[ensembl-dev] blast hit on contigview

[Beth Yates]

Hi Sharon,

The [c] link adds a parameter like h=BLAST_NEW:BLA_LPl1M8dX8!!20130213 
to the contigview url. This link is created in per/multi/blastview

The blast track itself is enabled in 
EnsEMBL::Web::ImageConfig::contigviewbottom which tells the drawing code 
to use Bio::EnsEMBL::GlyphSet::_blast. This module handles connecting to 
the blast database where your blast results, hits and hsps are stored, 
retrieving hit data and converting it to features that are then 
displayed on the bottom panel of region in detail.

There a few things I would check to debug this, are you getting the 
correct parameter added to the [c] link? Is the blast track being added 
to the list of tracks in the ImageConfig for contigviewbottom? Can you 
connect to the blast database in the glyphset, or is your blast database 
configuration incorrect?


Hope this is of some help.
Beth

On 12/02/13 21:21, Sharon Wei wrote:
> Hi Ensembl Web developers,
>
> I am curious about how the blast hit from blast server got displayed 
> on contigview when you click the [c] sign on the blast result page. 
> How does the blast server communicate to the genome browser the 
> mapping location of the hit.
>
> In our gramene installation, the dev site works fine but the live site 
> does not display the blast hit on contigview, I am trying to get to 
> the bottom of this.
>
> Thanks,
>
> Sharon
>
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