[ensembl-dev] blast hit on contigview

[Sharon Wei]

Thanks, Beth. These suggestions are very helpful, I am going to look 
into them.

Sharon

On 2/13/13 4:59 AM, Beth Yates wrote:
> 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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