this is my code for comparing 2 files and checking if the lines match.. 
#!usr/bin/perl -w
use strict;
use autodie;
my @human = 'C:\strawberry\perl\bin\humanpathway.txt';
open(HUMAN, "<", @human);
my @hum =<HUMAN>;
my @output = 'C:\strawberry\perl\bin\output.txt';
open(OUTPUT, ">", @output);
my @output =<OUTPUT>;
my@bact = 'C:\strawberry\perl\bin\bactpathway.txt';
open(BACT, "<", @bact);
my @bact =<BACT>;
my $hlindex= $#hum;
my $blindex= $#bact;
for (my $i=0; $i<=$hlindex; $i++)
{
chomp $hum[$i];
my@arr1 = split ("\t",$hum[$i]);
my$flag=0;
for (my $j=0; $j<=$blindex; $j++)
{
chomp $bact[$j];
my @arr2= split ("\t",$bact[$j]);
if ( $arr1[1] eq $arr2[1] && $arr1[2] eq $arr2[2] && $arr1[3] eq $arr2
+[3])
{
if ($flag==0)
{
print OUTPUT "$hum[$i]\n";
my $flag=1;
}
print OUTPUT "$bact[$j]\n";
}
}
}
close HUMAN;
close BACT;
close OUTPUT;

[download]
the error i get while running is: Use of uninitialised value in string eq at (filepath) <BACT> line 17 I can't seem to figure out what is the real problem..can someone help?

In reply to comparing data btwn 2 files by Anonymous Monk

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