Download and extract NCBI taxonomy files

installtaxonomy.pl

#!/usr/bin/env perl

my $base  = "ftp://ftp.ncbi.nlm.nih.gov/pub/taxonomy/";

my @files = qw/gi_taxid_nucl.dmp.gz
               gi_taxid_prot.dmp.gz
               taxdump.tar.gz
               taxcat.tar.gz/;

foreach my $file (@files) {
  my $ftpfile = $base . $file;
  print "Getting $file ($ftpfile)\n";
  system ("wget", $ftpfile);

  print "Extracting $file\n";
  if ($file =~ /tar.gz$/) {
    system("tar","xvzf", $file);
  }
  else {
    system ("gunzip", "-f", $file);
  }
}