I am a bit unsure of Holger's comment about the size of the FMA repository. When I did the export as you suggested, Irene, it says about 1.7 million triples. This is what I also heard from someone else. Anyway, the export seems to have worked.
Now the question is how to use this TDB of the FMA model/repository with my models. I can open the database, but cannot import it into my model. Do you have more documentation on how to use repositories in TBC? I dislike having to ask questions when I can answer them in documentation. Jack On Friday, June 6, 2014 12:10:35 PM UTC-7, Irene Polikoff wrote: > > Just open your model then do File -> Export -> Export/Merge RDF Graphs and > pick TDB as the format. > > > > *From:* [email protected] <javascript:> [mailto: > [email protected] <javascript:>] *On Behalf Of *Jack Hodges > *Sent:* Friday, June 06, 2014 1:38 PM > *To:* [email protected] <javascript:> > *Subject:* Re: [topbraid-users] Model loading...taking forever > > > > Creating a TDB seems like a good idea but I cannot find the 'Add Files' > button referenced in the help blurb. Unless it is called something else in > the UI. > > On Thursday, June 5, 2014 7:49:53 PM UTC-7, Holger Knublauch wrote: > > Well, this (FMA) is a very unusual model - everything is an instance of > some other instance (many levels deep) and the root of all that > (dl:Anatomical_entity_template) is an instance of itself but is not even > declared as a class! My previous speculations about the class tree were > irrelevant, but I assumed you were using some kind of flat class structure > used by many other bio ontologies. > > Anyway, I have loaded that file (took two minutes on my 8 GB Windows 7 > machine) and exported it to TDB. Loading the TDB into TBC takes about 2 > seconds. A SPARQL query such as > > SELECT ?type COUNT(?type) > WHERE { > ?subject rdf:type ?type . > } GROUP BY ?type > > also responded within a second or two. Auto-complete in the main search > box in the tool bar is also responding very quickly for me (e.g. try dl:Liq > + CTRL-Space) which takes one second on my machine. > > The model has about 215k triples, which is not very large but certainly a > challenge for a machine with little memory (unless a database such as TDB > is used). > > I am not really sure what else to do next, as I am not able to reproduce > the severe slowness you report. > > Thanks, > Holger > > > > On 6/6/2014 12:12, Jack Hodges wrote: > > Holger, > > > > Here is the link to the major player in this exercise (the Foundational > Model of Anatomy): > > > > http://www.bioontology.org/wiki/index.php/FMAInOwl > > > > I downloaded and load the owl file: > > > > http://bioontology.org/projects/ontologies/fma/fmaOwlFullComponent_2_0.owl > > > > but they say it can be referenced: > > > > http://bioontology.org/projects/ontologies/fma > > > > Jack > > On Thursday, June 5, 2014 2:57:02 PM UTC-7, Holger Knublauch wrote: > > On 6/6/2014 5:06, Jack Hodges wrote: > > My apology, I meant class name searches in the navigator. > > > > On my new Windows 7 laptop these searches take less than a minute, but > > are still noticeable. > > Ok, auto-complete is indeed not optimized in TBC and the system may need > to walk through all 70k classes. I will record this as an enhancement > request. > > > I tried many configurations of memory and they have no impact on load > > times for my models on this new machine. They remain at 11 minutes. I > > am not sure why it was faster on the iMac but will time it again when > > I am home again (where the iMac is). > > Is the load time still 11 minutes if you have switched to TDB? > > Also, I would like to drill down into your scenario a bit: could you > point me at the RDF files that you are playing with? > > Thanks > Holger > > -- > -- You received this message because you are subscribed to the Google > Group "TopBraid Suite Users", the topics of which include Enterprise > Vocabulary Network (EVN), TopBraid Composer, TopBraid Live, TopBraid > Insight, SPARQLMotion, SPARQL Web Pages and SPIN. > To post to this group, send email to > [email protected] > To unsubscribe from this group, send email to > [email protected] > For more options, visit this group at > http://groups.google.com/group/topbraid-users?hl=en > --- > You received this message because you are subscribed to the Google Groups > "TopBraid Suite Users" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > For more options, visit https://groups.google.com/d/optout. > > > > -- > -- You received this message because you are subscribed to the Google > Group "TopBraid Suite Users", the topics of which include Enterprise > Vocabulary Network (EVN), TopBraid Composer, TopBraid Live, TopBraid > Insight, SPARQLMotion, SPARQL Web Pages and SPIN. > To post to this group, send email to > [email protected] <javascript:> > To unsubscribe from this group, send email to > [email protected] <javascript:> > For more options, visit this group at > http://groups.google.com/group/topbraid-users?hl=en > --- > You received this message because you are subscribed to the Google Groups > "TopBraid Suite Users" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected] <javascript:>. > For more options, visit https://groups.google.com/d/optout. > -- -- You received this message because you are subscribed to the Google Group "TopBraid Suite Users", the topics of which include Enterprise Vocabulary Network (EVN), TopBraid Composer, TopBraid Live, TopBraid Insight, SPARQLMotion, SPARQL Web Pages and SPIN. 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