[Bioperl-l] Error retrieving sequence from BioSQL

Chris Fields cjfields at uiuc.edu
Mon Oct 2 00:35:22 EDT 2006


Seth,

What version of MySQL and perl are you using?  I'm using MySQL 5.0.18 (but
am upgrading to 5.0.24 tomorrow) and ActivePerl 5.8.819.

I ran into a few problems with bioperl-db tests which were unrelated the
ones below, but I'm wondering if it is a difference in MySQL versions.

Christopher Fields
Postdoctoral Researcher - Switzer Lab
Dept. of Biochemistry
University of Illinois Urbana-Champaign 

> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> bounces at lists.open-bio.org] On Behalf Of Seth Johnson
> Sent: Saturday, September 30, 2006 6:35 PM
> To: Hilmar Lapp
> Cc: Chris Fields; Bioperl List
> Subject: Re: [Bioperl-l] Error retrieving sequence from BioSQL
> 
> Here're complete test details:
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

...

> FAILED tests 10-12
>     Failed 3/12 tests, 75.00% okay
> Failed Test     Stat Wstat Total Fail  Failed  List of Failed
> --------------------------------------------------------------------------
> -----
> t\02species.t                 65    2   3.08%  63 65
> t\03simpleseq.t    1   256    59  106 179.66%  7-59
> t\04swiss.t                   52   14  26.92%  25 27-34 38-42
> t\12ontology.t     2   512   738 1471 199.32%  3-738
> t\16obda.t                    12    3  25.00%  10-12
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