[Bioperl-l] Errors generated from example code in HOW-TO section

[Matthew Betts]

Hi,

I recently ran up against the same warning, but was happy to see that perl 
did the comparison correctly anyway

eg. both of the following give the warning, but the first prints out 
$e and the second one doesn't.

  perl -we '$e = "e-169"; ($e < 1.0) and print "$e\n";'
  perl -we '$e = "e-169"; ($e > 1.0) and print "$e\n";'
  
Matt


> Message: 18
> Date: Fri, 01 Aug 2003 13:16:37 +1000
> From: Wes Barris <wes.barris at csiro.au>
> Subject: [Bioperl-l] Errors generated from example code in HOW-TO
>         section
> To: Bioperl Mailing List <bioperl-l at bioperl.org>
> Message-ID: <3F29DB95.10901 at csiro.au>
> Content-Type: text/plain; charset=us-ascii; format=flowed
>
> The HOW-TO section http://www.bioperl.org/HOWTOs/html/Graphics-HOWTO.html
> shows examples using this code fragment:
>
> while( my $hit = $result->next_hit ) {
>    next unless $hit->significance < 1.0;
>    my $feature = Bio::SeqFeature::Generic->new(-score   => 
> $hit->raw_score,
>                                                -seq_id => $hit->name,
> 
> If warnings are turned on, then the 2nd line above produces these errors:
>
> Argument "e-171" isn't numeric in numeric lt (<) at blasttoimg.pl line 49, 
> <DATA> line 191.
> Argument "e-163" isn't numeric in numeric lt (<) at blasttoimg.pl line 49, 
> <DATA> line 191.
> Argument "e-160" isn't numeric in numeric lt (<) at blasttoimg.pl line 49, 
> <DATA> line 191.
> Argument "e-160" isn't numeric in numeric lt (<) at blasttoimg.pl line 49, 
> <DATA> line 191.
> Argument "e-160" isn't numeric in numeric lt (<) at blasttoimg.pl line 49, 
> <DATA> line 191.
>
> I would suggest that when parsing a blast file, if the evalue does not
> begin with a digit, a '1' (one) should be placed at the beginning of the
> reported evalue.

-- 
Matthew Betts, mailto:matthew.betts at ii.uib.no
Phone: (+47) 55 58 40 22
CBU, BCCS, UNIFOB / Universitetet i Bergen
Thormohlensgt. 55, N-5020 Bergen, Norway