[Bioperl-l] Tests - Can other people report make test results:

[Heikki Lehvaslaiho]

Linux 2.4.8 
===========
$ perl -version
 This is perl, v5.6.1 built for i386-linux

Only one test had problems:

------------- EXCEPTION -------------
MSG: Clustalw call crashed: 768

STACK Bio::Tools::Run::Alignment::Clustalw::_run
/home/heikki/src/bioperl-live/Bio/Tools/Run/Alignment/
Clustalw.pm:523
STACK Bio::Tools::Run::Alignment::Clustalw::profile_align
/home/heikki/src/bioperl-live/Bio/Tools/Run/A
lignment/Clustalw.pm:484
STACK toplevel t/Clustalw.t:88

-------------------------------------
ok 8 # Clustalw program not found. Skipping.
ok 9 # Clustalw program not found. Skipping.



OSF1
====
ice ~/src/bioperl-live> perl -v

This is perl, v5.6.1 built for alpha-osf1

t/Clustalw..........ok 4/9sh: /clustalw: not found                           
------------- EXCEPTION -------------
MSG: Clustalw call crashed: 256 

STACK Bio::Tools::Run::Alignment::Clustalw::_run
blib/lib/Bio/Tools/Run/Alignment/Clustalw.pm:523
STACK Bio::Tools::Run::Alignment::Clustalw::align
blib/lib/Bio/Tools/Run/Alignment/Clustalw.pm:448
STACK toplevel t/Clustalw.t:58

-------------------------------------
t/Clustalw..........dubious                                                  
        Test returned status 2 (wstat 512, 0x200)
        after all the subtests completed successfully

t/GDB...............ok 1/11Use of uninitialized value in concatenation (.)
or string at t/GDB.t line 65.
t/GDB...............NOK 6Use of uninitialized value in concatenation (.) or
string at t/GDB.t line 81.
t/GDB...............FAILED tests 3-6, 8-11                                   


Failed Test  Status Wstat Total Fail  Failed  List of Failed
--------------------------------------------------------------------------------
t/Clustalw.t       2   512     9    0   0.00%  ??
t/GDB.t                       11    8  72.73%  3-6, 8-11




IRIX
=====
> perl -v

This is perl, v5.6.1 built for mips-irix

/consed............ok 10/12-------------------- WARNING
---------------------
MSG: Bio::Tools::Alignment::Consed::count_sequences_with_grep: This sub uses
grep which is doesn't run on this operating system, AFAIK. Sorry   .irix
---------------------------------------------------
t/consed............FAILED test 12                                           
        Failed 1/12 tests, 91.67% okay

Failed Test  Status Wstat Total Fail  Failed  List of Failed
--------------------------------------------------------------------------------
t/Clustalw.t       2   512     9    0   0.00%  ??
t/GDB.t                       11    8  72.73%  3-6, 8-11
t/consed.t                    12    1   8.33%  12



Results are almost identical to OSF above, but that is expected since both
compilations were done by one person.


The Bio::Tools::Alignment::Consed still has nonfunctional freeze_hash method
although the documentation claims it was removed.



I have Clustalw v. 1.82 all machines.


	-Heikki 

-- 
______ _/      _/_____________________________________________________
      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
   _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
     _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
___ _/_/_/_/_/________________________________________________________