IRC log of hcls on 2008-11-13
Timestamps are in UTC.
- 16:07:09 [RRSAgent]
- RRSAgent has joined #hcls
- 16:07:09 [RRSAgent]
- logging to http://www.w3.org/2008/11/13-hcls-irc
- 16:07:11 [mscottm]
- Zakim, who is here?
- 16:07:11 [Zakim]
- sorry, mscottm, I don't know what conference this is
- 16:07:12 [Zakim]
- On IRC I see RRSAgent, Zakim, matthias_samwald, kei, Jun, mscottm, ericP
- 16:07:12 [ericP]
- Zakim, this is hcls
- 16:07:12 [Zakim]
- ok, ericP; that matches SW_HCLS()11:00AM
- 16:07:25 [matthias_samwald]
- hi, i am only listening (sitting in a public place)
- 16:07:39 [Zakim]
- +EricP
- 16:07:44 [ericP]
- i have pretty bad static as well
- 16:07:46 [mscottm]
- Zakim, who is here?
- 16:07:46 [Zakim]
- On the phone I see +1.617.395.aacc, TNBhat, +0186528aadd, Kei_Cheung, +1.312.041.aaee, +46.4.63.3.aaff, Marc_Schroeder, EricP
- 16:07:54 [Zakim]
- On IRC I see RRSAgent, Zakim, matthias_samwald, kei, Jun, mscottm, ericP
- 16:08:26 [ericP]
- topic: introductions
- 16:08:42 [ericP]
- KevinDoyle: i'm from Teranode
- 16:08:53 [ericP]
- ... we have a product that uses Oracle's triple store
- 16:08:54 [Zakim]
- + +1.781.662.aagg
- 16:09:11 [Susie]
- Susie has joined #hcls
- 16:09:35 [ericP]
- ... i serve as an interface between customer (so i know their applications) and developers
- 16:10:43 [ericP]
- topic: flybase [Jun]
- 16:11:03 [Jun]
- flyweb
- 16:11:23 [ericP]
- s/flybase/flyweb/
- 16:12:28 [mscottm]
- http://users.ox.ac.uk/~zool0770/presentations/2008_11-13_HCLS_Call.pdf
- 16:13:11 [ericP]
- ericP has changed the topic to: HCLS Telecon - flyweb: http://users.ox.ac.uk/~zool0770/presentations/2008_11-13_HCLS_Call.pdf
- 16:14:27 [Jun]
- http://openflydata.org/flyui/build/apps/imagemashup2/
- 16:15:12 [matthias_samwald]
- i see both
- 16:24:59 [ericP]
- mscottm: you have a lookup for overloaded gene names. is that local?
- 16:25:09 [ericP]
- ... so you have all synonyms available?
- 16:25:29 [ericP]
- Jun: yes, quite authoritative within the Dres community
- 16:26:28 [ericP]
- slide: [SPARQL queries]
- 16:27:08 [ericP]
- jun: sparql tools with 8M [triples? records?] were too slow on case-insensitive searches so we down-cased everything
- 16:27:25 [ericP]
- slide: [The RDF data sources]
- 16:27:44 [ericP]
- Jun: we used d2rq
- 16:28:07 [ericP]
- ... we were conservative so we could impose minimal semantic interpretations
- 16:28:32 [Jun]
- chris mugall
- 16:28:37 [Jun]
- mungall
- 16:29:08 [ericP]
- ... Chris Mungall published one with much more semantic interpreation
- 16:30:27 [kdoyle]
- kdoyle has joined #HCLS
- 16:30:36 [ericP]
- slide: [SPARQLite Protocol]
- 16:30:45 [ericP]
- Jun: streaming was very important to our app
- 16:30:54 [ericP]
- ... otherwise we ran into memory limitations
- 16:31:43 [ericP]
- ... we want to eliminate killer queries (including CONSTRUCT)
- 16:32:04 [ericP]
- slide: [Lessons]
- 16:32:48 [ericP]
- Jun: we find the unified RDF approach easier, but saw no overwhelming reason we couldn't use conventional tooling
- 16:33:12 [ericP]
- ... but RDF proved easier when we had to connect to another data source (an RDB)
- 16:38:57 [mscottm]
- mscottm has joined #hcls
- 16:40:53 [Jun]
- unbounded
- 16:42:45 [ericP]
- OPTIONAL { ... ?x } FILTER (!BOUND(?x))
- 16:43:56 [ericP]
- ericP: was streaming sparql getting around a protocol limitation, or an implementation limitation
- 16:44:03 [ericP]
- jun: implementation
- 16:44:09 [ericP]
- ericP: what were your killer queries?
- 16:44:13 [ericP]
- jun: will send
- 16:44:32 [ericP]
- mscottm: what's the cost and challenge to cloud computing for this?
- 16:44:54 [ericP]
- ... you said text matching was expensive
- 16:45:02 [ericP]
- ... e.g. identifier completion?
- 16:45:06 [matthias_samwald]
- Amazon EC2 pricing: http://aws.amazon.com/ec2/#pricing
- 16:45:18 [ericP]
- jun: we don't want to do too many LIKE queries -- leave that to user
- 16:45:53 [ericP]
- ... text completions is lower priority than adding data sources to flyweb
- 16:46:26 [ericP]
- RRSAgent, please draft minutes
- 16:46:26 [RRSAgent]
- I have made the request to generate http://www.w3.org/2008/11/13-hcls-minutes.html ericP
- 16:46:33 [ericP]
- RRSAgent, please make log world-visible
- 16:47:32 [ericP]
- kei: is the use case focused on developmental biology, and will you expand the biological domain?
- 16:47:45 [ericP]
- jun: yes, and we are looking for opportunities to do so
- 16:48:06 [ericP]
- kei: are you considering other gene expression data, e.g. microarray?
- 16:48:28 [ericP]
- jun: yes, the @@X and @@Y databases have microarray data
- 16:48:58 [Jun]
- flyatlas
- 16:49:05 [ericP]
- ... we'll have some microarray data
- 16:49:23 [ericP]
- ... for instance, we'll integrate flyatlas into the next release of flyweb
- 16:50:17 [mscottm]
- http://www.w3.org/2001/sw/hcls/
- 16:50:19 [ericP]
- topic: f2f [mscottm]
- 16:51:01 [ericP]
- mscottm: f2f was at the W3C TPAC in mandelieu FR. allowed us to geek with other folks
- 16:51:20 [matthias_samwald]
- someone needs to mute his/her phone.
- 16:51:25 [matthias_samwald]
- Zakim, who is talking?
- 16:51:35 [Zakim]
- matthias_samwald, listening for 10 seconds I heard sound from the following: +1.312.041.aaee (14%), +1.781.662.aagg (5%)
- 16:52:14 [ericP]
- ... break-out session focused on integrating Bio2RDF with the LODD project
- 16:54:04 [ericP]
- -> http://esw.w3.org/topic/HCLSIG/F2F/2008-10_F2F HCLS IG face2face agenda
- 16:56:20 [ericP]
- topic: Summary of ISWC
- 16:57:15 [Zakim]
- -Marc_Schroeder
- 16:57:43 [matthias_samwald]
- that was actually me. had to leave the call.
- 16:59:22 [ericP]
- topic: Outreach Update [SusieS]
- 16:59:56 [ericP]
- Susie: SemTech conf is accepting abstracts for spring 2009
- 17:00:15 [ericP]
- -> http://www.semantic-conference.com/ SemTech
- 17:00:47 [ericP]
- Susie: if we get enough proposals, we could get our own track
- 17:01:02 [ericP]
- ... i'll be a cochair for bio.... next year
- 17:01:11 [ericP]
- ... interested in improvement feedback
- 17:01:24 [ericP]
- ... working with CDISC and HL7
- 17:01:55 [ericP]
- s/bio..../bio ontologies sig at ISMB/
- 17:02:09 [Zakim]
- - +46.4.63.3.aaff
- 17:02:10 [Zakim]
- -TNBhat
- 17:02:11 [Zakim]
- -Kei_Cheung
- 17:02:12 [Zakim]
- - +0186528aadd
- 17:02:13 [Zakim]
- - +1.617.395.aacc
- 17:02:13 [ericP]
- RRSAgent, please draft minutes
- 17:02:13 [RRSAgent]
- I have made the request to generate http://www.w3.org/2008/11/13-hcls-minutes.html ericP
- 17:02:16 [Zakim]
- - +1.781.662.aagg
- 17:02:25 [Zakim]
- - +1.312.041.aaee
- 17:02:30 [Zakim]
- -EricP
- 17:02:32 [Zakim]
- SW_HCLS()11:00AM has ended
- 17:02:33 [Zakim]
- Attendees were +1.617.395.aaaa, +1.312.041.aabb, +1.617.395.aacc, TNBhat, +0186528aadd, Kei_Cheung, +1.312.041.aaee, +46.4.63.3.aaff, Marc_Schroeder, EricP, +1.781.662.aagg
- 19:02:27 [Zakim]
- Zakim has left #hcls