[Bioperl-l] limiting E value - Argument "e-134" isn't numeric?

[Jason Stajich]

or in one line... =)

$E =~ s/^e/1e/i;

In Bio::SearchIO we automagically reformat the evalue for you.  I don't
remember when we introduced this feature but it is definitely should be
1.4.0.

-jason
On Tue, 6 Apr 2004, Joseph Bedell wrote:

> Hi Nandita,
>
> You must be using NCBI-BLAST. NCBI has a problem in that they don't
> include the '1' before E-values less than or equal to 1e-100. So, any
> e-value you get back needs to be checked for '^e' and have a '1' added
> on so it evaluates as a number.
>
> $E = "1" . $E if $E =~ /^e/;
>
> Joey
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Joseph A Bedell, Ph.D.
> Director, Bioinformatics
> Orion Genomics, LLC
> 4041 Forest Park Ave.
> St. Louis, MO 63108
> Office:(314)615-6979; Fax:(314)615-6975
> Mobile:(314)518-1343
> http://www.oriongenomics.com
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
> >-----Original Message-----
> >From: bioperl-l-bounces at portal.open-bio.org [mailto:bioperl-l-
> >bounces at portal.open-bio.org] On Behalf Of Nandita Mullapudi
> >Sent: Tuesday, April 06, 2004 8:10 AM
> >To: bioperl-l at portal.open-bio.org
> >Subject: [Bioperl-l] limiting E value - Argument "e-134" isn't numeric?
> >
> >I am using the following line in my script to limit e-values, and I
> >remember having used it before without error messages, but now...
> >
> >the line is:  if ($hit_significance < 0.001 && $i < 3)
> >                      { print ...}
> >
> >and the error message I get is
> >
> >Argument "e-134" isn't numeric in numeric lt (<) at try-exclude.pl line
> 31,
> >         <GEN871> line 12023 (#1)
> >(W numeric) The indicated string was fed as an argument to an operator
> >     that expected a numeric value instead.  If you're fortunate the
> >message
> >     will identify which operator was so unfortunate.
> >
> >any quick insight appreciated. :)
> >-Nandita
> >_______________________________________________
> >Bioperl-l mailing list
> >Bioperl-l at portal.open-bio.org
> >http://portal.open-bio.org/mailman/listinfo/bioperl-l
>
>
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--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu