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improve error handling when SPARQL endpoint cannot be reached
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‎index.html‎

Lines changed: 65 additions & 12 deletions
Original file line numberDiff line numberDiff line change
@@ -16,22 +16,75 @@
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<body>
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<div>
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<!-- <sparql-editor endpoint="https://sparql.uniprot.org/sparql/"></sparql-editor> -->
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<!-- <sparql-editor
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endpoint="https://sparql.uniprot.org/sparql/"
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describeLinks='["https://sparql.uniprot.org/sparql",""]'
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style="--btn-color: white; --btn-bg-color: #e30613;"
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>
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<p>About</p>
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</sparql-editor> -->
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<!-- <sparql-editor endpoint="https://sparql.uniprot.org/sparql/" style="--btn-bg-color: #00709b; --btn-color: white;"></sparql-editor> -->
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<!-- UNIPROT -->
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<!-- <sparql-editor endpoint="https://sparql.uniprot.org/sparql/">
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<h4>About</h4>
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<p>
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This SPARQL endpoint contains all UniProt data. It is free to access and supports the
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<a href="http://www.w3.org/TR/sparql11-query/">SPARQL 1.1 Standard</a>.
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</p>
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<p>
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There are 0 triples in this release (2024_04). The query timeout is 45 minutes. All triples are available in
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the default graph. There are 21 named graphs.
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</p>
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<h4>Documentation</h4>
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<ol>
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<li><a href="http://purl.uniprot.org/core/">Classes and predicates defined by the UniProt consortium</a></li>
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<li>
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<a href="https://github.com/sib-swiss/sparql-training/tree/master/uniprot"
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>Tutorial on using SPARQL with UniProt</a
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>
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</li>
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<li><a href="/.well-known/void">Statistics and diagrams</a></li>
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</ol>
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</sparql-editor> -->
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<!-- BGEE -->
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<sparql-editor endpoint="https://www.bgee.org/sparql/">
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<h1>About</h1>
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<p>Checkout <a href="">Ontology and infos...</a></p>
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<h3 style="text-align: center">About</h3>
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<p>
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Tutorial and documentation:
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<a href="https://purl.org/sib-rdf/bgee-tutorial">Querying the Bgee knowledge graph</a>
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</p>
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<p>
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Ontology (data schema): <a href="https://purl.org/genex/documentation">GenEx semantic model specification</a>
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</p>
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<p>Support: <a href="https://github.com/BgeeDB/bgee_pipeline/issues">open an issue here</a></p>
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</sparql-editor>
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<!-- <sparql-editor endpoint="https://sparql.omabrowser.org/sparql/"></sparql-editor> -->
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<!-- OMA -->
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<!-- <sparql-editor endpoint="https://sparql.omabrowser.org/sparql/">
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<h3 class="space-margin space-top">About OMA SPARQL Endpoint</h3>
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<p class="query-text space-margin">
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The OMA SPARQL endpoint is reachable by using your preferable programming language or SPARQL interface through
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the following URL address:
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<a href="https://sparql.omabrowser.org/sparql">https://sparql.omabrowser.org/sparql</a>.
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</p>
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<p class="query-text space-margin">
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The OMA SPARQL endpoint is updated in sync with the <a href="https://omabrowser.org">OMA Browser</a>. The data
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of the current release as well of the previous releases
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<a href="https://omabrowser.org/oma/current">can be downloaded</a> from the download section of the OMA
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Browser as turtle files (look out for <em>OMA Browser in RDF</em>).
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</p>
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<p></p>
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<h3 class="space-margin">RDF Serialisation and Ontologies</h3>
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<p class="query-text space-margin">
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The RDF serialisation of the OMA Hierarchical Orthologous Groups is based on the
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<a href="https://qfo.github.io/OrthologyOntology/">ORTH ontology specification</a> in the context of the Quest
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for Orthologs (QfO) consortium (see GitHub repository
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<a href="https://github.com/qfo/OrthologyOntology">here</a>).
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</p>
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<p></p>
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<p class="query-text space-margin space-bottom">
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To cross-reference other resources, this SPARQL endpoint contains annotation property assertions defined by a
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first draft of the life-sciences cross-reference (LSCR) ontology that is available to download at the Quest
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for Orthologs github repository <a href="https://github.com/qfo/OrthologyOntology">here</a> -
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<a href="https://github.com/qfo/OrthologyOntology/blob/master/lscr.ttl">lscr.ttl</a> file.
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</p>
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</sparql-editor> -->
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<!-- <sparql-editor endpoint="https://beta.sparql.swisslipids.org/sparql/"></sparql-editor> -->
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</div>
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‎src/sparql-editor.ts‎

Lines changed: 15 additions & 11 deletions
Original file line numberDiff line numberDiff line change
@@ -218,7 +218,7 @@ export class SparqlEditor extends HTMLElement {
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}
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return clsList;
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} catch (error) {
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console.warn("Error retrieving autocomplete for classes:", error);
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console.warn(`Error retrieving classes for autocomplete from ${this.endpointUrl} VoID description:`, error);
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return [];
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}
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},
@@ -243,7 +243,7 @@ export class SparqlEditor extends HTMLElement {
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}
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return propsList;
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} catch (error) {
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console.warn("Error retrieving autocomplete for properties:", error);
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console.warn(`Error retrieving properties for autocomplete from ${this.endpointUrl} VoID description:`, error);
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return [];
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}
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},
@@ -323,13 +323,17 @@ export class SparqlEditor extends HTMLElement {
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}
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async getPrefixes() {
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const response = await fetch(
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`${this.endpointUrl}?format=json&ac=1&query=PREFIX sh: <http://www.w3.org/ns/shacl%23> SELECT ?prefix ?namespace WHERE { [] sh:namespace ?namespace ; sh:prefix ?prefix} ORDER BY ?prefix`,
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);
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const json = await response.json();
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json.results.bindings.forEach((b: any) => {
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this.prefixes.set(b.prefix.value, b.namespace.value);
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});
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try {
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const response = await fetch(
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`${this.endpointUrl}?format=json&ac=1&query=PREFIX sh: <http://www.w3.org/ns/shacl%23> SELECT ?prefix ?namespace WHERE { [] sh:namespace ?namespace ; sh:prefix ?prefix} ORDER BY ?prefix`,
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);
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const json = await response.json();
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json.results.bindings.forEach((b: any) => {
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this.prefixes.set(b.prefix.value, b.namespace.value);
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});
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} catch (error) {
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console.warn(`Error retrieving Prefixes from ${this.endpointUrl}:`, error);
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}
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}
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async getVoidDescription() {
@@ -368,7 +372,7 @@ WHERE {
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}
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});
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} catch (error) {
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console.warn("Error retrieving VoID description for autocomplete:", error);
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console.warn(`Error retrieving VoID description from ${this.endpointUrl} for autocomplete:`, error);
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}
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}
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@@ -518,7 +522,7 @@ SELECT DISTINCT ?sq ?comment ?query WHERE {
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document.body.style.overflow = "";
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});
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} catch (error) {
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console.warn("Error fetching or processing example queries:", error);
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console.warn(`Error fetching or processing example queries from ${this.endpointUrl}:`, error);
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}
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}
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