[Bioperl-l] tests failing badly
Aaron J Mackey
Aaron J. Mackey" <amackey@virginia.edu
Tue, 10 Sep 2002 00:19:43 -0400 (EDT)
Remember that some of us quit working after 5 pm EDT; that means that if
you've found a problem with something I've committed, maybe you can just
ask me to fix it?
In the development of Bio::Seq::EncodedSeq, I found that repeatedly when I
reset the seq() of an object, that PrimarySeq was "guessing" my alphabet,
and setting it to protein; I apologize greatly for not making sure
everything else tested out OK (but, in fact, all tests ran cleanly here).
But whatever you've changed seems to have introduced a myriad of warnings,
and now EncodedSeq seems to think it's a protein sometimes ...
I'm now working on cleaning things up, because indeed I now have make test
issues ...
mea culpa, mea culpa,
-Aaron
On Mon, 9 Sep 2002, Hilmar Lapp wrote:
> I just did a cvs update ...
>
> Failed Test Stat Wstat Total Fail Failed List of Failed
> -------------------------------------------------------------------------------
> t/AlignStats.t 255 65280 15 11 73.33% 2-3 7-15
> t/EncodedSeq.t 31 ?? % ??
> t/LocationFactory.t 131 8 6.11% 13-15 21 23-25 31
> t/RepeatMasker.t 2 512 6 0 0.00% ??
> t/SeqAnal.t 255 65280 1 1 100.00% 1
> t/Tools.t 255 65280 8 4 50.00% 5-8
> Failed 6/105 test scripts, 94.29% okay. 18/4020 subtests failed,
> 99.55% okay.
>
> Many of which have to do with alphabet setting ... I'm going to
> investigate as I need to have this working.
>
> -hilmar
> --
> -------------------------------------------------------------
> Hilmar Lapp email: lapp at gnf.org
> GNF, San Diego, Ca. 92121 phone: +1-858-812-1757
> -------------------------------------------------------------
>
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--
Aaron J Mackey
Pearson Laboratory
University of Virginia
(434) 924-2821
amackey@virginia.edu