Not really help to your problem, just a few comments:

1. You do not have

   use strict;
   use warnings;
   [download]

2. The code

   @logs = <@ARGV>;
   [download]

   is supposed to glob the parameters (expand *.txt to the list of files that match that wildcard) right? You might like G better.

3. @tokens = split("\t",$currentLine);
   my @temp = ($tokens[1], $tokens[2], $tokens[3], $tokens[4]);
   $reports{$tokens[0]}=\@temp;
   my @data=();
   $results{$tokens[0]}=\@data;
   [download]

   would be better writen like this:

   my ($rep, @tokens) = split("\t",$currentLine);
   $reports{$rep}=\@tokens;
   $results{$rep}=[];
   [download]

4. foreach $logfile(@logs) should be foreach my $logfile(@logs). The same for other loops.

Jenda
Always code as if the guy who ends up maintaining your code will be a violent psychopath who knows where you live.
   -- Rick Osborne

Edit by castaway: Closed small tag in signature