Switch error to warning

bbimber · bbimber · commit 14ae9843b261 · 2024-03-16T09:32:18.000-07:00
diff --git a/singlecell/src/org/labkey/singlecell/CellHashingServiceImpl.java b/singlecell/src/org/labkey/singlecell/CellHashingServiceImpl.java
@@ -192,8 +192,8 @@ public void prepareHashingAndCiteSeqFilesIfNeeded(File sourceDir, PipelineJob jo
                     {
                         if (results.getObject(FieldKey.fromString("hashingReadsetId")) == null)
                         {
-                            job.getLogger().error("cDNA specifies HTO, but does not list a hashing readset: " + results.getString(FieldKey.fromString("rowid")));
-                            hasError.set(true);
+                            // NOTE: there can be lanes with single HTOs/lane. This will fail down the line
+                            job.getLogger().warn("cDNA specifies HTO, but does not list a hashing readset: " + results.getString(FieldKey.fromString("rowid")) + ". This may not be a problem if there is a single sample per lane");
                         }
                         else
                         {

Original file line number	Diff line number	Diff line change
`@@ -192,8 +192,8 @@ public void prepareHashingAndCiteSeqFilesIfNeeded(File sourceDir, PipelineJob jo`
`192`	`192`	`{`
`193`	`193`	`if (results.getObject(FieldKey.fromString("hashingReadsetId")) == null)`
`194`	`194`	`{`
`195`		`- job.getLogger().error("cDNA specifies HTO, but does not list a hashing readset: " + results.getString(FieldKey.fromString("rowid")));`
`196`		`- hasError.set(true);`
	`195`	`+ // NOTE: there can be lanes with single HTOs/lane. This will fail down the line`
	`196`	`+ job.getLogger().warn("cDNA specifies HTO, but does not list a hashing readset: " + results.getString(FieldKey.fromString("rowid")) + ". This may not be a problem if there is a single sample per lane");`
`197`	`197`	`}`
`198`	`198`	`else`
`199`	`199`	`{`