[gmx-users] GROMACS Wiki

David van der Spoel spoel at xray.bmc.uu.se
Thu May 3 08:53:12 CEST 2007

Mark Abraham wrote:
> Dallas B. Warren wrote:
>> FYI, MediaWiki is the one used by Wikipedia (plus the one that use /
>> know).  There are others.
>> In terms of integration with a Joomla site, I don't think there is
>> anything very good that works with MediaWiki.  Was one floating around
>> awhile ago, a component, but it didn't do a very good job (wiki is
>> displayed inside an iframe, so URL doesn't change on browser) and I
>> don't think it has been developed further.  There may be a better wiki
>> software now that integrates with Joomla better, if that is what you
>> want to do, just check the Joomla site.
> I googled a bit for wikis that work with Joomla (e.g. 
> http://extensions.joomla.org/component/option,com_mtree/task,listcats/cat_id,1812/Itemid,35/), 
> and found OpenWiki 
> http://projects.j-prosolution.com/projects/os-projects/project-openwiki.html 
> (formerly JD-Wiki) and thought it looked good. It's a Joomla integration 
> of the standards-compliant DocuWiki, whose feature list is here 
> http://wiki.splitbrain.org/wiki%3Afeatures
> I followed some other links to a wiki-comparison wiki at 
> http://www.wikimatrix.org. This contains a feature where you can select 
> features that you want in your wiki and it'll give you a table of 
> compliant wikis and you can whittle them down further. Whoever on the 
> GROMACS team will make this choice should probably do this process 
> themselves :-) After filtering for what I thought we'd want, the 
> resulting candidates are listed here 
> http://www.wikimatrix.org/compare/DokuWiki+Giki+MoinMoin+Perspective+PmWiki+ProWiki+PukiWiki+wxWikiServer+yawiki 
> The only features DocuWiki lacks that I think might be desirable is 
> WYSIWYG editing and MediaWiki-syntax compliance. I wouldn't want 
> WYSIWYG, but some people would rather not maintain documents with markup 
> inside it. MediaWiki seems to have more market share than DocuWiki, but 
> the syntax examples for DocuWiki look straightforward and accessible.
The one single reason for combining these things would be the abilitiy 
to reuse Joomla passwords. We already  have separate passwords for 
bugzilla, website and mailing lists. On the other hand since browsers 
memorize passwords for you it may not be that big a deal.
What do you think?
Having it separate (mediawiki) will probably make it easier to maintain 
since there are fewer interdependencies.
David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se

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