[Bioperl-l] bioperl 1.5.1 RC1 up

Barry Moore bmoore at genetics.utah.edu
Thu Sep 22 12:51:55 EDT 2005

Debian Woody, Perl 5.6.1

Failed Test       Stat Wstat Total Fail  Failed  List of Failed
t/RestrictionIO.t               14    1   7.14%  10
t/tutorial.t       255 65280    21    6  28.57%  19-21
123 subtests skipped.
Failed 2/220 test scripts, 99.09% okay. 4/9916 subtests failed, 99.96%

Same RestrictionIO error I've been getting.  Still not sure why.
Haven't looked into the tutorial failures.


-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org] On Behalf Of Jason
Sent: Wednesday, September 21, 2005 9:44 PM
To: Bioperl list
Subject: [Bioperl-l] bioperl 1.5.1 RC1 up

Release candidates for Bioperl 1.5.1 is up -I've not tagged anything  
in CVS so commits should continue to be made to the repository HEAD:


Tests pass for me on OSX with some, but not all dependancies installed.

I do see this for t/OntologyStore.t and a failed test --
MSG: [5/5] tried to fetch http://cvs.sourceforge.net/viewcvs.py/ 
*checkout*/song/ontology/so.definition?rev=HEAD, but server threw  
500.  re


t/OntologyStore.t                6    4  66.67%  3-6
125 subtests skipped.
Failed 1/220 test scripts, 99.55% okay. 4/9916 subtests failed,  
99.96% okay.

I believe aspects of this test should be disabled without  

I think the Changes file and README will need to be checked over and  
corrected for this release.

Can folks check over for any test failures.  I believe RestrictionIO  
is going to fail on perl 5.6.x but I don't know exactly what the  
workaround is - other than detect perl version and skip tests where  

Can anyone speak up for bioperl-run and bioperl-ext as to whether or  
not we can tag and put these out as developer release as well?  I  
need someone to help out with testing these packages and getting them  
ship-shape for a release too.

Jason Stajich
Duke University

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