Some header work

workflow/qhtcp-workflow

@@ -299,6 +299,8 @@ print_header() {
 
 	EOF
 
+  echo "Arguments: $*"
+  echo ""
   echo "Using scans directory: $SCANS_DIR"
   echo "Change the SCANS_DIR environment variable to override"
   echo "Example: SCANS_DIR=/path/to/scans ./qhtcp-workflow"
@@ -312,31 +314,44 @@ print_header() {
   projects=("$SCANS_DIR"/*/)
   shopt -u nullglob
 
-  projects=("${projects[@]%/}") # strip comma first!
-  projects=("${projects[@]##*/}")
-
-
-  echo "Available Projects:"
-  for i in "${!projects[@]}"; do
-    printf "%d. %s\n" "$((i+1))" "${projects[i]}"
-  done
-  echo ""
   echo "Available Modules:"
   for i in "${!ALL_MODULES[@]}"; do
     printf "%d. %s\n" "$((i+1))" "${ALL_MODULES[i]}"
   done
   echo ""
+
   echo "Available Submodules:"
   for i in "${!ALL_SUBMODULES[@]}"; do
     printf "%d. %s\n" "$((i+1))" "${ALL_SUBMODULES[i]}"
   done
+  echo ""
 
-  last_index=$(( ${#ALL_MODULES} - 1 ))
+  echo "Available Projects:"
+  projects=("${projects[@]%/}") # strip comma first!
+  projects=("${projects[@]##*/}")
+  for i in "${!projects[@]}"; do
+    printf "%d. %s\n" "$((i+1))" "${projects[i]}"
+  done
+  echo ""
+
+  if [[ -z $PROJECT ]]; then
+    last=${#projects[@]}
+    echo "Enter project number(s) to run (comma deliminated)"
+    ((YES)) || read -r -p "Hit enter to select default ($((last + 1))): " response1
+    [[ -z $response1 ]] && response1=$last
+    IFS=',' read -ra arr <<< "$response1"
+    declare -gxa PROJECTS
+    for i in "${arr[@]}"; do
+      PROJECTS+=("${projects[$((i-1))]}")
+    done
+  fi
+
+  # last_index=$(( ${#ALL_MODULES} - 1 ))
   read -r -p "Enter a comma deliminated list of modules to run: " response1
   IFS=',' read -ra MODULES <<< "$response1"
 
-  last_index=$(( ${#ALL_SUBMODULES} - 1 ))
-  read -r -p "Enter the item number to select EASY results directory, default ($last_index): " response2
+  # last_index=$(( ${#ALL_SUBMODULES} - 1 ))
+  read -r -p "Enter a comma deliminated list of submodules to run: " response2
   IFS=',' read -ra SUBMODULES <<< "$response2"
 
   # cat <<-EOF
@@ -1592,10 +1607,10 @@ main() {
   
   declare -a PROJECTS=() # this array will hold all of the projects for this run
 
-  print_header
-
   parse_input "$@" # parse arguments with getopt
 
+  print_header "$@"
+
   # Prompt user for the PROJECT if we still don't have one
   if [[ ${#PROJECTS[@]} -eq 0 ]]; then
     ask_pn && PROJECTS+=("$PROJECT")