How to retrieve information from NCBI/genome with Perl?
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9.8 years ago
fr ▴ 210

Hello!

I'm trying to retrieve the information under "Representative" in a bunch of NCBI pages (e.g. here). For this I was trying to use the following code, which yields 'undef'.

#!/usr/local/bin/perl
use strict;
use warnings;
use autodie;
use Data::Dump;

use LWP::Simple qw(get);

my $content=get('http://www.ncbi.nlm.nih.gov/genome/?term=Xylella_fastidiosa');

dd $content;

So my questions are the following:

  1. Why can't I get the information on the page?
  2. Is there any other way to retrieve it? Maybe some other package that actually works?

Thanks

perl ncbi • 3.5k views
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9.8 years ago
Neilfws 49k

I just ran your code and it returned HTML content as expected. Maybe a transient network issue?

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yeah, I'm starting to think that it has something to do with my side...

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What I don't understand is why I can't get the page with Perl but I can still access it with the browser

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I can't believe it was a problem on my antivirus' firewall... how stupid is this

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