[Bioperl-l] bioperl-live make test failure

[Scott Cain]

Hi Jason,

You are still working on the 1.5.1 release from HEAD, right?  I just did
a cvs update -d, and make test fails thusly:

t/tigrxml....................ok 1/48Bio::SeqIO: tigrxml cannot be found
Exception
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Failed to load module Bio::SeqIO::tigrxml. Can't locate XML/SAX/Writer.pm in @INC (@INC contains: t /Users/cain/cvs_stuff/bioperl-live/blib/lib /Users/cain/cvs_stuff/bioperl-live/blib/arch /sw/lib/perl5 /sw/lib/perl5/darwin /usr/local/lib/perl5/5.8.4/darwin-2level /usr/local/lib/perl5/5.8.4 /usr/local/lib/perl5/site_perl/5.8.4/darwin-2level /usr/local/lib/perl5/site_perl/5.8.4 /usr/local/lib/perl5/site_perl .) at /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/SeqIO/tigrxml.pm line 71.
BEGIN failed--compilation aborted at /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/SeqIO/tigrxml.pm line 71.
Compilation failed in require at /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/Root/Root.pm line 396.

STACK: Error::throw
STACK: Bio::Root::Root::throw /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/Root/Root.pm:328
STACK: Bio::Root::Root::_load_module /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/Root/Root.pm:398
STACK: Bio::SeqIO::_load_format_module /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/SeqIO.pm:552
STACK: Bio::SeqIO::new /Users/cain/cvs_stuff/bioperl-live/blib/lib/Bio/SeqIO.pm:379
STACK: t/tigrxml.t:22
-----------------------------------------------------------

For more information about the SeqIO system please see the SeqIO docs.
This includes ways of checking for formats at compile time, not run time
Can't call method "verbose" on an undefined value at t/tigrxml.t line 26.
t/tigrxml....................dubious
        Test returned status 255 (wstat 65280, 0xff00)
DIED. FAILED tests 2-48
        Failed 47/48 tests, 2.08% okay


This is on Mac OSX 10.3, perl 5.8.4 built from source.

Thanks,
Scott

-- 
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Scott Cain, Ph. D.                                         cain at cshl.edu
GMOD Coordinator (http://www.gmod.org/)                     216-392-3087
Cold Spring Harbor Laboratory