[ensembl-dev] blast hit on contigview
weix at cshl.edu
Wed Feb 13 20:50:31 GMT 2013
Thanks, Beth. These suggestions are very helpful, I am going to look
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.
> 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.
>> Dev mailing list Dev at ensembl.org
>> Posting guidelines and subscribe/unsubscribe info:
>> Ensembl Blog: http://www.ensembl.info/
> Dev mailing list Dev at ensembl.org
> Posting guidelines and subscribe/unsubscribe info:
> Ensembl Blog: http://www.ensembl.info/
More information about the Dev