[Bioperl-l] a Main Page proposal

Fri Sep 25 12:54:36 EDT 2009

cheers- any efforts are appreciated.  I am not sure what is the best  
way to provide this info to folks without spending a ton of time  
curating.  What would be ideal is if the software worked well enough  
that a volunteer only spent time adding the info not debugging the  
display or code.  It might be that something better exists -- online  
reference management like citeulike or mendeley -- that could then be  
linked in via an API.  .... Webservices, etc will save us all, right?   
Okay not really, but at least we can try and keep this organized till  
it is clear what are alternate solutions.  Martin has stopped working  
on Biblio as far as I know and php-hacking is not my favorite pastime.

-jason
On Sep 25, 2009, at 9:38 AM, Mark A. Jensen wrote:

> I figured you really wanted the 'hundreds-o-cites' effect-- I'm just  
> thinking of this
> as a workaround until the issues are resolved. Not sure I can devote  
> too much
> time to playing with it now (procrastinating using other projects at  
> the mo') but
> I can put it in the todo list on the Documentation Project page....
> cheers MAJ
> ----- Original Message ----- From: "Jason Stajich" <jason at bioperl.org>
> To: "Mark A. Jensen" <maj at fortinbras.us>
> Cc: "Chris Fields" <cjfields at illinois.edu>; "BioPerl List" <bioperl-l at lists.open-bio.org 
> >; "Peter" <biopython at maubp.freeserve.co.uk>
> Sent: Friday, September 25, 2009 11:47 AM
> Subject: Re: [Bioperl-l] a Main Page proposal
>
>
>> thanks - yeah I had separated it by year to make it easier to  
>> update  them since the main file was too large, but I liked having  
>> them all  pulled in onto one page in order to see the total number  
>> of cites.  Brian's graphic is nice but a little out of date, and  
>> only reflects a  pubmed query.
>>
>> Basically that system doesn't work well enough with biblio since  
>> it  isn't caching the lookups very well.   We can probably do  
>> better  somehow, but someone would have to really be dedicated to  
>> it, so I can  kind of see now why we could use something like this  
>> to generate the  citations so they'd be static.
>> http://sumsearch.uthscsa.edu/cite/
>>
>> I had used Biblio extension as it was so easy but maybe it just  
>> can't  scale for that number of needed refs as it doesn't do very  
>> good local  caching AFAIK.
>>
>> -jason
>> On Sep 25, 2009, at 6:30 AM, Mark A. Jensen wrote:
>>
>>> It's ugly, but it works now.
>>> ----- Original Message ----- From: "Chris Fields" <cjfields at illinois.edu
>>> >
>>> To: "Peter" <biopython at maubp.freeserve.co.uk>
>>> Cc: "BioPerl List" <bioperl-l at lists.open-bio.org>; "Mark A.  
>>> Jensen" <maj at fortinbras.us
>>> >
>>> Sent: Monday, September 21, 2009 9:05 AM
>>> Subject: Re: [Bioperl-l] a Main Page proposal
>>>
>>>
>>>>
>>>> On Sep 21, 2009, at 7:28 AM, Peter wrote:
>>>>
>>>>> Peter wrote:
>>>>>>> We had some similar discussions about the Biopython wiki
>>>>>>> based homepage - although our old one was nowhere near
>>>>>>> as busy as the current BioPerl main page, it was still not as
>>>>>>> welcoming as our current version *tries* to be.
>>>>>>> ...
>>>>>>> I can dig out links to our mailing list archive if anyone is
>>>>>>> interested in the discussion.
>>>>>
>>>>> On Mon, Sep 21, 2009 at 12:32 PM, Mark A. Jensen wrote:
>>>>>>
>>>>>> I'd appreciate those links, Peter- thanks
>>>>>> MAJ
>>>>>
>>>>> OK, here you are - this was most of it, I'd have to dig though
>>>>> my old emails to see what else I can find:
>>>>> http://lists.open-bio.org/pipermail/biopython-dev/2009-April/005867.html
>>>>>
>>>>> Remember Biopython went from a very minimal home page, to
>>>>> something aiming to be more newcomer friendly. BioPerl on the
>>>>> other hand seems to want to move away from the current very
>>>>> text heavy information rich page to something more focused and
>>>>> newcomer friendly. To me at least the current page is too dense,
>>>>> intimidating, and the important bits get lost in all the content.
>>>>>
>>>>> [My apologies if any of this feedback come accross too blunt.]
>>>>
>>>> Not at all; I'm thinking the same thing.
>>>>
>>>>> If you haven't already looked at them, you should checkout the
>>>>> other OBF project pages for ideas. The BioJava homepage is
>>>>> also using the wiki - in my opinion it is a bit cluttered, but is
>>>>> still more accessible than the current BioPerl page. Also,
>>>>> the BioRuby page is very nice - although not wiki based.
>>>>>
>>>>> Regards,
>>>>>
>>>>> Peter
>>>>
>>>> I think the Biopython layout is very nice and focused.  Maybe a   
>>>> bit  too minimal, but then again I don't like scrolling up and  
>>>> down  the  page to find the relevant bits, so less may be better.
>>>>
>>>> Reminds me of the simplifed design on the perl6 main page (just   
>>>> don't stare at the hallucinogenic butterfly too long):
>>>>
>>>> http://www.perl6.org/
>>>>
>>>> So, maybe a structured layout with the most important links, and  
>>>> additional links on a separate page.
>>>>
>>>> chris
>>>>
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>>>
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>>
>> --
>> Jason Stajich
>> jason.stajich at gmail.com
>> jason at bioperl.org
>>
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>

--
Jason Stajich
jason.stajich at gmail.com
jason at bioperl.org