[Bioperl-l] VariationIO and Tempfile tests failing

[Ewan Birney]

On 26 Sep 2002, Heikki Lehvaslaiho wrote:

> Hilmar,
>
> Thanks for spotting this problem with variationIO. I'll fix it today.
>
> Incidently, I get:
>
> Subroutine tagname redefined at
> /home/heikki/src/bioperl/core/Bio/Annotation/SimpleValue.pm line 205.
>

I think Jason fixed this last night. cvs update ;)



> Which seem to be your doings. 8-:
>
> 	-Heikki
>
> On Thu, 2002-09-26 at 03:09, Hilmar Lapp wrote:
> > Failed Test      Stat Wstat Total Fail  Failed  List of Failed
> > -------------------------------------------------------------------------------
> > t/Tempfile.t                    8    2  25.00%  3 6
> > t/Variation_IO.t               25    3  12.00%  5 15 25
> >
> > I have no clue what's going wrong in Tempfile all of a sudden - did
> > someone tamper with anything that may be involved?
> >
> > ChrisZ, I fixed Term/GOterm and the tests such that setting
> > attributes to an empty string amounts to setting to undef. undef
> > means 'not set' or 'not known', whereas an empty string may be a
> > valid value (although it can't be sensibly most of the time). Also,
> > MySQL takes empty strings as valid values and subsequently raises UK
> > violations.
> >
> > 	-hilmar
> > --
> > -------------------------------------------------------------
> > Hilmar Lapp                            email: lapp at gnf.org
> > GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
> > -------------------------------------------------------------
> >
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> ______ _/      _/_____________________________________________________
>       _/      _/                      http://www.ebi.ac.uk/mutations/
>      _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
>     _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
>    _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
>   _/  _/  _/  Cambs. CB10 1SD, United Kingdom
>      _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
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