Use riot to merge turtles

hubmapconsortium · Nov 22, 2024 · a0001ab · a0001ab
1 parent 5f718fa
commit a0001ab
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Showing 2 changed files with 7 additions and 3 deletions.
diff --git a/src/finalizing/merge-catalogs.js b/src/finalizing/merge-catalogs.js
@@ -1,7 +1,6 @@
 import { resolve } from 'path';
 import sh from 'shelljs';
-import { mergeTurtles } from '../utils/blazegraph.js';
-import { reifyTurtle } from '../utils/reify.js';
+import { mergeTurtles, reifyTurtle } from '../utils/reify.js';
 
 export function mergeCatalogs(context) {
   const graphs = listMetadataGraphs(context);

diff --git a/src/utils/reify.js b/src/utils/reify.js
@@ -72,10 +72,15 @@ export function reifyTurtle(inputPath, graphName, jsonldIsJson = false) {
 export function convert(inputPath, outputPath, outputFormat, graphName) {
   let command = `riot --merge --nocheck --output=${outputFormat} "${inputPath}"`;
   if (isJsonLd(inputPath)) {
-    command = `cat "${inputPath}" | jsonld toRdf -q | riot --merge --nocheck --output=turtle`
+    command = `cat "${inputPath}" | jsonld toRdf -q | riot --merge --nocheck --output=turtle`;
   }
   if (graphName && outputFormat === FORMATS.nq) {
     command += ` | perl -pe 's|\ \.\n|\ <${graphName}> .\n|g'`;
   }
   throwOnError(`${command} > ${outputPath}`, `Failed to convert to '${outputFormat}' format.`);
 }
+
+export function mergeTurtles(outputPath, _prefixesPath, ontologyPaths) {
+  const inputFiles = ontologyPaths.join(' ');
+  throwOnError(`riot --merge --nocheck --output=turtle ${inputFiles} > ${outputPath}`, `${inputFiles} failed to load`);
+}