protvista-uniprot 4.5.0 → 4.5.2

package/dist/protvista-uniprot.mjs

@@ -326,10 +326,7 @@ const Cm = {
     ({ dbReferences: a }) => a.map((o) => o.id)
   ), n = [...new Set(r.flat())], i = "https://proteomecentral.proteomexchange.org/dataset/";
   return `
-    <ul class="no-bullet">${n.map((a) => {
-    const o = a === "Glue project" ? "PXD012174" : a;
-    return `<li title='${o}'>${o}&nbsp;(<a href="${i}${o}" target="_blank">ProteomeXchange</a>${a === "Glue project" ? ')</li><li title="publication">Publication:&nbsp;31819260&nbsp;(<a href="https://pubmed.ncbi.nlm.nih.gov/31819260" target="_blank">PubMed</a>)</li>' : `&nbsp;<a href="https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/buildDetails?atlas_build_id=${GBe[t].build}" target="_blank">PeptideAtlas</a>)</li>`}`;
-  }).join("")}</ul>
+    <ul class="no-bullet">${n.map((a) => `<li title='${a}'>${a}&nbsp;(<a href="${i}${a}" target="_blank">ProteomeXchange</a>${a === "PXD012174" ? `&nbsp;<a href="https://www.ebi.ac.uk/pride/archive/projects/${a}" target="_blank">PRIDE</a>)</li><li title="publication">Publication:&nbsp;31819260&nbsp;(<a href="https://pubmed.ncbi.nlm.nih.gov/31819260" target="_blank">PubMed</a>)</li>` : `&nbsp;<a href="https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/buildDetails?atlas_build_id=${GBe[t].build}" target="_blank">PeptideAtlas</a>)</li>`}`).join("")}</ul>
   `;
 }, qBe = (e, t) => {
   if (!t) return "";
@@ -385,7 +382,7 @@ const Cm = {
         ${e.unique ? `<h5>Unique</h5><p>${e.unique ? "Yes" : "No"}</p>` : ""}
         ${e.xrefs ? `<h5>Cross-references</h5>${IAe(e.xrefs)}` : ""}
         ${r ? `<h5>Evidence</h5>${r}` : ""}
-        ${e.residuesToHighlight && i && !i.includes("Glue project") ? `<hr /><h5 class="margin-bottom" data-article-id="mod_res_large_scale#what-is-the-goldsilverbronze-criterion">PTM statistical attributes</h5><ul class="no-bullet">${e.residuesToHighlight.map(
+        ${e.residuesToHighlight && i && !i.includes("PXD012174") ? `<hr /><h5 class="margin-bottom" data-article-id="mod_res_large_scale#what-is-the-goldsilverbronze-criterion">PTM statistical attributes</h5><ul class="no-bullet">${e.residuesToHighlight.map(
       (o) => o.dbReferences.map(
         (s) => `<li><b>${s.id}</b></li>
                         <li class="text-indent-1"><b>${One(
@@ -94632,23 +94629,24 @@ const C8t = (e, t, r) => {
     }
   }
   return [];
-}, P8t = (e) => {
-  const t = e?.[0]?.cifUrl;
-  return t?.length ? t.replace("-model", "-confidence").replace(".cif", ".json") : null;
-}, E8t = async (e) => {
+}, P8t = (e) => e.cifUrl?.replace("-model", "-confidence").replace(".cif", ".json"), E8t = async (e) => {
   try {
     return (await fetch(e)).json();
   } catch (t) {
     console.error("Could not load AlphaFold confidence", t);
   }
 }, M8t = async (e, t) => {
-  const r = P8t(e);
-  if (!r)
-    return;
-  if ((e?.filter(
-    ({ sequence: i }) => t.sequence.sequence === i
-  )).length)
-    return (await E8t(r))?.confidenceCategory.join("");
+  const r = e?.filter(
+    ({ sequence: n }) => t.sequence.sequence === n
+  );
+  if (r.length === 1) {
+    const n = P8t(
+      r[0]
+    );
+    return n ? (await E8t(n))?.confidenceCategory.join("") : void 0;
+  } else r.length > 1 && console.warn(
+    `Found more than one matches (${r.length}) for AlphaFold confidence adapter against protein sequence: ${t.sequence}`
+  );
 }, $8t = 0, yAe = 0.1132, bAe = 0.2264, _Ae = 0.3395, xAe = 0.4527, wAe = 0.5895, SAe = 0.7264, AAe = 0.8632, k8t = 1, z9e = /\s*\n\s*/, G9e = /^(.)(\d+)(.),(.+),(\w+)$/, I8t = [
   { min: $8t, max: yAe, code: "H" },
   { min: yAe, max: bAe, code: "V" },