sorry friends, the problem is that my file consists of 4 lines but only the second line should match and give the total count. For example the following two files 

data.txt

@gi
AGATC
+
E/AA#     1

@gi1
ACCTA
+
/66AE     3

[download]

data1.txt

@gi
AGATC
+
//AA#     2

@gi1
ACCTA
+
#66AE     5

[download]
The output should be: 
@gi
AGATC
+
E/AA#     3

@gi1
ACCTA
+
/66AE     8

[download]
It should sum the second column of both file only if second line matches. but it is giving the output as: 
@gi
AGATC
+
E/AA#     1

@gi1
ACCTA
+
/66AE     3

@gi
AGATC
+
//AA#     2

@gi1
ACCTA
+
#66AE     5

[download]
It is comparing all the four lines. My script is the same: 

my %compare;

$/="";
while (<>) {
chomp;
    my ( $key, $value ) = split('\t\s', $_);

   

    push( @{ $compare{$key} }, $value );

}

foreach my $key ( sort keys %compare ) {
my $tot = 0;
my $file_count = @ARGV;
for my $val ( @{$compare{$key}} ) {
        $tot += ( split /:/, $val )[0];
    }   
    
if ( @{ $compare{$key} } >= $file_count) {


        print join( "\t", $key, $tot, @{ $compare{$key} } ), "\n\n";
    }
}

[download]

In reply to Re^2: count total number of occurrence in all files by Anonymous Monk
in thread Reaped: count total number of occurrence in all files by NodeReaper

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