I have two fastafiles
I want to compare both and look for best hits:
I am using the following code:

#!/usr/bin/perl -w
use strict;
open (IN, ARGV[0]);
my %assem = ();
while(my $line = <IN>){
        chomp $line;
        my @parseblast = split(/\s+/, $line);
        $parseblast[0] =~ s/\s+//g;
        $parseblast[1] =~ s/\s+//g;
        print $parseblast{0}."\n";
        $assem{$parseblast[0]} = $parseblast[1];
}
close IN;

open(IN, $ARGV[1]);
my %clc = ();
while(my $line = <IN>){
        chomp $line;
        my @assemblast = split(/\s+/, $line);
        $assemblast[0] =~ s/\s+//g;
        $assemblast[1] =~ s/\s+//g;
        print $assemblast[0]."\n";
        $clc{$assemblast[0]} = $assemblast[1];
}
close IN;

my $c=0
while(my $k = each(%assemblast)){
        if($clc{$assemblast{$k}} eq $k){
        $ c++;
        }
}
print $c;
[download]

when running:

perl compareAssemblies.pl Assembly1.fa Assembl2.fa
[download]

the program generates the following:

syntax error at compareAssem.pl line 4, near "ARGV["
Global symbol "%parseblast" requires explicit package name at compareA
+ssem.pl line 11.
Global symbol "%assemblast" requires explicit package name at compareA
+ssem.pl line 29.
syntax error at compareAssem.pl line 29, near "){"
Global symbol "%assemblast" requires explicit package name at compareA
+ssem.pl line 30.
Global symbol "$k" requires explicit package name at compareAssem.pl l
+ine 30.
Global symbol "$k" requires explicit package name at compareAssem.pl l
+ine 30.
Global symbol "$c" requires explicit package name at compareAssem.pl l
+ine 31.
Global symbol "$c" requires explicit package name at compareAssem.pl l
+ine 34.
Execution of compareAssem.pl aborted due to compilation errors.
[download]

Please could someone help me to resolve these errors?

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