Samuel's Tech Blog

Just to inform that I created a new release of the RDFIO MediaWiki extension. It contains important security fixes, by adding at least some basic checking of user rights and CSRFs (Cross site request forgeries) to the SPARQL endpoint, RDF import form etc. Thus, it's highly recommended to upgrade if you are using the extension on a public wiki!

• Download tarball
• Svn repo url: http://smwrdfio.googlecode.com/svn/branches/0.2.x
• Install instructions

Also, you might already have seen:

• The demo screen cast
• The install screencast

Current GSoC status

Otherwise, me and Denny just confirmed the remaining TODO list for my GSoC project, which is what I start working on now:

1. In the SPARQL endpoint, enable querying by any URI specified as equivalent URI
2. For RDF export, implement an "export by ontology" option, that - when possible - restricts the URIs used for a wiki page to only those that appears in an ontology that the user points to
3. Create an HTML interface for interactively configureing how wiki titles should be chosen for RDF entities for which no preferred "wiki title property" (such as rdfs:label, dc:title etc.) was found.
4. Add "pseudo namespaces" as an option for choosing wiki titles from general RDF URIs (not only properties!). I.e, the possibility to abbreviate a part of an URI into a pseudo-namespace, making the URI more fit for use as wiki title. (For properties, there if often a well known abbreviation for the corresponding vocabulary/ontology's base URI, but this is often not the case for general RDF entities, which can often be from some user defined data etc).

There are also some extra additions that I'll look into if time permits, like adding support for filtering the output on export with a property such as "RDF export::False", as suggested by Daniel Herzig.

In a previous blog post I demonstrated with a screen cast the RDFIO extension for Semantic MediaWiki but nothing on installation.

By testing I realized that the install procudure was VERY painful. I have now (with much valuable help from Oleg Simakoff) corrected a number of errors in the instructions and the code, and added to the install instructions commandline snippets for linux/ubuntu. I also created a screencast which goes through the steps from scratch (except Apache/MySQL/PHP setup), in a little more than 5 minutes. Hope this makes things easier for you testers! (And as you might try it out, please report any bugs or issues in the issue tracker!)

Sorry for the low volume level! Didn't realize that while recording ... :/

So, for those of you who might think the Install instructions for the RDFIO Semantic MediaWiki extension I'm working on are a bit daunting but would like a glimpse of what my GSoC project is up to anyway, I created a short (3:20) screencast demonstrating (ARC2 based) RDF Import and SPARQL "Update" functionality for some example data. (Sorry for the lame speaking ... :P ... didn't sleep for a looong time )

The screencast shows how you can import RDF/XML into Semantic MediaWiki and then use the SPARQL endpoint to insert or remove data to/from articles, even using the original format of the RDF that you imported earlier.

(For you who decide to try to install, please have a look at the error fixing happening in this thread.)

(Figured I better do regular status updates, as a lot of small things tend to get missed if blogging only when there is something to show off)

As you might have seen among the GSoC2010 tagged posts I've had a rudimental RDF/XML import, and a SPARQL endpoint (only for querying so far!) up running for a while. You should be able to set up these yourself by following one or more of the instructions in the Google code repo:

• ARC2 Store Install (required for SPARQL endpoint)
• ARC2 SPARQL Endpoint Install
• RDF Import Install

I have since worked a bit on some use cases, which revealed a lot of intricacies to take into account on RDF import. One of them was a spinoff discussion, from a blog post by Egon Willighagen, which quite nicely outlines one of the motivations for having general RDF import in MediaWiki (read post, read discussion).

The last few days I've been working on heavly refactoring the import code, so that it is more general and easy to modify in new ways. There is still a lot to be improved in the code, like error handling, documentation, adding more options etc, so feel free to give feedback on the code! (Especially RDFImporter.php and EquivalendURIHandler.php, and preferrably use the mailing lists: semediawiki-devel, semediawiki-user or mediawiki-l)

The RDF import seems to be the most challenging part in my project (and on which the export feature heavily depends) - since it is the part where I'm breaking a bit of new ground, so here feedback is much welcome.

Choosing wiki titles for RDF entities on import - Feedback wanted

The one most challenging issue is about how to select reasonable wikititles to use for RDF entities on RDF import, based on the RDF data (one relevant blog post here). The question of being able to export the page with the original URI, should not limit the choice directly, since this is already solved by storing the original URI as a property on each page.

The thoughts we have had so far - in short - is:

• First look if the RDF entity in question has one of a list of properties, in prioritized order, that should be used as wiki title.
  • The first of these, could be a special property which can be used to manually specify this by including it in the imported RDF, like "hasWikiTitle".
  • The suggested list or properties so far can be seen in this blog post. This list should of course be configurable, and one question is also how to best implement this configuration? A setting in LocalSettings.php? A wiki page?
• If no matching property is in this list, then the label for the RDF entity should be used. For example, if the entity:s URI is http://bio2rdf.org/go:0032283, then 0032283 is used.

How to configure namespace prefixes / preudo-namespaces?

Using only the label of course has the risk that multiple RDF entities converts to the same wiki title, which is not acceptable for example if using the wiki as a "one time RDF editor", which is one of the motivations for this project.

To solve this, one alternative (as a configurable option) could be to use a pseudo-namespace in the wiki title (e.g. "go" in the above example, which would result in "go:0032283" as the wikititle). This could be configured by creating a mapping between base URI:s and pseudo-namespaces (.e. "http://bio2rdf.org/go:" and "go", in this case).

But then there is the question how to configure this mapping. We've been thinking of a few options:

• Let it be configured in the incoming RDF, by using a custom predicate "hasPseudoNameSpace"
• Store a config in a Wiki article
• Config in LocalSettings.php
• On submitting data for import, analyze it first and present a screen with all the base URI:s used, with fields to manually fill in the pseudo-prefixes to use.
• Any combination of the above

I will be working ahead, and try to figure out the most reasonable strategy together with Denny (who is my GSoC mentor), but feedback and comments are always welcome! (As said, preferrably send feedback on the mailing lists; semediawiki-devel, semediawiki-user or mediawiki-l!)

If you want to follow the project progress, see the status page for options

One of the things we try to do in my GSoC project is to select suitable wiki titles when importing arbitrary RDF triples into Semantic MediaWiki (The full RDF URI:s are very ugly to use as wiki titles!).

Simply shorting the namespace in the entitiy's URI to it's prefix (as specified in the import data) could be a general fallback (see screenshot) but for many types of data it could be nice to make use of a property that puts some "natural language" label for the entity instead. We came up with this list of properties so far:

• http://semantic-mediawiki.org/swivt/1.0#page
• http://purl.org/dc/elements/1.1/title
• http://www.w3.org/2004/02/skos/core#preferredLabel
• http://xmlns.com/foaf/0.1/name

More suggestions?

I now managed to create a SPARQL endpoint for Semantic MediaWiki, in a MediaWiki SpecialPage, based on the ARC2 RDF library for PHP (including its built-in triplestore). See screenshot below, and code in the svn trunk. (I have to say I'm impressed by the ease of working with ARC2!)

Code is still quite ugly and the "Equivalent URI" handling that we talked about is still not implemented. Will turn to that now, while doing some refactoring (more object oriented etc).

Ok, even nicer now ... after allowing to introduce custom namespace prefixes also with '?' and '=' as separators (Don't know if that is valid for QNames though? Anyone knows?) than before (blog post 1, and post 2):

Code (see code repo) is still quite ugly though. Just typed together to get things working. Will look at structuring things more as soon as I have slept a little better :)

I also got to think of these random issues, which is foremost questions to myself, that might not be fully thought-through yet, but jotting them down here for possible feedback (hoping it's readable ^^):

• Imports will have to be done according to a special "mapping configuration", so that the same config can be used on import and export, if wanted. Such a config should be generated on import based on the RDF namespaces used. It should also be manually expandable with a prioritized list of properties (like dc:title) to use as substitute for URIs. Maybe it could be stored in a (timestamped?) wiki article?
• When using "natural language" substitutes for URI:s, such as "dc:title", one has to put a property such as swivt:originalURI or similar into the page, so that it can be exported again with its original URI (or there is already the swivt:importedFrom (or sth like that...) ... is it better to use that?
• The SPARQL endpoint will need to be accessed according to the same kinds of mapping configs if the wiki should be able to be queried in the same format as the import data ...