Use full filepath

bbimber · bbimber · commit c3377a96bafd · 2025-06-13T06:35:45.000-07:00
diff --git a/singlecell/api-src/org/labkey/api/singlecell/pipeline/AbstractSingleCellPipelineStep.java b/singlecell/api-src/org/labkey/api/singlecell/pipeline/AbstractSingleCellPipelineStep.java
@@ -478,9 +478,9 @@ protected Collection<File> getAdditionalDockerInputs(SequenceOutputHandler.JobCo
         return Collections.emptySet();
     }
 
-    protected String printInputFile(SeuratObjectWrapper so)
+    private String printInputFile(SeuratObjectWrapper so)
     {
-        return "'" + so.getFile().getName() + "'";
+        return "'" + so.getFile().getPath() + "'";
     }
 
     protected Chunk createFinalChunk() throws PipelineJobException

Original file line number	Diff line number	Diff line change
`@@ -478,9 +478,9 @@ protected Collection<File> getAdditionalDockerInputs(SequenceOutputHandler.JobCo`
`478`	`478`	`return Collections.emptySet();`
`479`	`479`	`}`
`480`	`480`
`481`		`- protected String printInputFile(SeuratObjectWrapper so)`
	`481`	`+ private String printInputFile(SeuratObjectWrapper so)`
`482`	`482`	`{`
`483`		`- return "'" + so.getFile().getName() + "'";`
	`483`	`+ return "'" + so.getFile().getPath() + "'";`
`484`	`484`	`}`
`485`	`485`
`486`	`486`	`protected Chunk createFinalChunk() throws PipelineJobException`