[ensembl-dev] Enesembl 66 - BLAST error

[Anne Parker]

On 20 Apr 2012, at 15:51, Soundappan, Sounderaraj (Ext) wrote:

> Hi Anne,
>        This is done automatically , If I click on say Alignments (A) in the blast's result screen (last screenshot0 , it should give the proper display. Also in mysql dbfor the corresponding ticket , there is only one row.

The page would give the proper display *if* the query completed correctly and provided the parameters needed.

>        So controlling query of blast_ticket is done by the ensemble and when we click on A,S etc., it should retrieve proper results.

Yes it should - but your server is running out of memory trying to retrieve all your results. Please do as suggested and try with a different search, e.g. a large sequence that is likely to have only one hit. This will help to eliminate other possible sources of error - the information you have provided so far is insufficient for diagnosis.

Thanks

Anne




> 
> Regards,
> Sounder.
> 
> 
> -----Original Message-----
> From: dev-bounces at ensembl.org [mailto:dev-bounces at ensembl.org] On Behalf Of Anne Parker
> Sent: Friday, April 20, 2012 4:44 PM
> To: Ensembl developers list
> Cc: Wahl, Ralf; Jaykumar, Mahesh (Ext)
> Subject: Re: [ensembl-dev] Enesembl 66 - BLAST error
> 
> Hi Sounder
> 
> The issue is not the object query per se, but the subsequent attempt to get all the hit information back. Looking again at your screeshots, it would appear that your BLAST query is returning too many hits, which is why your server is running out of memory. Try submitting a new ticket with parameters that return fewer results.
> 
> Cheers
> 
> Anne
> 
> 
> On 20 Apr 2012, at 15:38, Soundappan, Sounderaraj (Ext) wrote:
> 
>> Hi Anne,
>>        Yes, I get a hit from mysql db...
>> ===
>> SELECT object FROM   blast_ticket WHERE  ticket = 'BLA_CT6pYNm9S';
>> 1 row in set (0.00 sec)
>> ====
>> 
>> Regards,
>> Sounder.
>> 
>> 
>> -----Original Message-----
>> From: dev-bounces at ensembl.org [mailto:dev-bounces at ensembl.org] On Behalf Of Anne Parker
>> Sent: Friday, April 20, 2012 12:28 PM
>> To: Ensembl developers list
>> Cc: Wahl, Ralf; Jaykumar, Mahesh (Ext)
>> Subject: Re: [ensembl-dev] Enesembl 66 - BLAST error
>> 
>> Hi Sounder
>> 
>> Your document says at the end that the ticket retrieval process is throwing an out-of-memory error - have you tried manually checking this query using a MySQL client?
>> 
>> Anne
>> 
>> 
>> On 20 Apr 2012, at 08:42, Soundappan, Sounderaraj (Ext) wrote:
>> 
>>> Sending again, after subscription ...
>>> 
>>> From: Soundappan, Sounderaraj (Ext) 
>>> Sent: Friday, April 20, 2012 9:35 AM
>>> To: 'dev at ensembl.org'
>>> Cc: Wahl, Ralf; Jaykumar, Mahesh (Ext)
>>> Subject: Enesembl 66 - BLAST error
>>> 
>>> Hi,
>>>  We are working with ENSEMBL release 66 setup.We get the error ,page not found , out of memory error when we click on alignments, sequences for BLAST  searches on protein/DNA sequences.
>>> Atatched is the word document with the steps and errors.Request your help on the same.
>>> 
>>> 
>>> Regards,
>>> Sounder.
>>> <problem-docx.zip>_______________________________________________
>>> Dev mailing list    Dev at ensembl.org
>>> List admin (including subscribe/unsubscribe): http://lists.ensembl.org/mailman/listinfo/dev
>>> Ensembl Blog: http://www.ensembl.info/
>> 
>> Anne Parker
>> Ensembl Web Production Manager
>> http://www.ensembl.org
>> 
>> 
>> 
>> 
>> _______________________________________________
>> Dev mailing list    Dev at ensembl.org
>> List admin (including subscribe/unsubscribe): http://lists.ensembl.org/mailman/listinfo/dev
>> Ensembl Blog: http://www.ensembl.info/
>> 
>> _______________________________________________
>> Dev mailing list    Dev at ensembl.org
>> List admin (including subscribe/unsubscribe): http://lists.ensembl.org/mailman/listinfo/dev
>> Ensembl Blog: http://www.ensembl.info/
> 
> Anne Parker
> Ensembl Web Production Manager
> http://www.ensembl.org
> 
> 
> 
> 
> _______________________________________________
> Dev mailing list    Dev at ensembl.org
> List admin (including subscribe/unsubscribe): http://lists.ensembl.org/mailman/listinfo/dev
> Ensembl Blog: http://www.ensembl.info/
> 
> _______________________________________________
> Dev mailing list    Dev at ensembl.org
> List admin (including subscribe/unsubscribe): http://lists.ensembl.org/mailman/listinfo/dev
> Ensembl Blog: http://www.ensembl.info/

Anne Parker
Ensembl Web Production Manager
http://www.ensembl.org