[Bioperl-l] NCBI Blast via HTTP

Chris Fields cjfields at uiuc.edu
Wed Mar 14 12:42:49 EDT 2007


Ah, spoke too soon.  There seems to be an issue with the RID being  
removed properly when retrieving BLAST in text format which causes an  
infinite loop; this is popping up in RemoteBlast tests.  I'll look  
into that.

chris

On Mar 14, 2007, at 11:16 AM, Chris Fields wrote:

> I tried this today and had no issues.  The NCBI BLAST server is
> typically busy so you may have to wait dep. on the type of BLAST you
> intend on running, whether you use stats, etc.  You can check on the
> status if you set RemoteBlast::verbose() to 1.  Warning: it's pretty
> noisy as verbose returns the HTMLized page containing the length of
> time to recheck the RID.
>
> chris
>
> On Mar 14, 2007, at 5:59 AM, al bob wrote:
>
>> Hi,
>>
>> I'm wondering if there is a problem with the remote
>> execution of the NCBI Blast via HTTP using bioperl
>> object Bio::Tools::Run::RemoteBlast. I used it last
>> year and it was perfect but I don't know why after
>> 20th of January, it doesn't work any more : it appears
>> to run very slow but it doen't give a result even
>> after a long time waiting.
>>
>> Thanks for any advice.
>>
>> Bob,
>>
>>
>> 	
>>
>> 	
>> 		
>> _____________________________________________________________________ 
>> _
>> _____
>> Découvrez une nouvelle façon d'obtenir des réponses à toutes vos
>> questions !
>> Profitez des connaissances, des opinions et des expériences des
>> internautes sur Yahoo! Questions/Réponses
>> http://fr.answers.yahoo.com
>> _______________________________________________
>> Bioperl-l mailing list
>> Bioperl-l at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>
> Christopher Fields
> Postdoctoral Researcher
> Lab of Dr. Robert Switzer
> Dept of Biochemistry
> University of Illinois Urbana-Champaign
>
>
>
>
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l

Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign






More information about the Bioperl-l mailing list