Update escape argument name

Author: bbimber

singlecell/resources/chunks/RunEscape.R

@@ -2,7 +2,7 @@ for (datasetId in names(seuratObjects)) {
     printName(datasetId)
     seuratObj <- readSeuratRDS(seuratObjects[[datasetId]])
 
-    seuratObj <- CellMembrane::RunEscape(seuratObj, outputAssayName = outputAssayName, doPlot = TRUE, performDimRedux = performDimRedux)
+    seuratObj <- CellMembrane::RunEscape(seuratObj, outputAssayBaseName = outputAssayBaseName, doPlot = TRUE, performDimRedux = performDimRedux)
 
     saveData(seuratObj, datasetId)
 

singlecell/src/org/labkey/singlecell/pipeline/singlecell/RunEscape.java

@@ -21,9 +21,9 @@ public static class Provider extends AbstractPipelineStepProvider<SingleCellStep
         public Provider()
         {
             super("RunEscape", "Escape/ssGSEA", "escape", "Runs escape to perform ssGSEA using Hallmark gene sets.", Arrays.asList(
-                    SeuratToolParameter.create("outputAssayName", "Output Assay Name", "The name of the assay to store results", "textfield", new JSONObject(){{
+                    SeuratToolParameter.create("outputAssayBaseName", "Output Assay Basename", "The name of the assay to store results", "textfield", new JSONObject(){{
                         put("allowBank", false);
-                    }}, "escape.ssGSEA"),
+                    }}, "escape."),
                     SeuratToolParameter.create("performDimRedux", "Perform DimRedux", "If true, the standard seurat PCA/FindClusters/UMAP process will be run on the escape data. This may be most useful when using a customGeneSet or a smaller set of features/pathways", "checkbox", new JSONObject(){{
 
                     }}, false, null, true)