cog_class(\@c1_uniq_cog_ids, $name1);

##</code><code>##

    my $c1_uniq_cog_ids = shift;
    my $name = shift;

##</code><code>##

#!/usr/bin/perl -w
use strict;

my $name1="chrom1 unique";
my @c1_uniq_cog_ids = qw(1 2 3 4 5);

print "NAME1 $name1\n";

cog_class(\@c1_uniq_cog_ids, $name1);

sub cog_class {
    my $c1_uniq_cog_ids = shift;
    my $name = shift;

    print "NAME $name\n";

    for my $id ( @{$cog_ids_ref} ){
        # BLAH BLAH
    }
}

##</code><code>##

foreach my $id (@{c1_uniq_cog_ids}) {
    # Do stuff
}

##</code><code>##

for (@{c1_uniq_cog_ids}) {
    # Do stuff
}