P value filter for custom tracks and custom bg disabled

frontend/src/main/java/de/thm/spring/controller/ControllerHelper.java

@@ -259,6 +259,9 @@ public class ControllerHelper {
         command.setPositionCount(data.getPositionCount());
         command.setAssembly(collector.getAssembly().toString());
 
+        if (model.containsAttribute("showall") && model.asMap().get("showall").equals(true))
+            command.setShowall(true);
+
         //cut off filenames longer than 18 chars:
         if(filename != null)
             filename = filename.length() > 18 ? filename.substring(0, 15) + ".." : filename;

frontend/src/main/java/de/thm/spring/controller/UploadController.java

@@ -176,6 +176,7 @@ public class UploadController {
 
                 currentSession.setCollector(collector);
 
+                model.addAttribute("showall", true);
                 setModel(model, collector, currentSession.getSites(), name);
                 model.addAttribute("covariants", new ArrayList<>());
                 model.addAttribute("covariantCount", 0);
@@ -274,6 +275,7 @@ public class UploadController {
          }
 
 
+        model.addAttribute("showall", true);
         return withNewTrack(currentSession, model);
 
     }

frontend/src/main/java/de/thm/spring/controller/WizardController.java

@@ -180,19 +180,19 @@ public class WizardController {
             stats.addFileC();
 
             currentSession.setCollector(collector);
+            /*
             interfaceCommand.setMinBg(10000);
             interfaceCommand.setOriginalFilename(currentSession.getOriginalFilename());
             interfaceCommand.setHotspots(collector.getHotspots());
 
-            model.addAttribute("interfaceCommand", interfaceCommand);
+            model.addAttribute("interfaceCommand", newInterfaceCommand);
+            */
             model.addAttribute("tracks", currentSession.getCollector().getInOutResults(false));
             model.addAttribute("page", "covariates");
 
             model.addAttribute("sigTrackCount", collector.getSignificantTrackCount());
             model.addAttribute("trackCount", collector.getTrackCount());
 
-            //TODO
-
             return "result";
         }
         return "error";