[Bioperl-l] API for frame() has changed??

Jordi Durban jordi.durban at gmail.com
Mon Jun 13 11:50:04 UTC 2011


Hi all!
I tried to use an outdated perl script and I got this warning:
*
--------------------- WARNING ---------------------
MSG: API for frame() has changed.
Please refer to documentation for Bio::Search::HSP::GenericHSP;
returning query frame
------------------------------**---------------------*

It could be possible as the script has:

*my $strand = $hsp->strand();
my $frame = $hsp->frame();*

And I didn't found the strand() and frame() in Bio::Search::HSP::GenericHSP.
Anyone knows how can I obtain such information from
Bio::Search::HSP::GenericHSP??
I tried to get it from Bio::Search::Hit::HitI but I think it returns the
information from the best blast hit, doesn't it?
Thanks a lot

-- 
Jordi



More information about the Bioperl-l mailing list