[Bioperl-l] Need help installing Bioperl on Windows

Chris Fields cjfields at illinois.edu
Thu Oct 23 20:54:10 EDT 2008


Apparently there are problems building DB_File with ActivePerl on most  
platforms with perl 5.10:

http://community.activestate.com/node/2810

I suggest using ActivePerl 5.8 until this is resolved.

chris

On Oct 23, 2008, at 5:51 PM, Kevin Brown wrote:

> Which version of Perl did you install from Activestate?
>
> I have 5.8.8.820 and DB_File is provided by the Activestate  
> repository.
>
>> -----Original Message-----
>> From: bioperl-l-bounces at lists.open-bio.org
>> [mailto:bioperl-l-bounces at lists.open-bio.org] On Behalf Of
>> Corbo, Joseph
>> Sent: Thursday, October 23, 2008 1:47 PM
>> To: bioperl-l at lists.open-bio.org
>> Subject: [Bioperl-l] Need help installing Bioperl on Windows
>>
>> Greetings.  I am trying to install Bioperl on my Windows XP
>> machine and
>> am having a problem I would greatly appreciate some help with.  I am
>> following the directions for installing Bioperl as given on
>> the Bioperl
>> website page "Installing Bioperl on Windows" under the section
>> "Installation using the Perl Package Manager".  I added the three new
>> repositories (http://bioperl.org/DIST/ etc.) as they instruct.  Then
>> when I try to install Bioperl either using the GUI installation or  
>> the
>> command line sequence "ppm-shell, search bioperl, install [number]" I
>> get the following error message which I don't know how to fix:
>>
>>
>>
>> WARNING: Can't find any package that provides DB_File:: for
>> Bundle-BioPerl-Core
>>
>>
>>
>> bioperl depends on Bundle-BioPerl-Core
>>
>> bioperl depends on SVG
>>
>> bioperl depends on GD-SVG
>>
>> bioperl depends on Spreadsheet-ParseExcel
>>
>> bioperl depends on XML-SAX
>>
>> bioperl depends on AcePerl
>>
>> bioperl depends on XML-SAX-ExpatXS
>>
>> bioperl depends on SOAP-Lite
>>
>> bioperl depends on SVG-Graph
>>
>> bioperl depends on Bio-ASN1-EntrezGene
>>
>> bioperl depends on XML-XPath
>>
>> bioperl depends on Convert-Binary-C
>>
>> bioperl depends on XML-Twig
>>
>> bioperl depends on Set-Scalar
>>
>> bioperl depends on Text-Shellwords
>>
>> bioperl depends on Data-Stag
>>
>> bioperl depends on libxml-perl
>>
>> bioperl depends on XML-Writer
>>
>> bioperl depends on Graph
>>
>> bioperl depends on Class-AutoClass
>>
>> bioperl depends on Clone
>>
>> bioperl depends on XML-DOM-XPath
>>
>> bioperl depends on IO-stringy
>>
>> bioperl depends on OLE-Storage_Lite
>>
>> bioperl depends on XML-NamespaceSupport
>>
>> bioperl depends on Cache-Cache
>>
>> bioperl depends on MIME-Lite
>>
>> bioperl depends on Math-Derivative
>>
>> bioperl depends on Math-Spline
>>
>> bioperl depends on Statistics-Descriptive
>>
>> bioperl depends on Tree-DAG_Node
>>
>> bioperl depends on Heap
>>
>> bioperl depends on Test-Deep
>>
>> bioperl depends on XML-DOM
>>
>> bioperl depends on XML-XPathEngine
>>
>> bioperl depends on Error
>>
>> bioperl depends on Email-Date-Format
>>
>> bioperl depends on MIME-Types
>>
>> bioperl depends on MailTools
>>
>> bioperl depends on Test-Tester
>>
>> bioperl depends on Test-NoWarnings
>>
>> bioperl depends on XML-RegExp
>>
>> bioperl depends on Test-Pod
>>
>> bioperl depends on TimeDate
>>
>>
>>
>>
>>
>> Any thoughts on how to fix this?  Thanks, Joe Corbo
>>
>>
>>
>>
>> _______________________________________________
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>> Bioperl-l at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>>
>
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Marie-Claude Hofmann
College of Veterinary Medicine
University of Illinois Urbana-Champaign






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