[Biopython-dev] Experimenting with migrating wiki to GitHub pages

[Peter Cock]

On Sun, Apr 10, 2016 at 8:22 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
> Both BioPerl.org and BioJava.org are now pointing at
> GitHub Pages sites.
>
> On Fri, Apr 8, 2016 at 11:10 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
>>
>> Yes - I'm also hoping to switch biopython.org to the GitHub
>> pages version ASAP (and we the OBF need to write a blog
>> post about this too):
>>
>> https://github.com/biopython/biopython.github.io
>> http://biopython.github.io/wiki/Biopython
>>
>> I made some progress on the migration, and will tackle the
>> category pages next,
>
> That's working now, meaning most of the content is usable.
> There are other minor issues, but as far as I can tell, nothing
> we couldn't fix after making the switch to GitHub pages live.
>
> https://github.com/biopython/biopython.github.io/issues
>
> Please do have a look round the conversion to see if you
> can spot any problems with it, relevant pages:
>
> http://biopython.github.io/wiki/Biopython
> http://biopython.github.io/wiki/Download
> http://biopython.github.io/wiki/Mailing_lists
> http://biopython.github.io/wiki/Documentation
> http://biopython.github.io/wiki/Category:Cookbook
> http://biopython.github.io/wiki/SourceCode
> http://biopython.github.io/wiki/Participants
> http://biopython.github.io/wiki/Scriptcentral
>
>> then "borrow" some of Andreas' styling
>> work as showcased on the (now live) http://biojava.org site.
>
> This is where I am most hoping for help, tracking issue:
> https://github.com/biopython/biopython.github.io/issues/3

Markus has been working on this - thank you!

>> Adding the static API documentation pages should be easy,

Done, live at

http://biopython.github.io/DIST/docs/api/
https://github.com/biopython/biopython.github.io/tree/master/DIST/docs/api

>> the old release might be more trouble if there are any hosting
>> or file size limits we might hit...

I have imported the tutorial etc, under the docs folder:

http://biopython.github.io/DIST/docs/ (currently 404 error)
https://github.com/biopython/biopython.github.io/tree/master/DIST/docs

If you know the URL, you can link directly to existing files, e.g.
the BOSC 2003 talk which Brad gave featuring many of the other
candidate logos for Biopython:

https://biopython.github.io/DIST/docs/presentations/bosc_biopython.pdf
https://github.com/biopython/biopython.github.io/blob/master/DIST/docs/presentations/bosc_biopython.pdf

It ought to be simple to add file listings to these folder with Jekyll...

> On a related point, I don't think there is much point having a
> snapshot of the code under the /SRC/ folder - the only reason
> I've used it have been for a simple HTTP link to test files or the
> licence. I think we can put a place holder page up directing
> people to GitHub instead?

Done:

https://github.com/biopython/biopython.github.io/tree/master/SRC
http://biopython.github.io/SRC/

Curiously GitHub Pages with Jekyll 3.0 hasn't automatically made
"naked" URLs into links - this looks like a regression from GitHub
switching to kramdown, simplest fix is wrapping the URL as <URL>
instead.

http://hakanu.net/markdown/2016/03/22/switched-to-redcarpet-instead-of-kramdown-as-markdown-renderer/

Peter