Hey everyone, Following is what I have. I ran the command and it is just processing... It hasn't given me any errors or results yet. Can you please let me know what's the issue. 

#!/usr/bin/perl
use warnings;
use strict;

print 'Enter protein sequence filename: ';
chomp( my $prot_filename = <STDIN> );

open my $PROTFILE, '<', $prot_filename
  or die "Cannot open '$prot_filename' because: $!";

my $out_filename = 'duplicate_gene_entries_in_'.$prot_filename;
open my $OUTFILE, '>', $out_filename
  or die "Cannot open '$out_filename' because: $!";

$/ = ''; # Set paragraph mode


my %seen;
my $header;
my $count_in;
my $count_out;
my $gn;
while (<>) {
    if (/^>.* GN=([^ ]+)/) {
        $gn = $1;
        $header = exists $seen{$gn} ? undef : $_;
    } elsif ($header) {
        undef $seen{$gn};
        print $header, $_;
    }
}
close $OUTFILE;
close $PROTFILE;
printf "%d total records read from '%s'\n",$count_in,$prot_filename;
printf "%d records written to '%s' after removing duplicate entries\n"
+,$count_out,$out_filename;

[download]

In reply to Re: remove entries with duplicate characters by davi54
in thread remove entries with duplicate characters by davi54

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post, it's "PerlMonks-approved HTML":


  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.