[Bioperl-l] Problems with Bioperl-ext package on WinVista?

[Jonny Dalzell]

Hi,

thanks.  I did install HHMER from the site Mark suggested, and it is within
the directories that perl recognizes when reading the script...still I get 

"The C-compiled engine for Hidden Markov Model (HMM) has not been installed.
 Please read the install the bioperl-ext package"

Is it possible that this module simply won't run through windows?

jonny



Sendu Bala-2 wrote:
> 
> Jonny Dalzell wrote:
>> Hi,
>> 
>> I'm as sure as I can be.  I look in the HHMER folder and it contains
>> "Domain.pm", "Results.pm", and "Set.pm".  I thought perhaps it was
>> something
>> to do with @INC, but I put 
>> "use lib "strawberry/per/lib C:/strawberry/perl/site/lib/Bio/Tools/";" at
>> the top of my script, which definately encompasses the directory it
>> should
>> be in, and I still get...
>> 
>> "Can't locate Bio/Tools/HMM.pm in @INC (@INC contains: strawberry/per/lib
>> C:/strawberry/perl/site/lib/
>> Bio/Tools/ C:/strawberry/perl/lib C:/strawberry/perl/site/lib .) at
>> HMM.txt
>> line 5.
>> BEGIN failed--compilation aborted at HMM.txt line 5."
>> 
>> I'm out of ideas.
> 
> lib (or at least one entry in your PERL5LIB) needs to point to the 
> directory that contains the Bio directory. So:
> 
> use lib "strawberry/per/lib C:/strawberry/perl/site/lib/";
> 
> Now it will be able to locate Bio::Tools::Hmm. You'll still get your 
> original error because you don't have Hmmer installed. See Mark's reply.
> 
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> 
> 

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