[Bioperl-l] BPlite bug

Imre Vastrik imre.vastrik@helsinki.fi
Thu, 18 Jan 2001 12:29:58 +0200

Don't know if this one is for Lorenz or Jason:

BPlite seems to be unaware of ' Frame = ...' lines in NCBI TBLASTN etc
reports. Consequently parsing of the alignment lines does not work
properly. The bug does not show up with the current test, since it is
BLASTP report (lacks Frame lines).
A quick hack would be to introduce the following line between lines 115
and 120:

    elsif ($_ =~ /^\s*Frame/)    {next}

However, the frame info, of course, will be lost.
Bug report filed.