Hi monks, by using the following code, I want printed data to be displayed in the text box...but all that I get within the textbox is the following: Bio::SeqFeature::Generic=HASH(0x6547e0), etc. Please Help! 


Many thanks!

Code:

#! /usr/local/bin/perl -wT

use strict;
use CGI qw / :standard /;
use CGI::Pretty;
use Bio::SeqIO;
use Bio::Root::IO;
use Bio::SeqFeature::Generic;
use Bio::Location::Simple;
use Bio::Location::SplitLocationI;
use File::Temp;

my @features = read_file(param('file'));

print header, start_html('Plasmid Feature Editor');

print h1('Plasmid Feature Editor');

print p('Load up a Genbank file to work with, then edit the features i
+n the text box.');

print <<END;
<BODY BGCOLOR = "#ffffcc">
END

print start_multipart_form(),
  table({-cellpadding => 10},
    TR({-class=> 'resultsbody'},
       td(textarea(-name     => 'editarea',
               -value    => "@features",
               -rows     => 20,
               -cols     => 70,
               -override => (@features) || (param('clear')),
               ),
         ),
      ),
    TR({-class=>'resultstitle'},
       td(filefield(-name    => 'file',
            -length  => 40),
         ),
       td(submit(-name  => 'submit_button',
             -value => 'Click to display features'),
         ),
      ),
    TR({-class=>'resultstitle'},
       td(submit(-name  => 'save_button',
             -value => 'Click here to save your work'),
         ),
       td(reset(),
         ),
      ),
       ),
  end_form;

print <<FINISH;
</BODY>
FINISH

print end_html;

exit 0;

sub read_file {

my $fh = param('file'); 
my $gb_parser = Bio::SeqIO->new(-fh=>$fh,-format=>'Genbank'); 
my @features; 
while (my $seq = $gb_parser->next_seq) { 
    push @features, $seq->get_all_SeqFeatures(); 
} return @features; 
}

[download]

Edited by Chady -- added code tags.

In reply to Displaying data? by Gono

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.