[ensembl-dev] Error when using variation set adaptor

[Anja Thormann]

Hello Naz,
we just had a new ensembl release 78. So either you have to update your APIs to release 78 or you need to specify in the registry that you want to use version 77:
$registry->load_registry_from_db(
  -host => 'ensembldb.ensembl.org',
  -user => 'anonymous',
  -DB_VERSION => 77,
);
Best regards,
Anja

On 4 Dec 2014, at 13:08, Nazmiye Uzun wrote:

> Dear developers
> 
> I am trying to test below code snippet provided on the variation_tutorial page to display attributes of the variations in a particular variation set. Here's a section of the code from the following page;
> 
> http://www.ensembl.org/info/docs/api/variation/variation_tutorial.html#variation_sets
> 
> 
> 
> my $vs_adaptor = $registry->get_adaptor('human','variation','variationset');
> my $vs = $vs_adaptor->fetch_by_short_name('ph_variants');
> 
> my $limit = 10;
> my $fetched = 0;
> my $it = $vs->get_Variation_Iterator();
> 
> # Get the first 10 examples and print some data from them
>  while ($fetched < $limit && $it->has_next()) {
> 
>    # Print the name of the variation
>    my $var = $it->next();
>    printf("\t\%s has been found to be associated with:\n",$var->name());
> 
>    #
>    # Do more
>    #
> 
>    $fetched++;
>  }
> 
> 
> However, I receive the following error:
> DBD::mysql::st execute failed: Unknown column 'v.display' in 'where clause' at -----/src/ensembl-variation/modules/Bio/EnsEMBL/Variation/DBSQL/VariationAdaptor.pm line 1173.
> 
> The version of the API I'm using is 77.
> 
> I appreciate any input. Thanks for the help in advance.
> 
> Regards
> Naz
> 
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