ENH: finer granularity for CleanFunctions

- separate handling of auxiliary files vs time directories

- restore0Dir: avoid removing 0/ if 0.orig/ does not exist

tutorials/verificationAndValidation/StefanProblem/Allrun

@@ -53,6 +53,7 @@ collect() {
         echo "      # Cleaning up the case"
 
         cleanTimeDirectories
+        cleanAuxiliary
         cleanPostProcessing
 
     else

tutorials/verificationAndValidation/atmosphericModels/atmDownstreamDevelopment/Allrun

@@ -52,6 +52,7 @@ collect() {
         echo "      # Cleaning up the case"
 
         cleanTimeDirectories
+        cleanAuxiliary
         cleanPostProcessing
 
     else

tutorials/verificationAndValidation/atmosphericModels/atmFlatTerrain/precursor/Allrun

@@ -54,6 +54,7 @@ collect() {
         echo "      # Cleaning up the case"
 
         cleanTimeDirectories
+        cleanAuxiliary
         cleanPostProcessing
 
     else

tutorials/verificationAndValidation/atmosphericModels/atmFlatTerrain/successor/Allrun

@@ -55,6 +55,7 @@ collect() {
         echo "      # Cleaning up the case"
 
         cleanTimeDirectories
+        cleanAuxiliary
         cleanPostProcessing
 
     else

tutorials/verificationAndValidation/atmosphericModels/atmForestStability/Allrun

@@ -57,6 +57,7 @@ collect() {
         echo "      # Cleaning up the case"
 
         cleanTimeDirectories
+        cleanAuxiliary
         cleanPostProcessing
 
     else

tutorials/verificationAndValidation/turbulentInflow/oneCellThickPlaneChannel/Allrun

@@ -54,6 +54,7 @@ collect() {
         echo "      # Cleaning up the case"
 
         cleanTimeDirectories
+        cleanAuxiliary
         cleanPostProcessing
 
     else