Bioperl-guts: run report: new 'make test' warnings appearing under perl5.005_02

Chris Dagdigian dag@genetics.com
Mon, 2 Nov 1998 17:40:58 -0500


The distro I am talking about can be found at
ftp://bio.perl.org/pub/DIST/

The current bioperl-0.01 builds and runs fine on every system
I've tested:

o Linux Redhat 5.1 on i486 - bp_sw.c generates lots of type-mismatch errors but
                           builds and runs fine.

o SGI 02 workstation - Irix 6.3 - builds and runs fine
                
o Digital Unix 4.0D on AlphaServer(s)  - builds and runs fine

I came across some new warning messages today when playing
with bioperl on a new DEC 8400 AlphaServer that I installed perl onto
last week. The only difference on this machine is the version
of perl that is running (5.005_02). 

They are warning messages only, things appear to function fine. 
Looks like the -w strict switch is tougher in the new perl :)

 -chris dagdigian
  cdagdigian@genetics.com


The following is printed during 'make test'
=======================================================================================

[previous test output removed for brevity...]


t/WWW...............Can't locate auto/Bio/Root/Object/autosplit.ix in @INC (@INC contains: ../ blib/arch blib/lib 
/usr2/local//lib/perl5/5.00502/alpha-dec_osf /usr2/local//lib/perl5/5.00502/alpha-dec_osf 
/usr2/local//lib/perl5/5.00502/alpha-dec_osf /usr2/local//lib/perl5/5.00502 
/usr2/local//lib/perl5/5.00502/alpha-dec_osf /usr2/local//lib/perl5/5.00502/alpha-dec_osf 
/usr2/local//lib/perl5/5.00502 /usr2/local//lib/perl5/site_perl/5.005/alpha-dec_osf 
/usr2/local//lib/perl5/site_perl/5.005 . /usr2/local//lib/perl5/5.00502/alpha-dec_osf /usr2/local//lib/perl5/5.00502 
/usr2/local//lib/perl5/site_perl/5.005/alpha-dec_osf /usr2/local//lib/perl5/site_perl/5.005 .) at 
/usr2/local//lib/perl5/5.00502/AutoLoader.pm line 127.
 at ..//Bio/Root/Object.pm line 59
Ambiguous call resolved as CORE::warn(), qualify as such or use & at ..//Bio/Root/Object.pm line 2370.
Ambiguous call resolved as CORE::warn(), qualify as such or use & at ..//Bio/Root/Object.pm line 2429.
Ambiguous call resolved as CORE::warn(), qualify as such or use & at ..//Bio/Root/Object.pm line 2526.
ok
All tests successful.
Files=10,  Tests=11,  2 wallclock secs ( 1.32 cusr +  0.42 csys =  1.73 CPU)
No tests defined for Bio::Tools::Blast::Run extension.
PERL_DL_NONLAZY=1 /usr/bin/perl -I../blib/arch -I../blib/lib -I/usr2/local//lib/perl5/5.00502/alpha-dec_osf 
-I/usr2/local//lib/perl5/5.00502 test.pl
1..2
ok 1

2..2
Testing bp_sw with a protein alignment...

ProteinSW Matrix calculation: [      0] Cells  0%
one         1        WLGQRNLVSSTGGNLLNVWLKDW                           
                     W+G RN+V     NLLNVW +DW                           
two         1        WMGNRNVV-----NLLNVWFRDW                           


ok 2
smokey.genetics.com> 
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