[Bioperl-l] First release of Bio::Community

[Florent Angly]

Francisco >
At the moment, Bio::Community has to use the last released version of
BioPerl (1.6.922) so that people can install it easily through CPAN.

When you use the development version of BioPerl, do you still have the issue?
I should point out that the module Bio::Root::IO, which handles
processing line endings, uses either in-house code or a third-party
module (PerlIO::eol, http://search.cpan.org/dist/PerlIO-eol/eol.pm).
See the clarification I made at:
https://github.com/bioperl/Bio-Root/commit/6f570df89c7202383b098a5774accddec2453508
It would be good to know whether the two methods fail or only one of
them on Windows.
Cheers,

Florent



On Fri, Nov 29, 2013 at 7:48 AM, Francisco J. Ossandón
<fossandonc at hotmail.com> wrote:
> Congratulation for your module Florent!
> I have been testing the code in Windows and there are several tests failing.
> Several fails are caused by same 'seek/read' problem that I found in
> BioPerl, that is caused because Windows Perl hides the '\r' character when
> reading files, so its absent from the variable when using m// and length()
> but is present on the file. I still need to debug more.
>
> By the way, what's the difference between 'sub', 'func' and 'method'??
>
> Cheers,
>
> Francisco J. Ossandon
>
> -----Mensaje original-----
> De: bioperl-l-bounces at lists.open-bio.org
> [mailto:bioperl-l-bounces at lists.open-bio.org] En nombre de Fields,
> Christopher J
> Enviado el: jueves, 28 de noviembre de 2013 1:05
> Para: Florent Angly
> CC: BioPerl List
> Asunto: Re: [Bioperl-l] First release of Bio::Community
>
> Done!
>
> http://news.open-bio.org/news/2013/11/initial-release-of-bioperl-biocommunit
> y-distribution/
> https://twitter.com/obf_news/status/405909716867366912
>
> chris
>
> On Nov 25, 2013, at 6:34 AM, Florent Angly <florent.angly at gmail.com> wrote:
>
>> Thank Hilmar and Chris. Yes, I don't mind the announcement being
>> poster on these websites.
>> Best,
>> Florent
>>
>> On Sat, Nov 23, 2013 at 5:07 AM, Fields, Christopher J
>> <cjfields at illinois.edu> wrote:
>>> Very good point!  Florent, let me know if you want to add the post there,
> I can probably get you set up (or post it for you directly if you want).
>>>
>>> chris
>>>
>>> On Nov 22, 2013, at 9:07 AM, Hilmar Lapp <hlapp at drycafe.net> wrote:
>>>
>>>> Awesome! Florent, would you mind this going up as a blog post on Open
> Bio? Also, have you thought about posting this to Ecolog?
>>>>
>>>>      -hilmar
>>>>
>>>> On Nov 21, 2013, at 11:07 PM, Florent Angly wrote:
>>>>
>>>>> Dear all,
>>>>>
>>>>> Some time ago, I announced that I was working on a set of BioPerl
>>>>> modules collectively forming the Bio-Community distribution. These
>>>>> Moose-based modules provide objects to represent communities,
>>>>> metacommunities and their members, and they also provide many
>>>>> methods to interact with them, perform various ecological operations
> (e.g.
>>>>> rarefaction, taxonomic summary, subsampling), and to read/write
>>>>> them to file in multiple formats.
>>>>>
>>>>> Today, I am happy to announce the release of the first version of
>>>>> these modules, which can be obtained from CPAN:
>>>>> http://search.cpan.org/search?query=Bio-Community&mode=dist
>>>>>
>>>>> Obviously, this is just the beginning for these modules and I hope
>>>>> that interested developpers will join me to expand them.
>>>>>
>>>>> Best,
>>>>>
>>>>> Florent
>>>>> _______________________________________________
>>>>> Bioperl-l mailing list
>>>>> Bioperl-l at lists.open-bio.org
>>>>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>>>>
>>>> --
>>>> ===========================================================
>>>> : Hilmar Lapp -:- Durham, NC -:- hlapp at drycafe dot net :
>>>> ===========================================================
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> Bioperl-l mailing list
>>>> Bioperl-l at lists.open-bio.org
>>>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>>>
>
>
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