@@ -146,7 +146,7 @@ lastz <- function(assemblyTarget, assemblyQuery,

       ## Self-alignment

       cmd <- paste0(binary, " ", assemblyTarget, "/",

                     gsub("|", "\\|", chrTarget, fixed=TRUE), " ",

-                    "--self --nomirror",

+                    "--self --nomirror", " ",

                     lastzOptions[[distance]],

                     " --format=", format,

                     " --output=", output,