Update isWorkflowTypeJoined to support Pinery's HISEQ_ONBOARD (OnBoar…

…dClustering)
oicr-gsi · Feb 12, 2024 · 79373f6 · 79373f6
1 parent c0f11d8
commit 79373f6
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diff --git a/changes/change_flowcell_is_workflow_joined_type.md b/changes/change_flowcell_is_workflow_joined_type.md
@@ -0,0 +1 @@
+Add support for Pinery's HISEQ_ONBOARD workflow type
diff --git a/plugin-runscanner/src/main/java/ca/on/oicr/gsi/shesmu/runscanner/RunScannerPluginType.java b/plugin-runscanner/src/main/java/ca/on/oicr/gsi/shesmu/runscanner/RunScannerPluginType.java
@@ -59,7 +59,12 @@ public static Set<Set<Long>> getFlowcellLayout(
           "Check if a sequencing workflow type has a flow cell where all the lanes are joined or not.")
   public static boolean isWorkflowTypeJoined(
       @ShesmuParameter(description = "The type of the workflow") String workflowType) {
-    return workflowType.equals("NovaSeqStandard") || workflowType.equals("OnBoardClustering");
+    return workflowType.equals("NovaSeqStandard")
+        || workflowType.equals("OnBoardClustering")
+        // Note: HISEQ_ONBOARD == OnBoardClustering
+        // Pinery exports OnBoardClustering as HISEQ_ONBOARD
+        // See: https://jira.oicr.on.ca/browse/GP-3456 and https://jira.oicr.on.ca/browse/GLT-3661
+        || workflowType.equals("HISEQ_ONBOARD");
   }
 
   public RunScannerPluginType() {