[Bioperl-l] Bioperl 1.5.2 RC5 installonWinXPActivePerl

Chris Fields cjfields at uiuc.edu
Fri Dec 1 14:01:59 EST 2006

On Dec 1, 2006, at 12:52 PM, Nathan S. Haigh wrote:

> Chris Fields wrote:
>>> Chris Fields wrote:
>>> PPM).  I can
>>>> see using CPAN as an alternative way of installing Bioperl for a  
>>>> distribution, or as the primary method via CVS or manually, but  
>>>> not for distributions.  At least not until the kinks are worked  
>>>> out for Windows users.
>>> CPAN isn't being suggested as the primary or preferred  
>>> installation method for Windows. That will still be PPM. I'm  
>>> mentioning CPAN / manual installation in the Windows INSTALL docs  
>>> for the benefit of anyone who wants a simple install and test  
>>> environment when checking out from CVS.
>> That's fine by me.  I think the focus is making sure the PPM  
>> works, but that
>> shouldn't hold up the final 1.5.2 release.  The PPM for previous  
>> releases
>> was never released concurrently with the distribution (if at all); it
>> generally followed by a few weeks to a few months past a final  
>> release.
>>>> What are the significant issues for a bioperl PPM installation
>>> None that I'm aware of - I just need to find the time to start  
>>> looking into generating an appropriate PPD. Hopefully Nathan's  
>>> wiki page on the subject will be all I need.
>> I'll try testing it out today and next week (the more people we  
>> have looking
>> into the issue the better).  I'm sure that Module::Build hasn't  
>> updated to
>> using PPM4 XML formatting, but the tags are similar enough.  I can  
>> always
>> create a local PPM database using a similar directory structure to
>> bioperl.org/DIST and test an installation from it.
>> chris
> To clarify a few things about PPM4 XML and to highlight the main  
> differences:
> 1) The use of PROVIDE and REQUIRE tags
> 2) PPM4 XML "should" contain PROVIDE tags for ALL bioperl modules.
> 3) VERSION in PROVIDE and REQUIRE tags should be floats, not comma  
> separated tuples like PPM3 XML
> 4) the VERSION in PROVIDE and REQUIRE are used internally to do  
> version comparisons for upgrades and solving prereqs etc
> 5) Module names should all contain '::' either natively according  
> their namespace, if it doesn't have one natively, then one is  
> appended to the end e.g. "GD::"
> 6) the VERSION in the SOFTPKG key is for human readability only
> 7) the NAME in SOFTPKG is used to identify which packages are  
> actually the same.
> Nath

Okay.  Maybe place this in the wiki (PPM page) for future reference?

Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign

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