[Bioperl-l] bioperl-1.5.0 RC2

[Eric Just]

activestate 5.8, windows XP

Failed Test  Stat Wstat Total Fail  Failed  List of Failed
-------------------------------------------------------------------------------
t\Registry.t  255 65280    13   11  84.62%  8-13
t\flat.t        2   512    16   30 187.50%  2-16
4 subtests skipped.
Failed 2/193 test scripts, 98.96% okay. 21/8916 subtests failed, 99.76% okay.

D:\tmp\New Folder\bioperl-1.5.0-RC2>perl t/flat.t
1..16
ok 1

------------- EXCEPTION  -------------
MSG: flat file D:\tmp\New Folder\bioperl-1.5.0-RC2\tmpNew cannot be read: 
No such file or directory
STACK Bio::DB::Flat::add_flat_file D:/Perl/site/lib/Bio/DB/Flat.pm:358
STACK Bio::DB::Flat::_path2fileno D:/Perl/site/lib/Bio/DB/Flat.pm:519
STACK Bio::DB::Flat::BDB::_index_file D:/Perl/site/lib/Bio/DB/Flat/BDB.pm:228
STACK Bio::DB::Flat::BDB::build_index D:/Perl/site/lib/Bio/DB/Flat/BDB.pm:218
STACK toplevel t/flat.t:70

--------------------------------------

D:\tmp\New Folder\bioperl-1.5.0-RC2>perl t/Registry.t
1..13
ok 1
ok 2
ok 3 # DB_File or BerkeleyDB not found, skipping DB_File tests
ok 4 # DB_File or BerkeleyDB not found, skipping DB_File tests
This Perl doesn't implement function getpwuid(). Skipping...

-------------------- WARNING ---------------------
MSG: Couldn't call new_from_registry on [Bio::DB::Flat]

------------- EXCEPTION  -------------
MSG: No flatfile fileid files in config - check the index has been made 
correctly
STACK Bio::DB::Flat::BinarySearch::read_config_file 
D:/Perl/site/lib/Bio/DB/Flat/BinarySearch.pm:1297
STACK Bio::DB::Flat::BinarySearch::new 
D:/Perl/site/lib/Bio/DB/Flat/BinarySearch.pm:280
STACK Bio::DB::Flat::new D:/Perl/site/lib/Bio/DB/Flat.pm:181
STACK Bio::DB::Flat::new_from_registry D:/Perl/site/lib/Bio/DB/Flat.pm:256
STACK (eval) D:/Perl/site/lib/Bio/DB/Registry.pm:184
STACK Bio::DB::Registry::_load_registry D:/Perl/site/lib/Bio/DB/Registry.pm:183
STACK Bio::DB::Registry::new D:/Perl/site/lib/Bio/DB/Registry.pm:96
STACK toplevel t/Registry.t:69

--------------------------------------

---------------------------------------------------
ok 5
ok 6
ok 7
not ok 8
# Failed test 8 in t/Registry.t at line 77
Can't call method "seq" on an undefined value at t/Registry.t line 78.

D:\tmp\New Folder\bioperl-1.5.0-RC2>


At 02:14 PM 1/12/2005, Jason Stajich wrote:
>In preparation for Bioperl 1.5.0 developer release I have put up Release 
>Candidate 2.
>
>  http://bioperl.org/DIST/bioperl-1.5.0-RC2.tar.gz
>  http://bioperl.org/DIST/bioperl-1.5.0-RC2.tar.bz2
>  http://bioperl.org/DIST/bioperl-1.5.0-RC2.zip
>
>
>We need people to test on this.  So download, run
>  perl Makefile.PL
>  make
>  make test
>
>Let us know what breaks.  I've tested on OS X and few different linux 
>installs with different auxiliary modules installed.  Would be nice to 
>have a few more combinations of OS, perl versions, and suite of modules 
>installed before we make a release.
>
>Thanks for your help.
>-jason
>--
>Jason Stajich
>jason.stajich at duke.edu
>http://www.duke.edu/~jes12/
>
>_______________________________________________
>Bioperl-l mailing list
>Bioperl-l at portal.open-bio.org
>http://portal.open-bio.org/mailman/listinfo/bioperl-l

============================================

Eric Just
e-just at northwestern.edu
dictyBase Programmer
Center for Genetic Medicine
Northwestern University
http://dictybase.org

============================================