ConvertSCNtoTIF.txt

input_directory = getArgument;
if (input_directory=="") exit ("No argument!");

input_latter_high = " color_mode=Default view=Hyperstack stack_order=XYCZT use_virtual_stack series_4";
input_latter_low = " color_mode=Default view=Hyperstack stack_order=XYCZT use_virtual_stack series_6";

filelist = getFileList(input_directory);

for (i=0; i<filelist.length; i++) {
    split_filename = split(filelist[i], ".");
    
    if (split_filename[1] == "scn") {
        run("Bio-Formats Importer", "open=" + input_directory + filelist[i] + input_latter_low);
        run("RGB Color");
        run("Save", "save=" + input_directory + split_filename[0] + ".low.tif");
        close();

        run("Bio-Formats Importer", "open=" + input_directory + filelist[i] + input_latter_high);
        run("RGB Color");
        run("Save", "save=" + input_directory + split_filename[0] + ".high.tif");
        close();
    }
}