wangyufeng的博客

#!/usr/bin/perl  my $usage = "Usage: $0 [-h] [-v] [infile]\n" .             "  -h  help\n" .             "  -v  verbose (print name conversion in STDERR)\n" .             " infile should be a phylip or paml format (one liner), " .             "STDIN is used if no infile is given\n";  use IO::File; use Getopt::Std; getopts('hv') || die "$usage\n";  die "$usage\n" if (defined ($opt_h));  my $totNumChar = 10;  # number of characters allowed for name in phylip my $numFrontChar = 7; # When the name is too long, this amount of characters                       # are used from the beginning of the name, and the rest                       # are from the end of the name.  while(<>){      next if ($. == 1);  # skip the first line      chomp;     s/^\s+//; s/\s$//;     next if (/^$/);      my @line = split (/\s+/);      my @nameChar = split (//, $line[0]);      if (@nameChar > $totNumChar) {  if ( /^(.{$totNumChar})/ ) {      $name = $1;  }     } else {  $name = $line[0];     }      s/$name//;     s/^\s+//;      print ">$name\n$_\n"; }