[ensembl-dev] R59: -stepSize=5 in blat_gfclient.pm

[Hiram Clawson]

The case on the arguments is important.  It is -stepSize

See also:  http://www.kentinformatics.com/contact-us.html

--Hiram

volker.weinberger at novartis.com wrote:
> Hi,
> 
> I'm confused about the option settings for gfClient in  
> modules/Bio/Tools/Run/Search/blat_gfclient.pm :
> 
>     "-out=wublast -stepSize=5 -minScore=20"
> 
> as our internal version of gfClient (from BLAT34) doesn't support the 
> "-stepsize" option.
> 
> Do you use a customized version of BLAT or any version other than 34 ?
> 
> BTW it would be great if the path to the gfClient executable was 
> configurable in one of the configuration files rather than hard-coded.
> 
> Best regards,
> 
> Volker