Add debugging output

workflow/qhtcp-workflow

@@ -1496,7 +1496,7 @@ main() {
     fi
   done
   if ! [[ -d $SCANS_DIR ]]; then
-    # This is not somethign we do often, so ask
+    # This is not something we do often, so ask
     if ask "Create the scans directory: $SCANS_DIR?"; then
       mkdir -p "$SCANS_DIR"
     else
@@ -1510,7 +1510,6 @@ main() {
 
   local out_heirarchy=("$(dirname "$SCANS_DIR")/out" "$SCRIPT_DIR/out" "/mnt/data/out")
   for d in "${out_heirarchy[@]}"; do
-    debug "Checking if $d exists in Scans directory heirarchy"
     if [[ -d $d ]]; then
       debug "Using output directory: $d"
       declare -g OUT_DIR="$d"
@@ -1518,6 +1517,15 @@ main() {
     fi
   done
 
+  if [[ -z $OUT_DIR ]]; then
+    echo "No output directory found"
+    if ask "Create $SCRIPT_DIR/out? "; then
+      mkdir "$SCRIPT_DIR/out"
+    else
+      err "No output directory, but attempting to continue..."
+    fi
+  fi
+
   # Set the automatic project directory prefix
   PROJECT_USER="$(whoami)"
   PROJECT_PREFIX="${DATE}_${PROJECT_USER}" # reversed these so easier to sort and parse date