qq(echo "$filename.txt\n$filename.xls\n" | phylip );
qq~echo "$filename.txt\n$filename.xls\n" | phylip ~;

##</code><code>##

system qq(echo "$filename.txt\n$filename.xls\n" | phylip );
system qq~echo "$filename.txt\n$filename.xls\n" | phylip ~;