[Bioperl-l] Blast Connection Error

Thu Apr 7 13:54:29 EDT 2005

I tried exactly the same query as you described both using  
RemoteBlast.pm and from the NCBI website and got the same response from  
both: no significant alignments. I did *not* get the connection error  
you reported.

I'm not sure what you mean by "interval time". Maybe that's the  
problem? Or maybe it was a temporary connection problem.
Madeleine

> Hello.
>
> Until last two week, I could remote-blast against NCBI nr DB using  
> bioperl
> module. But right now, I can not remote-blast since a week.
>
> I had set up interval time as 5 second. In my opinion, NCBI is not  
> allowed
> to blast search against NCBI nr DB. If you have experience like me,  
> then
> let me know.
>
> Usually I do blast search for 50-100 sequences at one time.
>
>
>
> The error message is as like this
>
> -------------------- WARNING ---------------------
>
> MSG: req was POST http://www.ncbi.nlm.nih.gov/blast/Blast.cgi
>
> User-Agent: bioperl-Bio_Tools_Run_RemoteBlast/1.4
>
> Content-Length: 336
>
> Content-Type: application/x-www-form-urlencoded
>
>
>
> DATABASE=ecoli&COMPOSITION_BASED_STATISTICS=off&QUERY=%3E1OSA%3A_+CALMO 
> DULIN
> +-
> +CHAIN+_+%0AAEQLTEEQIAEFKEAFALFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG 
> NGTID
> FPEFLSLMARKMKEQDSEEELIEAFKVFDRDGNGLISAAELRHVMTNLGEKLTDDEVDEMIREADIDGDGH 
> INYEE
> FVRMMVSK&EXPECT=1e-
> 10&SERVICE=plain&FORMAT_OBJECT=Alignment&CMD=Put&FILTER=L&CDD_SEARCH=of 
> f&PRO
> GRAM=blastp
>
>
>
> <HTML>
>
> <HEAD><TITLE>An Error Occurred</TITLE></HEAD>
>
> <BODY>
>
> <H1>An Error Occurred</H1>
>
> 500 Can't connect to www.ncbi.nlm.nih.gov:80 (Bad hostname
> 'www.ncbi.nlm.nih.gov')
>
> </BODY>
>
> </HTML>
>