Try passing the list as a reference, for example:

cog_class(\@c1_uniq_cog_ids, $name1);
[download]

Then, shift off the list within the function, like so:

    my $c1_uniq_cog_ids = shift;
    my $name = shift;
[download]

So you finish up with something like:

#!/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
    }
}
[download]

Update:
Oh, one more thing... that C-style for loop that you have is probably better written either as:

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

or even....

for (@{c1_uniq_cog_ids}) {
    # Do stuff
}
[download]

Update 2: Fixed, as pointed out by [id://cbrandtbuffalo]
hope this helps

--Darren

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