section "I/O"
option "input" i "Input CT image filename" string yes
-option "afdb" a "Output Anatomical Feature DB (Carina position)" string no
-option "output" o "Output lungs mask filename" string yes
-option "outputTrachea" t "Output trachea mask filename" string no
+option "afdb" a "Output Anatomical Feature DB (Carina position)" string no default="default.afdb"
+option "output" o "Output lungs mask filename" string no default="lung.mhd"
+option "outputTrachea" t "Output trachea mask filename" string no default="trachea.mhd"
section "Step 1 : Air remove"
option "doNotFillHoles" - "Do not fill holes if set" flag on
option "dir" d "Directions (axes) to perform filling (defaults to 2,1,0)" int multiple no
+option "noAutoCrop" - "If set : do no crop final mask to BoundingBox" flag off