStudyMetadata($studyid: [String], $limit: Int, $studyname_prefix: [String], $parent_terms: [String]){
-    getGWASStudiesMetadata(studyid: $studyid, limit: $limit, parent_terms: $parent_terms, studyname_prefix: $studyname_prefix )
-    {
-        studyid
-        author
-        disease_trait
-        has_enrichment_info
-        population
-        parent_terms
-        total_ld_blocks
-        ld_blocks_overlapping_ccres
-        overlapping_ccres
-    }
+import * as p from "react";
+import o from "./ui-components.es89.js";
+import a from "./ui-components.es90.js";
+import d from "./ui-components.es91.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;
 }
-`, f = async (e, s, n) => (await fetch("https://screen.api.wenglab.org/graphql", {
-  method: "POST",
-  body: JSON.stringify({
-    query: g,
-    variables: {
-      accession_prefix: [e],
-      limit: s
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: n
-})).json(), v = async (e, s, n, t, r) => (await fetch("https://screen.api.wenglab.org/graphql", {
-  method: "POST",
-  body: JSON.stringify({
-    query: _,
-    variables: {
-      accession_prefix: [e],
-      assembly: s.toLowerCase(),
-      limit: n,
-      includeiCREs: t
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: r
-})).json(), E = async (e, s, n) => (await fetch("https://screen.api.wenglab.org/graphql", {
-  method: "POST",
-  body: JSON.stringify({
-    query: h,
-    variables: {
-      accessions: [e],
-      assembly: s
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: n
-})).json(), R = async (e, s, n, t, r) => {
-  let o = t ? typeof t == "number" ? [t] : t : [s === "GRCh38" ? 40 : 25];
-  o = o.sort((i, a) => a - i);
-  const m = await Promise.all(o.map((i) => fetch("https://screen.api.wenglab.org/graphql", {
-    method: "POST",
-    body: JSON.stringify({
-      query: y,
-      variables: {
-        assembly: s.toLowerCase(),
-        name_prefix: e,
-        version: i,
-        limit: n
-      }
-    }),
-    headers: {
-      "Content-Type": "application/json"
-    },
-    signal: r
-  }).then((a) => a.json()))), p = /* @__PURE__ */ new Map();
-  return m.forEach((i, a) => {
-    (i.data.gene || []).forEach((c) => {
-      p.has(c.name) ? p.get(c.name).versions.push({
-        id: c.id,
-        version: o[a]
-      }) : p.set(c.name, {
-        gene: c,
-        versions: [{
-          id: c.id,
-          version: o[a]
-        }]
-      });
-    });
-  }), await Promise.all(Array.from(p.values()).map(async ({
-    gene: i,
-    versions: a
-  }) => {
-    const l = await C(i.name);
-    return {
-      ...i,
-      description: `${$(l || i.name)}`,
-      versions: a
-    };
-  }));
-}, $ = (e) => e.split(" ").map((s) => s.charAt(0).toUpperCase() + s.slice(1)).join(" ");
-async function C(e) {
-  const n = await (await fetch("https://clinicaltables.nlm.nih.gov/api/ncbi_genes/v3/search?authenticity_token=&terms=" + e.toUpperCase())).json(), t = n[3] && n[3].filter((r) => r[3] === e.toUpperCase());
-  return t && t.length >= 1 ? t[0][4] : null;
-}
-const T = async (e, s, n, t) => (await fetch("https://screen.api.wenglab.org/graphql", {
-  method: "POST",
-  body: JSON.stringify({
-    query: d,
-    variables: {
-      assembly: s.toLowerCase(),
-      snpid: e,
-      limit: n
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: t
-})).json(), O = async (e, s, n) => (await fetch("https://screen.api.wenglab.org/graphql", {
-  method: "POST",
-  body: JSON.stringify({
-    query: u,
-    variables: {
-      studyname_prefix: [e],
-      limit: s
-    }
-  }),
-  headers: {
-    "Content-Type": "application/json"
-  },
-  signal: n
-})).json();
+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));
 export {
-  _ as CCRE_AUTOCOMPLETE_QUERY,
-  y as GENE_AUTOCOMPLETE_QUERY,
-  u as GWAS_AUTOCOMPLETE_QUERY,
-  g as ICRE_AUTOCOMPLETE_QUERY,
-  h as LEGACY_CCRE_QUERY,
-  d as SNP_AUTOCOMPLETE_QUERY,
-  v as getCCREs,
-  R as getGenes,
-  f as getICREs,
-  E as getLegacyCCREs,
-  T as getSNPs,
-  O as getStudys
+  r as default
 };
 //# sourceMappingURL=ui-components.es54.js.map

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?: AbortSignal) => {\n  const response = await fetch(\"https://screen.api.wenglab.org/graphql\", {\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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