[Biopython] [Biopython-dev] Experimenting with migrating wiki to GitHub pages
p.j.a.cock at googlemail.com
Fri Apr 8 17:25:52 UTC 2016
A short update on the MediaWiki to Markdown / GitHub pages work.
I have just updated the migration at:
This required minor changes to the settings and conversion due to
GitHub's updates, e.g.
I also filled in a few more mappings from the old MediaWiki usernames
to GitHub email addresses - hopefully these are all correct?
Likewise if anyone claims one of the following (number of edits, old username),
please email me:
1 - Amitjoshi
1 - Daniel P.
1 - Dj winter
3 - Einar
1 - Emeryl
1 - Hugog
1 - James Estevez
1 - Jbbrown
1 - Jflatow
1 - Jtriley
1 - Kian.ho
1 - Kmcallenberg
1 - Konrad
2 - Krishna
1 - Marc Juul
3 - MatatTHC
2 - Matsen
1 - Mys 721tx
2 - Mzapala
2 - NeilenMarais
3 - Newacct
2 - Nfdelane
1 - Nuin
1 - Robschia
1 - Zach Stednick
In other news, BioJava are hoping to switch over to their GitHub Pages
On Thu, Apr 7, 2016 at 11:55 AM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
> Dear Biopythoneers,
> In reference to my earlier email, the website migration has become more
> urgent as the main biopython.org website is down until the AWS server
> can be rebuilt:
> BioPerl has already got a potential replacement home page up and
> running using GitHub Pages, but this did not preserve the contribution
> You may recall last year I started work on a migration from MediaWiki
> to markdown using GitHub Pages?
> https://github.com/peterjc/mediawiki_to_git_md [migration tool]
> Andreas and the BioJava team started with my migration tool, and have
> already raced ahead with adding styling on top to make something
> quite impressive:
> http://biojava.github.io/wiki/Main_Page [pretty]
> In comparison right now the Biopython migration is currently very
> I was hoping to fix some of the remaining issues in the conversion, in
> particular the categories, but perhaps it is good enough already for the
> Biopython wiki? (Some of these limitations would have been/are more
> of a problem for the BioPerl wiki with many templates, and the main
> OBF wiki with many wiki pages using subfolder slashes in their names):
> Right now there are various things to do, including switching to the
> kramdown markup engine and other tweaks for Jekyll 3.0 (which
> Andreas has already done for BioJava):
> After than I think it would be sensible to start adopting much of the
> styling work pioneered by Andreas for the BioJava team?
> Do we have any GitHub pages experts in the community?
> In general, please have a look at the trial migration wiki pages
> and if you see any glitches, please report them via:
> and/or https://github.com/peterjc/mediawiki_to_git_md/issues
> Thank you,
> On Wed, Mar 4, 2015 at 4:46 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
>> I've got the basic wiki content converted in markdown and showing nicely
>> (while preserving the wiki revisions and most of the contributors). Adding
>> a theme for a pretty layout is a finishing touch. First, all the links and files
>> need doing - definitely possible.
>> A key question is will it be as easy for people to edit as the wiki is/was?
>> On Wed, Mar 4, 2015 at 4:22 PM, João Rodrigues
>> <j.p.g.l.m.rodrigues at gmail.com> wrote:
>>> Hi Peter, all,
>>> I've used Jekyll + Github to create our lab webpage. Turns out to be an
>>> amazingly simple solution and very collaborative as well. Nice thought of
>>> moving the wiki to such a system.
>>> A quick question: why not make a page from "scratch" ? Using a template and
>>> converting the HTML to markdown seems pretty simple, it's just a matter of
>>> agreeing on a layout.
>>> Maybe I'm missing the point and you're doing this already..
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