[Bioperl-l] evalues/floating point tests

[Mark A. Jensen]

OK- I'll do a fresh build of RC3 and send the results- 
(I recall seeing the issue in the HSP tests some while back as well...)

----- Original Message ----- 
From: "Chris Fields" <cjfields at illinois.edu>
To: "Mark A. Jensen" <maj at fortinbras.us>
Cc: "BioPerl List" <bioperl-l at lists.open-bio.org>
Sent: Saturday, January 17, 2009 5:22 PM
Subject: Re: [Bioperl-l] evalues/floating point tests


> Mark,
> 
> If you have any additional errors post them here if you have time  
> (particularly for Strawberry Perl):
> 
> http://www.bioperl.org/wiki/Release_1.6_Testing
> 
> or you can send them in to me.  Related to Win installation I may try  
> downloading ActivePerl for Mac OS X and test out PPM connectivity if I  
> have time this weekend.
> 
> I'm pretty sure the evalue issue has popped up before.  In fact, Scott  
> Markel reported additional zeros appearing in evals, along with file  
> name problems with Windows.
> 
> chris
> 
> On Jan 17, 2009, at 4:06 PM, Mark A. Jensen wrote:
> 
>> I am getting these funky fails as well (ActiveState/Cygwin/Vista and  
>> strawberry/Cygwin/Vista); I'm all for the kludge, should prevent a  
>> LOT of chatter at support, but I can try to ferret out the  
>> underlying issue.
>>
>> ----- Original Message ----- From: "Chris Fields" <cjfields at illinois.edu 
>> >
>> To: "BioPerl List" <bioperl-l at lists.open-bio.org>
>> Sent: Saturday, January 17, 2009 4:53 PM
>> Subject: [Bioperl-l] evalues/floating point tests
>>
>>
>>> I've noticed an odd issue when testing BioPerl on WinXP yesterday   
>>> which doesn't appear to be popping up anywhere else.  When  
>>> comparing  floating point numbers, several tests fail like the  
>>> following:
>>>
>>> #   Failed test at t\SearchIO\blast_pull.t line 40.
>>> #          got: '1e-23'
>>> #     expected: '1e-023'
>>>
>>> #   Failed test at t\SearchIO\blast_pull.t line 67.
>>> #          got: '6e-59'
>>> #     expected: '6e-059'
>>>
>>> These are generally in lines like (for the example above)
>>>
>>> is $result->get_parameter('expect'), 1e-23;
>>>
>>> I'm adding a method to Bio::Root::Test for comparing two floating   
>>> point numbers based on equality:
>>>
>>> float_eq $float1, $float2, $message;
>>>
>>> This basically wraps is() but runs both values through  
>>> 'sprintf("%g",  $foo)' prior to the comparison; it has a prototype  
>>> requiring two  values to be passed and an optional message.  Any  
>>> objections to the  method name or adding this in?  I've already  
>>> converted many of the  tests in t/SearchIO over but wanted to pass  
>>> it by the group prior to  an actual commit.
>>>
>>> chris
>>> _______________________________________________
>>> Bioperl-l mailing list
>>> Bioperl-l at lists.open-bio.org
>>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>>>
>>
> 
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