Bioperl: 06 - pre release 2.

[Ewan Birney]

On Thu, 2 Mar 2000, Leonardo Marino-Ramirez wrote:

> Ewan Birney wrote:
> > 
> > The second pre release of the 06 series is out for people to download
> > and test/break/complain about. It is at
> > 
> > ftp://bio.perl.org/pub/birney
> > 
> > bioperl-06pre2.tar.gz
> > 
> > 
> > **YOU** can help with c) by downloading the code and attempting
> > to run your existing scripts and/or writing new ones which
> > make the system not behave how you want it to...
> > 
> 
> t/DB is failing.
> 

>From here it works. The fail is just because it could not find the
network (as the test result says - notice it says that it is 
skipping the test).

> terminator [~/perl/bioperl-06pre2] % make test
> PERL_DL_NONLAZY=1 /usr/local/bin/perl -I./blib/arch -I./blib/lib
> -I/usr/share/lib/perl5/irix-n32/5.00404 -I/usr/share/lib/perl5 -e 'use
> Test::Harness qw(&runtests $verbose); $verbose=0; runtests @ARGV;' t/*.t
> t/Annotation........ok
> t/Blast.............ok
> t/CodonTable........ok
> t/DB................Warning: Couldn't connect to Genbank with
> Bio::DB::GenBank.pm!
> {Probably no network access.
>  Skipping Test
> Warning: Couldn't connect to Genbank with Bio::DB::GenPept.pm!
> Probably no network access
> ok
> t/HSP...............ok
> t/HTML..............ok
> t/Index.............ok
> t/PrimarySeq........ok
> t/Range.............ok
> t/RangeI............ok
> t/RestrictionEnzyme.ok
> t/Sbjct.............ok
> t/Seq...............ok
> t/SeqAnal...........ok
> t/SeqFeature........ok
> t/SeqIO.............ok
> t/Sigcleave.........ok
> t/SimpleAlign.......ok
> t/UnivAln...........ok
> t/WWW...............ok
> t/exception.........ok
> t/hmmer.............ok
> All tests successful.
> Files=22,  Tests=144, 21 secs (11.80 cusr  4.26 csys = 16.06 cpu)
> terminator [~/perl/bioperl-06pre2] % uname -a
> IRIX64 terminator 6.5 07151433 IP25
> terminator [~/perl/bioperl-06pre2] %
> 
> --------------------------
> 
> tofu [~/software/bioperl-06pre2] % make test
> PERL_DL_NONLAZY=1 /usr/bin/perl -Iblib/arch -Iblib/lib
> -I/usr/lib/perl5/5.00503/i386-linux -I/usr/lib/perl5/5.00503 -e 'use
> Test::Harness qw(&runtests $verbose); $verbose=0; runtests @ARGV;' t/*.t
> t/Annotation........ok
> t/Blast.............ok
> t/CodonTable........ok
> t/DB................Warning: Couldn't connect to Genbank with
> Bio::DB::GenBank.pm!
> {Probably no network access.
>  Skipping Test
> Warning: Couldn't connect to Genbank with Bio::DB::GenPept.pm!
> Probably no network access
> ok
> t/HSP...............ok
> t/HTML..............ok
> t/Index.............ok
> t/PrimarySeq........ok
> t/Range.............ok
> t/RangeI............ok
> t/RestrictionEnzyme.ok
> t/Sbjct.............ok
> t/Seq...............ok
> t/SeqAnal...........ok
> t/SeqFeature........ok
> t/SeqIO.............ok
> t/Sigcleave.........ok
> t/SimpleAlign.......ok
> t/UnivAln...........ok
> t/WWW...............ok
> t/exception.........ok
> t/hmmer.............ok
> All tests successful.
> Files=22,  Tests=144, 13 wallclock secs ( 7.83 cusr +  0.35 csys =  8.18
> CPU)
> tofu [~/software/bioperl-06pre2] % uname -a
> Linux tofu.tamu.edu 2.2.12-20smp #1 SMP Mon Sep 27 10:34:45 EDT 1999
> i686 unknown
> tofu [~/software/bioperl-06pre2] % 
> 
> 
> Regards, 
> 
> Leonardo Marino-Ramirez
> marino@tofu.tamu.edu
> 

-----------------------------------------------------------------
Ewan Birney. Mobile: +44 (0)7970 151230
<birney@ebi.ac.uk>
-----------------------------------------------------------------

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