[Biopython] Qblast : no hits

[Karthik Raja]

Hello Peter,

I did try changing the paramters according to the WWW BLAST and its gives an
error saying "no RID or no RTOE found". Its the same error i was trying to
tell you in the 1st post. Its the "request time of execution". Is there any
way to change this RTOE i.e. to increase it? Any idea?

On Fri, Apr 23, 2010 at 5:30 PM, Chris Fields <cjfields at illinois.edu> wrote:

> On Apr 23, 2010, at 4:49 AM, Peter wrote:
>
> >> ...
> >
> > Differences between a manual BLAST search on the NCBI website
> > and a script search via QBLAST are almost always down to different
> > parameter settings. The NCBI have often adjusted the defaults on
> > the website, and they no longer match the defaults on QBLAST.
> > You should check things like the expectation cut off, the matrix,
> > gap penalties etc. The simplest option would be just to copy the
> > current defaults from the website into your python code.
> >
> > We probably need to put this into the Biopython FAQ ...
> >
> > Regards,
> >
> > Peter
>
> Same for BioPerl.
>
> chris
>