[Bioperl-l] error in build.pl of bioperl-live

Chris Fields cjfields at uiuc.edu
Sat Feb 9 04:47:08 UTC 2008


I don't see either the 'Use of initialized' error or the massive  
failed test issue using Mac OS X (perl 5.8).  I get a different set of  
warnings using perl 5.10 related to Data::Dumper but not this (and  
everything runs fine).

It might be of help to know what perl version, OS, etc. you are  
using.  It also might be worth upgrading Module::Build and  
Test::Harness as well (though the Build.PL script should catch that  
and warn you).


On Feb 8, 2008, at 9:58 PM, Ryan Golhar wrote:

> Hi Hilmar,
> The script doesn't halt, but the tests do fail.  I sent another  
> message with the errors I am seeing.  I do not know if they are  
> related to this or not.
> Ryan
> Hilmar Lapp wrote:
>> Hi Ryan,
>> On Feb 8, 2008, at 9:01 PM, Ryan Golhar wrote:
>>> I get an error "Use of uninitialized value in concatenation (.) or  
>>> string at Build.PL line 184.".
>> do keep in mind that this kind of message is almost never an error.  
>> It's simply a warning that you wouldn't even see w/o -w. All that  
>> it means is that a scalar with an undefined value is being  
>> evaluated to a string (which results, by default, in an empty  
>> string).
>> Is the build failing or halting at this point for you?
>> That said, it's indeed a good to point those out, as someone either  
>> should have initialized a scalar when it wasn't, or that someone  
>> was expecting the scalar to always have a value, and so the absence  
>> of it may indicate an unexpected condition resulting from an error  
>> elsewhere.
>>   -hilmar
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign

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