npm - protvista-uniprot - Versions diffs - 4.2.1 → 4.3.0 - Mend

protvista-uniprot 4.2.1 → 4.3.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (11) hide show

package/README.md +2 -2
package/dist/protvista-uniprot.mjs +41675 -28745
package/dist/protvista-uniprot.mjs.map +1 -1
package/dist/types/config.d.ts +1 -1
package/package.json +4 -4
package/src/adapters/proteomics-adapter.ts +1 -1
package/src/config.ts +60 -60
package/src/protvista-uniprot.ts +8 -8
package/src/styles/protvista-styles.ts +1 -1
package/src/tooltips/feature-tooltip.ts +7 -11
package/src/.vscode/settings.json +0 -3

package/dist/types/config.d.ts CHANGED Viewed

@@ -1,4 +1,4 @@
-export type TrackType = 'nightingale-track' | 'nightingale-interpro-track' | 'nightingale-colored-sequence' | 'nightingale-variation' | 'nightingale-linegraph-track' | 'nightingale-sequence-heatmap';
+export type TrackType = 'nightingale-track-canvas' | 'nightingale-interpro-track' | 'nightingale-colored-sequence' | 'nightingale-variation' | 'nightingale-linegraph-track' | 'nightingale-sequence-heatmap';
 export type ProtvistaTrackConfig = {
     name: string;
     label?: string;

package/package.json CHANGED Viewed

@@ -1,7 +1,7 @@
 {
   "name": "protvista-uniprot",
   "description": "ProtVista tool for the UniProt website",
-  "version": "4.2.1",
+  "version": "4.3.0",
   "files": [
     "dist",
     "src"
@@ -31,15 +31,15 @@
   "dependencies": {
     "@nightingale-elements/nightingale-colored-sequence": "5.4.0",
     "@nightingale-elements/nightingale-filter": "5.4.0",
-    "@nightingale-elements/nightingale-interpro-track": "5.4.0",
+    "@nightingale-elements/nightingale-interpro-track": "5.5.0",
     "@nightingale-elements/nightingale-linegraph-track": "5.4.0",
     "@nightingale-elements/nightingale-manager": "5.4.0",
     "@nightingale-elements/nightingale-navigation": "5.4.0",
     "@nightingale-elements/nightingale-sequence": "5.4.0",
     "@nightingale-elements/nightingale-sequence-heatmap": "5.4.0",
     "@nightingale-elements/nightingale-structure": "5.4.0",
-    "@nightingale-elements/nightingale-track": "5.4.0",
-    "@nightingale-elements/nightingale-variation": "5.4.0",
+    "@nightingale-elements/nightingale-track-canvas": "5.5.0",
+    "@nightingale-elements/nightingale-variation": "5.5.0",
     "color-hash": "2.0.2",
     "core-js": "3.13.0",
     "lit": "3.1.3",

package/src/adapters/proteomics-adapter.ts CHANGED Viewed

@@ -49,7 +49,7 @@ const transformData = (data) => {
           evidences: features[0].evidences,
           peptide: features[0].peptide,
           unique: features[0].unique,
-          ptms: features[0].ptms.map((ptm) => ({
+          residuesToHighlight: features[0].ptms.map((ptm) => ({
             name: ptm.name,
             position: ptm.position,
             sources: ptm.sources,

package/src/config.ts CHANGED Viewed

@@ -16,7 +16,7 @@ const proteinsApiServices = {
 };
 export type TrackType =
-  | 'nightingale-track'
+  | 'nightingale-track-canvas'
   | 'nightingale-interpro-track'
   | 'nightingale-colored-sequence'
   | 'nightingale-variation'
@@ -73,13 +73,13 @@ const config: ProtvistaConfig = {
     {
       name: 'MOLECULE_PROCESSING',
       label: 'Molecule processing',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'signal',
           label: 'Signal peptide',
           filter: 'SIGNAL',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -92,7 +92,7 @@ const config: ProtvistaConfig = {
           name: 'chain',
           label: 'Chain',
           filter: 'CHAIN',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -106,7 +106,7 @@ const config: ProtvistaConfig = {
           name: 'transit',
           label: 'Transit peptide',
           filter: 'TRANSIT',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -119,7 +119,7 @@ const config: ProtvistaConfig = {
           name: 'init_met',
           label: 'Initiator methionine',
           filter: 'INIT_MET',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -134,7 +134,7 @@ const config: ProtvistaConfig = {
           name: 'propep',
           label: 'Propeptide',
           filter: 'PROPEP',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -148,7 +148,7 @@ const config: ProtvistaConfig = {
           name: 'peptide',
           label: 'Peptide',
           filter: 'PEPTIDE',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -163,13 +163,13 @@ const config: ProtvistaConfig = {
     {
       name: 'SEQUENCE_INFORMATION',
       label: 'Sequence information',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'compbias',
           label: 'Compositional bias',
           filter: 'COMPBIAS',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -183,7 +183,7 @@ const config: ProtvistaConfig = {
           name: 'conflict',
           label: 'Sequence conflict',
           filter: 'CONFLICT',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -195,7 +195,7 @@ const config: ProtvistaConfig = {
         {
           name: 'non_cons',
           filter: 'NON_CONS',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           label: 'Non-adjacent residues',
           data: [
             {
@@ -209,7 +209,7 @@ const config: ProtvistaConfig = {
         {
           name: 'non_ter',
           filter: 'NON_TER',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           label: 'Non-terminal residue',
           data: [
             {
@@ -223,7 +223,7 @@ const config: ProtvistaConfig = {
         {
           name: 'unsure',
           filter: 'UNSURE',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           label: 'Sequence uncertainty',
           data: [
             {
@@ -237,7 +237,7 @@ const config: ProtvistaConfig = {
         {
           name: 'non_std',
           filter: 'NON_STD',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           label: 'Non-standard residue',
           data: [
             {
@@ -252,13 +252,13 @@ const config: ProtvistaConfig = {
     {
       name: 'TOPOLOGY',
       label: 'Topology',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'topo_dom',
           label: 'Topological domain',
           filter: 'TOPO_DOM',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -272,7 +272,7 @@ const config: ProtvistaConfig = {
           name: 'transmem',
           label: 'Transmembrane',
           filter: 'TRANSMEM',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -285,7 +285,7 @@ const config: ProtvistaConfig = {
           name: 'intramem',
           label: 'Intramembrane',
           filter: 'INTRAMEM',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -300,13 +300,13 @@ const config: ProtvistaConfig = {
     {
       name: 'DOMAINS',
       label: 'Domains',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'domain',
           label: 'Domain',
           filter: 'DOMAIN',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -319,7 +319,7 @@ const config: ProtvistaConfig = {
         {
           name: 'InterPro representative domain',
           label: 'InterPro Representative Domain',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'interpro-adapter',
@@ -332,7 +332,7 @@ const config: ProtvistaConfig = {
           name: 'region',
           label: 'Region',
           filter: 'REGION',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -346,7 +346,7 @@ const config: ProtvistaConfig = {
           name: 'repeat',
           label: 'Repeat',
           filter: 'REPEAT',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -360,7 +360,7 @@ const config: ProtvistaConfig = {
           name: 'motif',
           label: 'Motif',
           filter: 'MOTIF',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -373,7 +373,7 @@ const config: ProtvistaConfig = {
           name: 'zn_fing',
           label: 'Zinc finger',
           filter: 'ZN_FING',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -388,13 +388,13 @@ const config: ProtvistaConfig = {
     {
       name: 'SITES',
       label: 'Sites',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'metal',
           label: 'Metal binding',
           filter: 'METAL',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -407,7 +407,7 @@ const config: ProtvistaConfig = {
           name: 'site',
           label: 'Site',
           filter: 'SITE',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -420,7 +420,7 @@ const config: ProtvistaConfig = {
           name: 'ca_bind',
           label: 'Calcium binding',
           filter: 'CA_BIND',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -433,7 +433,7 @@ const config: ProtvistaConfig = {
           name: 'dna_bind',
           label: 'DNA binding',
           filter: 'DNA_BIND',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -447,7 +447,7 @@ const config: ProtvistaConfig = {
           name: 'np_bind',
           label: 'Nucleotide binding',
           filter: 'NP_BIND',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -461,7 +461,7 @@ const config: ProtvistaConfig = {
           name: 'binding',
           label: 'Binding site',
           filter: 'BINDING',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -475,7 +475,7 @@ const config: ProtvistaConfig = {
           name: 'act_site',
           label: 'Active site',
           filter: 'ACT_SITE',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -490,13 +490,13 @@ const config: ProtvistaConfig = {
     {
       name: 'PTM',
       label: 'PTM',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'mod_res',
           label: 'Modified residue',
           filter: 'MOD_RES',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -510,7 +510,7 @@ const config: ProtvistaConfig = {
           name: 'mod_res_ls',
           label: 'Modified residue (large scale data)',
           filter: 'MOD_RES_LS',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'proteomics-ptm-adapter',
@@ -523,7 +523,7 @@ const config: ProtvistaConfig = {
           name: 'carbohyd',
           label: 'Glycosylation',
           filter: 'CARBOHYD',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -536,7 +536,7 @@ const config: ProtvistaConfig = {
           name: 'disulfid',
           label: 'Disulfide bond',
           filter: 'DISULFID',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -550,7 +550,7 @@ const config: ProtvistaConfig = {
           name: 'crosslnk',
           label: 'Cross-link',
           filter: 'CROSSLNK',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -564,7 +564,7 @@ const config: ProtvistaConfig = {
           name: 'lipid',
           label: 'Lipidation',
           filter: 'LIPID',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -578,12 +578,12 @@ const config: ProtvistaConfig = {
     {
       name: 'EPITOPE',
       label: 'Epitopes',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'epitope',
           label: 'Epitope',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -597,12 +597,12 @@ const config: ProtvistaConfig = {
     {
       name: 'ANTIGEN',
       label: 'Antigenic sequences',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'antigen',
           label: 'Antibody binding sequences',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -616,13 +616,13 @@ const config: ProtvistaConfig = {
     {
       name: 'MUTAGENESIS',
       label: 'Mutagenesis',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'mutagen',
           label: 'Mutagenesis',
           filter: 'MUTAGEN',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -634,7 +634,7 @@ const config: ProtvistaConfig = {
         {
           name: 'othermutagen',
           label: 'Mutagenesis (large scale data)',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -713,13 +713,13 @@ const config: ProtvistaConfig = {
     {
       name: 'PROTEOMICS',
       label: 'Proteomics',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'unique',
           label: 'Unique peptide',
           filter: 'unique',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'proteomics-adapter',
@@ -732,7 +732,7 @@ const config: ProtvistaConfig = {
           name: 'non_unique',
           label: 'Non-unique peptide',
           filter: 'non_unique',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'proteomics-adapter',
@@ -744,7 +744,7 @@ const config: ProtvistaConfig = {
         {
           name: 'hpp',
           label: 'Human proteome project',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'proteomics-adapter',
@@ -756,7 +756,7 @@ const config: ProtvistaConfig = {
         {
           name: 'proteomics-ptm',
           label: 'PTM-containing peptide',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'proteomics-adapter',
@@ -770,12 +770,12 @@ const config: ProtvistaConfig = {
     {
       name: 'STRUCTURE_COVERAGE',
       label: 'PDBe 3D structure coverage',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'pdbe_cover',
           label: 'PDBe coverage',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           tooltip: 'PDBe 3D structure coverage',
           data: [
             {
@@ -854,13 +854,13 @@ const config: ProtvistaConfig = {
     {
       name: 'STRUCTURAL',
       label: 'Structural features',
-      trackType: 'nightingale-track',
+      trackType: 'nightingale-track-canvas',
       tracks: [
         {
           name: 'helix',
           label: 'Helix',
           filter: 'HELIX',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -873,7 +873,7 @@ const config: ProtvistaConfig = {
           name: 'strand',
           label: 'Beta strand',
           filter: 'STRAND',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -886,7 +886,7 @@ const config: ProtvistaConfig = {
           name: 'turn',
           label: 'Turn',
           filter: 'TURN',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',
@@ -900,7 +900,7 @@ const config: ProtvistaConfig = {
           name: 'coiled',
           label: 'Coiled coil',
           filter: 'COILED',
-          trackType: 'nightingale-track',
+          trackType: 'nightingale-track-canvas',
           data: [
             {
               adapter: 'feature-adapter',

package/src/protvista-uniprot.ts CHANGED Viewed

@@ -9,7 +9,7 @@ import NightingaleManager from '@nightingale-elements/nightingale-manager';
 import NightingaleNavigation from '@nightingale-elements/nightingale-navigation';
 import NightingaleSequence from '@nightingale-elements/nightingale-sequence';
 import NightingaleColoredSequence from '@nightingale-elements/nightingale-colored-sequence';
-import NightingaleTrack from '@nightingale-elements/nightingale-track';
+import NightingaleTrackCanvas from '@nightingale-elements/nightingale-track-canvas';
 import NightingaleInterproTrack from '@nightingale-elements/nightingale-interpro-track';
 import NightingaleVariation from '@nightingale-elements/nightingale-variation';
 import NightingaleLinegraphTrack from '@nightingale-elements/nightingale-linegraph-track';
@@ -129,7 +129,7 @@ class ProtvistaUniprot extends LitElement {
   registerWebComponents() {
     loadComponent('nightingale-navigation', NightingaleNavigation);
-    loadComponent('nightingale-track', NightingaleTrack);
+    loadComponent('nightingale-track-canvas', NightingaleTrackCanvas);
     loadComponent('nightingale-colored-sequence', NightingaleColoredSequence);
     loadComponent('nightingale-interpro-track', NightingaleInterproTrack);
     loadComponent('nightingale-sequence', NightingaleSequence);
@@ -238,9 +238,9 @@ class ProtvistaUniprot extends LitElement {
   async _loadDataInComponents() {
     await frame();
     Object.entries(this.data).forEach(([id, data]) => {
-      const element: NightingaleTrack | null = document.getElementById(
+      const element: NightingaleTrackCanvas | null = document.getElementById(
         `track-${id}`
-      ) as NightingaleTrack;
+      ) as NightingaleTrackCanvas;
       // set data if it hasn't changed
       if (element && element.data !== data) {
         element.data = data;
@@ -268,7 +268,7 @@ class ProtvistaUniprot extends LitElement {
         for (const track of currentCategory.tracks) {
           const elementTrack = document.getElementById(
             `track-${id}-${track.name}`
-          ) as NightingaleTrack | null;
+          ) as NightingaleTrackCanvas | null;
           if (elementTrack) {
             elementTrack.data = this.data[`${id}-${track.name}`];
           }
@@ -661,9 +661,9 @@ class ProtvistaUniprot extends LitElement {
     // lit-html doesn't allow to have dynamic tag names, hence the switch/case
     // with repeated code
     switch (trackType) {
-      case 'nightingale-track':
+      case 'nightingale-track-canvas':
         return html`
-          <nightingale-track
+          <nightingale-track-canvas
             length="${this.sequence?.length}"
             height="40"
             layout="${layout}"
@@ -675,7 +675,7 @@ class ProtvistaUniprot extends LitElement {
             highlight-event="onclick"
             use-ctrl-to-zoom
           >
-          </nightingale-track>
+          </nightingale-track-canvas>
         `;
       case 'nightingale-interpro-track':
         return html`

package/src/styles/protvista-styles.ts CHANGED Viewed

@@ -66,7 +66,7 @@ export default css`
     background-color: #d9faff;
   }
-  nightingale-track {
+  nightingale-track-canvas {
     border-top: 1px solid #d9faff;
   }

package/src/tooltips/feature-tooltip.ts CHANGED Viewed

@@ -114,15 +114,15 @@ const findModifiedResidueName = (feature, ptm) => {
 const formatTooltip = (feature, taxId?: string) => {
   const evidenceHTML =
     feature.type === 'PROTEOMICS_PTM'
-      ? getPTMEvidence(feature.ptms, taxId)
+      ? getPTMEvidence(feature.residuesToHighlight, taxId)
       : getEvidenceFromCodes(feature.evidences);
   const ptms =
     feature.type === 'PROTEOMICS_PTM' &&
-    feature.ptms.map((ptm) => findModifiedResidueName(feature, ptm));
+    feature.residuesToHighlight.map((ptm) => findModifiedResidueName(feature, ptm));
   const dataset =
     feature.type === 'PROTEOMICS_PTM' &&
-    feature.ptms.flatMap(({ dbReferences }) =>
+    feature.residuesToHighlight.flatMap(({ dbReferences }) =>
       dbReferences.map((ref) => ref.id)
     );
@@ -150,11 +150,6 @@ const formatTooltip = (feature, taxId?: string) => {
             : ''
         }
         ${description ? `<h5>Description</h5><p>${description}</p>` : ``}
-        ${
-          feature.matchScore
-            ? `<h5>Match score</h5><p>${feature.matchScore}%</p>`
-            : ``
-        }
         ${feature.ftId ? `<h5>Feature ID</h5><p>${feature.ftId}</p>` : ``}
         ${
           feature.alternativeSequence
@@ -173,7 +168,7 @@ const formatTooltip = (feature, taxId?: string) => {
           feature.peptide && feature.type === 'PROTEOMICS_PTM'
             ? `<h5 data-article-id="mod_res_large_scale#what-is-the-goldsilverbronze-criterion">Peptidoform</h5><p>${formatPTMPeptidoform(
                 feature.peptide,
-                feature.ptms
+                feature.residuesToHighlight
               )}</p>`
             : ``
         }
@@ -181,7 +176,8 @@ const formatTooltip = (feature, taxId?: string) => {
           feature.peptide && feature.type !== 'PROTEOMICS_PTM'
             ? `<h5>Peptide</h5><p>${feature.peptide}</p>`
             : ``
-        }
+        }
+        ${feature.unique ? `<h5>Unique</h5><p>${feature.unique ? 'Yes' : 'No'}</p>` : ``}
         ${
           feature.xrefs
             ? `<h5>Cross-references</h5>${formatXrefs(feature.xrefs)}`
@@ -189,7 +185,7 @@ const formatTooltip = (feature, taxId?: string) => {
         }
         ${evidenceHTML ? `<h5>Evidence</h5>${evidenceHTML}` : ``}
         ${
-          feature.ptms && dataset && !dataset.includes('Glue project')
+          feature.residues && dataset && !dataset.includes('Glue project')
             ? `<hr /><h5 data-article-id="mod_res_large_scale#what-is-the-goldsilverbronze-criterion">PTM statistical attributes</h5><ul class="no-bullet">${feature.ptms
                 .map((ptm) =>
                   ptm.dbReferences

package/src/.vscode/settings.json DELETED Viewed

@@ -1,3 +0,0 @@
-{
-  "window.title": "${rootPath}${separator}[new-ptm-builds]"
-}