[Bioperl-l] Windows Testing

Tue, 10 Dec 2002 15:50:10 -0500 (EST)

Hi Lincoln,

Yup, all tests pass, although I should note that I get:

ok 99 # fetch_feature_by_gid() not implemented by this adaptor
ok 100 # fetch_feature_by_gid() not implemented by this adaptor

on all windows boxes I've tested.
Paul

On Tue, 10 Dec 2002, Lincoln Stein wrote:

> Hi Paul,
> 
> Warnings aside (which I'll fix), do the DBGFF tests pass?
> 
> Lincoln
> 
> > BioDBGFF.t
> > ==========
> > ok 2
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 76, <> line 1.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 1.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 2.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 3.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 4.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 5.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 76, <> line 9.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 9.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 76, <> line 10.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 10.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 76, <> line 11.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 11.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 12.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 13.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 14.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 15.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/DB/GFF/Adaptor/memory.pm line 77, <> line 16.
> > <and many more>
> >
> > game.t
> > ======
> > ok 19
> > ok 20
> > Use of uninitialized value in pattern match (m//) at
> > C:/Perl/site/lib/XML/Writer.pm line 307.
> > Use of uninitialized value in print at C:/Perl/lib/IO/Handle.pm line 394.
> > ok 21
> > ok 22
> >
> > Eponine.t
> > =========
> > Note: I don't have the software installed, just ran the test to see how it
> > handled the problem.  The "old java version" statement isn't accurate.
> >
> > 1..5
> > Use of uninitialized value in numeric lt (<) at t\Eponine.t line 52,
> > <PIPE> line
> >  2.
> > You need at least version 1.2 of JDK to run eponine
> > ok 1 # Skipping due to old java version
> >
> > Pise.t
> > ======
> > Note: I don't have the software installed, just ran the test to see how it
> > handled me.
> >
> > 1..10
> > Subroutine stdout redefined at C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm
> > line 53
> > 4.
> > Subroutine stderr redefined at C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm
> > line 56
> > 3.
> > defined(%hash) is deprecated at C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm
> > line 9
> > 83.
> >         (Maybe you should just omit the defined()?)
> > ok 1
> > ok 2
> > ok 3
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 844.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 844.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 844.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 844.
> > Use of uninitialized value in concatenation (.) or string at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 1019.
> > Use of uninitialized value in concatenation (.) or string at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 1100.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 125.
> > Use of uninitialized value in hash element at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 128.
> > Use of uninitialized value in hash element at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 128.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 131.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 125.
> > Use of uninitialized value in hash element at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 128.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 125.
> > Use of uninitialized value in hash element at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 128.
> > ok 4
> > ok 5
> > ok 6
> > ok 7
> > ok 8
> > Odd number of elements in hash assignment at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 982, <GEN8> line 290.
> > Use of uninitialized value in concatenation (.) or string at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJob.pm line 1100, <GEN8> line 290.
> > Use of uninitialized value in string eq at
> > C:/Perl/site/lib/Bio/Tools/Run/PiseJobParser.pm line 125, <GEN8> line 290.
> > <many times>
> >
> >
> >
> >
> > _______________________________________________
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> > Bioperl-l@bioperl.org
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> 
> -- 
> ========================================================================
> Lincoln D. Stein                           Cold Spring Harbor Laboratory
> lstein@cshl.org			                  Cold Spring Harbor, NY
> ========================================================================
> 