[Bioperl-l] tests failing badly

[Shawn]

Oops. Just got in.

its committed

sorry for all the trouble...


shawn

On Tue, 2002-09-10 at 10:23, Hilmar Lapp wrote:
> I was able to track down and fix the problems with FTLocationFactory 
> and EncodedSeq that caused some of the corresponding tests to fail.
> 
> Tests run clean now on my machine except for RepeatMasker. Shawn or 
> someone from the Singapur guys, could you add the missing file?
> 
> 	-hilmar
> 
> On Monday, September 9, 2002, at 05:57  PM, Hilmar Lapp wrote:
> 
> > I fixed PrimarySeq, some errors are still there:
> >
> > Failed Test         Stat Wstat Total Fail  Failed  List of Failed
> > -------------------------------------------------------------------------------
> > t/EncodedSeq.t       255 65280    31    0   0.00%
> > t/LocationFactory.t              131    8   6.11%  13-15 21 23-25 31
> > t/RepeatMasker.t       2   512     6    0   0.00%  ??
> > Failed 3/105 test scripts, 97.14% okay. 7/4020 subtests failed, 
> > 99.83% okay.
> >
> > EncodedSeq.t:
> >
> > t/EncodedSeq..............ok 32/31
> > ------------- EXCEPTION  -------------
> > MSG: Sequence is a protein. Cannot revcom
> > STACK Bio::PrimarySeqI::revcom blib/lib/Bio/PrimarySeqI.pm:362
> > STACK Bio::Seq::EncodedSeq::cds Bio/Seq/EncodedSeq.pm:476
> > STACK toplevel t/EncodedSeq.t:74
> >
> > --------------------------------------
> > t/EncodedSeq..............dubious
> >         Test returned status 255 (wstat 65280, 0xff00)
> > DIED. FAILED test
> >         Failed 0/31 tests, 100.00% okay
> >
> > RepeatMasker test is still failing due to a missing file (according 
> > to Shawn).
> >
> > I'm going to investigate LocationFactory.t next. did anyone change 
> > something there??
> >
> > 	-hilmar
> >
> > On Monday, September 9, 2002, at 05:32  PM, 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
> >> -------------------------------------------------------------
> >>
> >> _______________________________________________
> >> Bioperl-l mailing list
> >> Bioperl-l@bioperl.org
> >> http://bioperl.org/mailman/listinfo/bioperl-l
> >>
> > --
> > -------------------------------------------------------------
> > Hilmar Lapp                            email: lapp at gnf.org
> > GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
> > -------------------------------------------------------------
> >
> >
> --
> -------------------------------------------------------------
> Hilmar Lapp                            email: lapp at gnf.org
> GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
> -------------------------------------------------------------
> 
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