[Bioperl-l] ActiveState Perl problems

Chris Fields cjfields at uiuc.edu
Wed Feb 6 12:09:40 EST 2008


SOAP::Lite is pretty complicated; I'm not sure if it is pure perl  
either (which makes it problematic for WinXP).  I'll do some checking  
around to see if there is a perl 5.10 build for Windows.

I'm toying around with the idea of setting up a nightly PPM archives  
of the bioperl distributions in their own directory, along with  
nightly tar balls.  Just need to get time to work on it!

chris

On Feb 6, 2008, at 10:36 AM, Nathan S Haigh wrote:

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> Last time I was playing with Windows PPM packages, I seem to  
> remember having to build some packages for inclusion in the BioPerl  
> repo so that all
> dependencies were satisfied. Unfortunately, I don't have time to do  
> this myself, but it's a work around if someone has time to do it?  
> Alternatively,
> contact one of the other repo's and see if they can do something  
> about it as it will/should be available for at least an older  
> version of ActivePerl.
>
> Sorry I can't be more help.
> Nath
>
>
> Lincoln Stein wrote:
>> Sadly, bioperl still won't install under ActiveState 5.10 because  
>> it can't
>> find a repository with the SOAP::Lite prerequisite.
>>
>> Lincoln
>>
>> On Feb 5, 2008 10:06 PM, Chris Fields <cjfields at uiuc.edu> wrote:
>>
>>> According to this page you can remove the <ARCHITECTURE> tags and it
>>> will assume the files are for any OS:
>>>
>>>
>>> http://aspn.activestate.com/ASPN/docs/ActivePerl/5.10/lib/ActivePerl/PPM/PPD.html#ppd_xml_format
>>>
>>> I have moved the old package.xml to package.bak and replaced it with
>>> one w/o those tags; I can now pick it up on Mac OS X using  
>>> ActiveState
>>> perl 5.10:
>>>
>>> ppm> search *
>>> Downloading bioperl.org packlist...not modified
>>> 1: Bio-ASN1-EntrezGene v1.09
>>> 2: Bundle-BioPerl-Core v1.5.2_100
>>> 3: Bundle-BioPerl-Db v1.5.2_100
>>> 4: Bundle-BioPerl-Network v1.5.2_100
>>> 5: Bundle-BioPerl-Run v1.5.2_100
>>> 6: Class-AutoClass v1.01
>>> 7: GD-SVG v0.25
>>> 8: Graph v0.80
>>> 9: SVG-Graph v0.01
>>> 10: bioperl v1.5.2_100
>>> 11: bioperl-db v1.5.2_100
>>> 12: bioperl-network v1.5.2_100
>>> 13: bioperl-run v1.5.2_100
>>>
>>> I'll add ARCHITECTURE versioning tags back when we know it's working
>>> (maybe tomorrow, when I can get on to WinXP to test it).
>>>
>>> chris
>>>
>>> On Feb 5, 2008, at 5:43 PM, Lincoln Stein wrote:
>>>
>>>> Hi Scott, Bioperl folk,
>>>>
>>>> I'm afraid that the ActiveState ppm install of BioPerl no longer
>>>> works.
>>>> Using the current ActiveState (perl version 5.10), I added the  
>>>> Bribes,
>>>> Kobes, BioPerl-Regular Releases, and BioPerl-Release Candidates
>>>> repositories. However, when I synched up, all but the Bribes reps
>>>> showed up
>>>> empty in the ppm tool.
>>>>
>>>> In addition, there's nothing in the release candidate rep any
>>>> longer. I used
>>>> to use this to get at Bioperl 1.5.
>>>>
>>>> Perhaps the architecture needs to be changed?
>>>>
>>>> Lincoln
>>>>
>>>>
>>>>
>>>> --
>>>> Lincoln D. Stein
>>>> Cold Spring Harbor Laboratory
>>>> 1 Bungtown Road
>>>> Cold Spring Harbor, NY 11724
>>>> (516) 367-8380 (voice)
>>>> (516) 367-8389 (fax)
>>>> FOR URGENT MESSAGES & SCHEDULING,
>>>> PLEASE CONTACT MY ASSISTANT,
>>>> SANDRA MICHELSEN, AT michelse at cshl.edu
>>>> _______________________________________________
>>>> Bioperl-l mailing list
>>>> Bioperl-l at lists.open-bio.org
>>>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>>> Christopher Fields
>>> Postdoctoral Researcher
>>> Lab of Dr. Robert Switzer
>>> Dept of Biochemistry
>>> University of Illinois Urbana-Champaign
>>>
>>>
>>>
>>>
>>
>>
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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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