Rename several single-cell tools

Author: bbimber

singlecell/api-src/org/labkey/api/singlecell/CellHashingService.java

@@ -277,9 +277,8 @@ public enum CALLING_METHOD
         multiseq(true),
         htodemux(false),
         dropletutils(true),
-        threshold(false),
-        peaknd(false),
-        seqnd(false);
+        bff(true);
+        //bff_rec(true);
 
         boolean isDefault;
 

singlecell/resources/web/singlecell/panel/PoolImportPanel.js

@@ -285,7 +285,8 @@ Ext4.define('SingleCell.panel.PoolImportPanel', {
             if (val && !Ext4.isNumeric(val)) {
                 val = val.replace(/[^0-9]+/, '');
             }
-            if (workbook && Ext4.isNumeric(val) && workbook !== val){
+
+            if (workbook && Ext4.isNumeric(val)){
                 return workbook + '-' + val;
             }
 

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

@@ -21,7 +21,7 @@ public static class Provider extends AbstractPipelineStepProvider<SingleCellStep
     {
         public Provider()
         {
-            super("DimPlots", "Create DimPlots", "Seurat", "This will generate DimPlots grouped by the variables below. Any variable not present is skipped.", Arrays.asList(
+            super("DimPlots", "DimPlots", "Seurat", "This will generate DimPlots grouped by the variables below. Any variable not present is skipped.", Arrays.asList(
                     SeuratToolParameter.create("fieldNames", "Fields To Plot", "Enter one field name per line", "sequenceanalysis-trimmingtextarea", new JSONObject(){{
                         put("allowBlank", false);
                         put("height", 150);

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

@@ -21,7 +21,7 @@ public static class Provider extends AbstractPipelineStepProvider<SingleCellStep
     {
         public Provider()
         {
-            super("FeaturePlots", "Create FeaturePlots", "Seurat", "This will generate FeaturePlots for each of the features/variables below. Any variable not present is skipped.", Arrays.asList(
+            super("FeaturePlots", "FeaturePlots", "Seurat", "This will generate FeaturePlots for each of the features/variables below. Any variable not present is skipped.", Arrays.asList(
                     SeuratToolParameter.create("fieldNames", "Fields To Plot", "Enter one field name per line", "sequenceanalysis-trimmingtextarea", new JSONObject(){{
                         put("allowBlank", false);
                         put("height", 150);

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

@@ -21,7 +21,7 @@ public static class Provider extends AbstractPipelineStepProvider<SingleCellStep
     {
         public Provider()
         {
-            super("PhenotypePlots", "Create Phenotype Plots", "Seurat", "This will generate FeaturePlots for a pre-defined set of immune markers. Any feature not present is skipped.", null, Arrays.asList("/sequenceanalysis/field/TrimmingTextArea.js"), null);
+            super("PhenotypePlots", "Immune Phenotype Plots", "Seurat", "This will generate FeaturePlots for a pre-defined set of immune markers. Any feature not present is skipped.", null, Arrays.asList("/sequenceanalysis/field/TrimmingTextArea.js"), null);
         }
 
         @Override