Jekyll2026-02-28T20:19:43+00:00https://chem-bla-ics.linkedchemistry.info/feed/by_tag/swat4ls.xmlchem-bla-icsChemblaics (pronounced chem-bla-ics) is the science that uses open science and computers to solve problems in chemistry, biochemistry and related fields.Egon WillighagenRescuing Scholia #3: We did it!2026-02-28T00:00:00+00:002026-02-28T00:00:00+00:00https://chem-bla-ics.linkedchemistry.info/2026/02/28/rescuing-scholia-3-we-did-itIt was not a set up, when I openly wondered if we would be able to rescue Scholia in time. I honestly did not know. Three weeks and some serious hacking by an international team later I was more optimistic. Actually, just before christmas, we started writing a SWAT4HCLS 2026 demonstration abstract. This was accepted and you can read the Scholia 2026: Compliance with SPARQL 1.1 preprint here and here. This paper describes the work that had to be done, and I am deeply grateful to everyone who contributed with smaller or bigger contributions (Daniel, Peter, Konrad, Johannes, Lars, Wolfgang, Hannah). I am merely first author for the demo, and just another contributor to the long series of patches, in a branch started by Prof. Hannah Bast.

The work actually started long before that, with the Robustifying Scholia grant (see doi:10.3897/rio.5.e35820), where we explored alternatives. The Wikidata graph (RDF) split has been long coming, and I can recommend this recent The Signpost article by Lane for a good overview. So, this would not have been possible with the many people who contributed over the years. But this last sprint really made a difference.

The developments of the QLever software in the past year are very important, and the SPARQL endpoint we run now is live updated, just like we knew from the Wikidata Query Service (WDQS). Recent improvement allowed us to replace all the Wikidata and Blazegraph specific aspects of the SPARQL queries, and good discussions let to pragmatic approaches to keep localization features Scholia had for displaying query results from Wikidata.

The work is not completed, however. All queries are SPARQL 1.1 now, but some can still be further optimized, and some still need some fixing. For example, I still spot some QIDs here and there, instead of the localized labels that should be shown instead. Also, we are actively looking in getting everything running again on WMF servers (see this overview issue), so that scholia.toolforge.org works again.

For now, however, please use qlever.scholia.wiki.

]]>Egon WillighagenThe SWAT4LS poster about eNanoMapper2016-12-18T00:00:00+00:002016-12-18T00:00:00+00:00https://chem-bla-ics.linkedchemistry.info/2016/12/18/my-swat4ls-poster-about-enanomapperSWAT4LS was once again a great meeting. I doubt I will find time soon enough to write up notes, but at least I can post the eNanoMapper poster I presented, which is available from F1000Research:

]]>Egon WillighagenSWAT4LS: “Linking Open Drug Data to Cheminformatics and Proteochemometrics”2009-11-21T00:00:00+00:002009-11-21T00:00:00+00:00https://chem-bla-ics.linkedchemistry.info/2009/11/21/swat4ls-linking-open-drug-data-toPlease find below the presentation I gave today at SWAT4LS :

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