Adding retry if concurrent update exception during indexing build (#1152

)

* adding retry if concurrent update

* moving comment down

* Adding sleep on retry

indexer/src/main/java/bio/terra/tanagra/indexing/job/dataflow/WriteRollupCounts.java

@@ -21,6 +21,7 @@
 import com.google.api.services.bigquery.model.TableFieldSchema;
 import com.google.api.services.bigquery.model.TableRow;
 import com.google.api.services.bigquery.model.TableSchema;
+import com.google.cloud.bigquery.BigQueryException;
 import com.google.cloud.bigquery.Table;
 import jakarta.annotation.Nullable;
 import java.util.ArrayList;
@@ -159,9 +160,36 @@ public void run(boolean isDryRun) {
       LOGGER.info("Rollup counts source SQL is defined. Skipping Dataflow job.");
     }
 
-    // Dataflow jobs can only write new rows to BigQuery, so in this second step, copy over the
-    // count values to the corresponding column in the index entity main table.
-    copyFieldsToEntityTable(isDryRun);
+    final int maxRetries = 5;
+    var attempt = 0;
+
+    while (attempt < maxRetries) {
+      try {
+        // Dataflow jobs can only write new rows to BigQuery, so in this second step, copy over the
+        // count values to the corresponding column in the index entity main table.
+        copyFieldsToEntityTable(isDryRun);
+        return; // Exit if successful
+      } catch (BigQueryException e) {
+        if (e.getMessage().contains("due to concurrent update")) {
+          attempt++;
+          LOGGER.info("Attempt {} failed: {}", attempt, e.getMessage());
+
+          if (attempt == maxRetries) {
+            LOGGER.info("Max retries reached. Giving up.");
+            throw e; // Rethrow after max attempts
+          }
+
+          try {
+            Thread.sleep(1000); // Sleep for 1 second
+          } catch (InterruptedException ie) {
+            Thread.currentThread().interrupt();
+            throw new RuntimeException("Retry interrupted", ie);
+          }
+        } else {
+          throw e; // Rethrow if it's a different exception
+        }
+      }
+    }
   }
 
   @Override