13:51:02 <RRSAgent> RRSAgent has joined #hcls
13:51:02 <RRSAgent> logging to http://www.w3.org/2010/03/22-hcls-irc
13:51:07 <ericP> Zakim, this is hcls
13:51:07 <Zakim> "hcls" matches SW_HCLS(Disc)10:00AM, and SW_HCLS(Chairs)9:00AM, ericP
13:51:17 <ericP> Zakim, this is Disc
13:51:17 <Zakim> ericP, I see SW_HCLS(Disc)10:00AM in the schedule but not yet started.  Perhaps you mean "this will be Disc".
13:51:22 <ericP> Zakim, this will be Disc
13:51:22 <Zakim> ok, ericP; I see SW_HCLS(Disc)10:00AM scheduled to start in 9 minutes
13:57:15 <AlexPassant> AlexPassant has joined #hcls
14:00:07 <Donald_Doherty> Donald_Doherty has joined #hcls
14:01:20 <Zakim> SW_HCLS(Disc)10:00AM has now started
14:01:27 <Zakim> + +0186528aaaa
14:02:09 <kei> kei has joined #HCLS
14:02:31 <ericP> Zakim, who is here?
14:02:31 <Zakim> On the phone I see +0186528aaaa
14:02:33 <Zakim> On IRC I see kei, Donald_Doherty, AlexPassant, RRSAgent, Zakim, trackbot, jun, egonw, ericP
14:02:37 <Zakim> + +1.506.648.aabb
14:02:39 <Zakim> - +0186528aaaa
14:03:35 <Donald_Doherty> Restricted conference?
14:03:37 <Zakim> - +1.506.648.aabb
14:03:38 <Zakim> SW_HCLS(Disc)10:00AM has ended
14:03:40 <Zakim> Attendees were +0186528aaaa, +1.506.648.aabb
14:04:03 <Zakim> SW_HCLS(Disc)10:00AM has now started
14:04:08 <Zakim> + +1.404.778.aaaa
14:04:10 <Zakim> + +0186528aabb
14:04:20 <Zakim> - +0186528aabb
14:04:39 <jun> zakim, who is here
14:04:39 <Zakim> jun, you need to end that query with '?'
14:04:46 <jun> zakim, who is here?
14:04:46 <Zakim> On the phone I see +1.404.778.aaaa
14:04:47 <Zakim> On IRC I see kei, Donald_Doherty, AlexPassant, RRSAgent, Zakim, trackbot, jun, egonw, ericP
14:04:58 <AlexPassant> cannot join on phone neither
14:05:03 <jun> me neither
14:05:12 <jun> I pinged Eric, to see whether he could help
14:05:31 <ericP> working on it
14:05:36 <jun> I could join in on 42572
14:06:05 <Zakim> - +1.404.778.aaaa
14:06:05 <ericP> go with 42572
14:06:06 <Zakim> SW_HCLS(Disc)10:00AM has ended
14:06:07 <Zakim> Attendees were +1.404.778.aaaa, +0186528aabb
14:06:08 <Zakim> SW_HCLS(Disc)10:00AM has now started
14:06:16 <Zakim> + +03539149aaaa
14:06:17 <Zakim> - +03539149aaaa
14:06:18 <Zakim> +Kei_Cheung
14:06:21 <ericP> Zakim, space for 20?
14:06:23 <Zakim> sorry, ericP; could not schedule an adhoc conference; passcode overlap; if you do not have a fixed code you may try again
14:06:25 <Zakim> +Don_Doherty
14:06:38 <Zakim> -Don_Doherty
14:06:39 <mscottm> mscottm has joined #hcls
14:06:54 <ericP> ok, 42572
14:07:00 <Zakim> + +0186528aabb
14:07:08 <Zakim> +??P3
14:07:09 <ericP> i don't know what will happen with term
14:07:18 <ericP> but you all can probably work it out
14:07:29 <AlexPassant> Zakim, ??P3 is me
14:07:29 <Zakim> +AlexPassant; got it
14:07:41 <Zakim> + +1.404.778.aacc
14:07:53 <Zakim> +??P6
14:07:58 <mscottm> I can't make TERM today John will need to know the magic incantation.
14:08:00 <jun> zakim, +0186528aabb is jun
14:08:00 <Zakim> +jun; got it
14:08:26 <Zakim> +Don_Doherty
14:08:39 <Zakim> +??P8
14:09:13 <mscottm> Zakim, who is here?
14:09:13 <Zakim> On the phone I see Kei_Cheung, jun, AlexPassant, +1.404.778.aacc, ??P6, Don_Doherty, ??P8
14:09:15 <Zakim> On IRC I see mscottm, kei, Donald_Doherty, AlexPassant, RRSAgent, Zakim, trackbot, jun, egonw, ericP
14:09:54 <Zakim> + +1.937.775.aadd
14:10:52 <Zakim> + +03539149aaee
14:11:03 <Zakim> + +1.506.648.aaff
14:11:06 <david_newman> david_newman has joined #HCLS
14:11:17 <david_newman> Hi All
14:11:21 <mscottm> Zakim, who is talking?
14:11:24 <jun> Topic: look at the wiki page
14:11:31 <Zakim> mscottm, listening for 10 seconds I heard sound from the following: Kei_Cheung (5%), +1.404.778.aacc (34%), ??P6 (14%), ??P8 (45%), +03539149aaee (34%)
14:11:35 <kei> http://esw.w3.org/HCLSIG/SWANSIOC/Actions/SWANmyExpArray
14:11:37 <jun> zakim, mute me
14:11:37 <Zakim> jun should now be muted
14:11:39 <jun> http://esw.w3.org/HCLSIG/SWANSIOC/Actions/SWANmyExpArray
14:11:47 <ericP> ericP has changed the topic to: http://esw.w3.org/HCLSIG/SWANSIOC/Actions/SWANmyExpArray
14:11:49 <david_newman> I can't seem to join the concall as it says its restricted
14:12:01 <jun> try 42572
14:12:07 <mscottm> Zakim, who is talking?
14:12:09 <david_newman> ok I will try that
14:12:19 <Zakim> mscottm, listening for 10 seconds I heard sound from the following: ??P6 (29%), +03539149aaee (56%)
14:12:32 <mscottm> Zakim, mute +03539149aaee 
14:12:32 <Zakim> +03539149aaee should now be muted
14:12:49 <jun> ScribNick: jun
14:12:57 <Zakim> +Luc
14:14:13 <mscottm> https://docs.google.com/viewer?url=http://esw.w3.org/images/a/ac/SWAN-myExp-MGED_Sketch_v3-1%252B2.pdf
14:14:59 <jun> Sudeshna: integrate different ontologies, SWAN and myExperiemnt ontology, etc
14:15:39 <jun> Sudeshna: introduce a layer of "study" to link SWAN and myExperiment ontology
14:16:44 <Zakim> + +1.763.463.aagg
14:17:07 <jun> Sudeshna: a study has data acquistion, using some assay in the lab, etc. 
14:17:23 <jun> Sudeshna: data acquistion has replicates
14:17:25 <jodi> jodi has joined #HCLS
14:18:22 <jun> scott: plan to work together with EFO ontology from EBI?
14:18:34 <jun> Sudeshna: no research on that yet
14:19:18 <jun> Kei: the key is to identify overlaps between different experiment ontologies, coordinate and interact with other people
14:19:41 <jun> Action to Sudeshna: investigate how to align with other ontologies
14:19:41 <trackbot> Sorry... I don't know anything about this channel
14:20:32 <jun> Sudeshna: we identify how MGED can interact with SWAN and other ontolgoies
14:21:30 <jun> Sudeshna: how the gene list objects from biordf task can fit with MGED ontology
14:22:10 <jun> Sudeshna: can link a claim with a data
14:22:44 <jun> Kei: gene lists are actually kind of evidence, part of the hypothesis
14:24:14 <jun> david: the OBI investigation ontology precedes the MGEN ontology?
14:24:29 <jun> satya: MGED is part of the OBI now
14:24:49 <Zakim> - +03539149aaee
14:25:30 <jun> ack
14:25:53 <jun> Action to satya: check our ontologies align with the OBI ontologies
14:25:53 <trackbot> Sorry... I don't know anything about this channel
14:26:13 <ssahoo2> ssahoo2 has joined #HCLS
14:26:28 <jun> ack jun
14:27:48 <jun> Sudeshna: would like to have some examples to test this model
14:28:47 <jun> Kei: the microarray study from BioRDF might fit it. and we also find some terms to capture the exeriments, and we looked at other ontologies from the neuro. science domain
14:29:22 <jun> Kei: we haven't gone into a lot of details at the workflow level
14:29:57 <jun> Kei: we need some one who really understands the computational part of the experiment, in order to capture this part of the metadata
14:30:01 <jun> zakim, mute me
14:30:01 <Zakim> jun should now be muted
14:30:59 <jun> David: I have looked at some workflow ontologies
14:31:02 <matthias_samwald> matthias_samwald has joined #hcls
14:31:59 <jun> ack jun
14:33:05 <jun> Sudeshna: can we still use that ontology to describe processes that are not web services?
14:33:15 <Zakim> +??P10
14:33:26 <matthias_samwald> zakim, ??P10 i matthias_samwald
14:33:26 <Zakim> I don't understand '??P10 i matthias_samwald', matthias_samwald
14:33:37 <matthias_samwald> zakim, ??P10 is matthias_samwald
14:33:37 <Zakim> +matthias_samwald; got it
14:34:15 <jun> David: a process from the myExperiment ontology could be a web service or a script
14:34:48 <david_newman> myExperiment's workflow components ontology - http://rdf.myexperiment.org/ontologies/components
14:36:04 <egonw> like a Taverna activity?
14:36:26 <jun> Kei: we have someone working on the provenance of experiments and we need someone to pick up Lena's work of modelling gene lists
14:37:11 <jun> ack jun
14:38:20 <jun> Action to Jun, Satya, and Kei: create an RDF graph to describe the microarray experiment from bioRDF using these ontologies
14:38:20 <trackbot> Sorry... I don't know anything about this channel
14:40:06 <david_newman> @egonw Currently no RDF is being generated for the components of non-taverna workflows but the ontology is intended to be extensible
14:40:34 <jun> Action to Paolo: create an OWL for the file at https://docs.google.com/viewer?url=http://esw.w3.org/images/a/ac/SWAN-myExp-MGED_Sketch_v3-1%252B2.pdf
14:40:34 <trackbot> Sorry... I don't know anything about this channel
14:41:39 <jun> topic: introduction to the group
14:48:22 <jun> zakim, mute me
14:48:22 <Zakim> jun should now be muted
14:48:28 <Zakim> +??P13
14:48:56 <jun> ack jun
14:49:01 <jun> rrsagent, set log public
14:49:13 <jun> rrsagent, draft minutes
14:49:13 <RRSAgent> I have made the request to generate http://www.w3.org/2010/03/22-hcls-minutes.html jun
14:49:13 <Zakim> -Don_Doherty
14:49:15 <Zakim> -??P6
14:49:16 <Zakim> -Kei_Cheung
14:49:16 <Zakim> -Luc
14:49:17 <Zakim> - +1.937.775.aadd
14:49:17 <Zakim> - +1.763.463.aagg
14:49:17 <Zakim> -AlexPassant
14:49:19 <Zakim> - +1.404.778.aacc
14:49:23 <Zakim> - +1.506.648.aaff
14:49:24 <jun> trackbot, end telcon
14:49:25 <Zakim> -??P13
14:49:26 <Zakim> -matthias_samwald
14:49:34 <Zakim> -jun
14:49:38 <matthias_samwald> matthias_samwald has left #hcls
14:49:43 <egonw> david_newman: yeah, I wish I had a bit more time to look at the myexperiment onto
14:50:05 <egonw> been using the RDF/onto in Bioclipse to search and download Bioclipse Scripts
14:50:23 <Zakim> -??P8
14:50:24 <Zakim> SW_HCLS(Disc)10:00AM has ended
14:50:25 <Zakim> Attendees were +03539149aaaa, Kei_Cheung, Don_Doherty, AlexPassant, +1.404.778.aacc, jun, +1.937.775.aadd, +03539149aaee, +1.506.648.aaff, Luc, +1.763.463.aagg, matthias_samwald
14:50:48 <egonw> david_newman: also recently started uploading SPARQL queries, after talking with Kathy in November at SWAT4LS
14:54:25 <david_newman> @egonw Sorry just in transit there.  I have to admit there isn't much documentation for the components ontology yet.  There is a autogenerated spec document at http://rdf.myexperiment.org/generic/spec?ontology=41
14:55:22 <egonw> one thing that comes to mind: a XMPPProcessor
14:55:34 <egonw> love to see that :)
14:55:35 <david_newman> @egonw If you want to talk about this further I think I have you as a skype contact
14:56:07 <kei> kei has joined #HCLS
14:56:11 <david_newman> The intention is to allow for specification of other types of processor
14:56:52 <egonw> tomorrow the main XMPP IO-Data developer is here in our group... I'll see if I can write up some OWL for the processor...
14:56:58 <egonw> will email if so
14:57:46 <egonw> btw, why is there no SOAPProcessor? or is all SOAP nowadays via WSDL? Perhaps even T2 requires that (practically)?
14:58:28 <kei> Zakim, this will be BioRDF
14:58:28 <Zakim> ok, kei; I see SW_HCLS(BioRDF)11:00AM scheduled to start in 2 minutes
14:58:38 <david_newman> If you some example of the XMPPProcessor as they are represented in the workflow markup I should be able to incorporate them fairly quickly
14:58:45 <Zakim> SW_HCLS(BioRDF)11:00AM has now started
14:58:51 <Zakim> + +1.506.648.aaaa
14:58:52 <david_newman> I'll talk to you in skupe as I think this channel will be in use
14:59:00 <egonw> indeed :)
14:59:05 <david_newman> s/skupe/skype/
14:59:35 <david_newman> david_newman has left #HCLS
15:00:29 <Zakim> - +1.506.648.aaaa
15:00:30 <Zakim> SW_HCLS(BioRDF)11:00AM has ended
15:00:30 <Zakim> Attendees were +1.506.648.aaaa
15:00:37 <Donald_Doherty> Donald_Doherty has joined #hcls
15:00:43 <matthias_samwald> matthias_samwald has joined #hcls
15:01:21 <Zakim> SW_HCLS(BioRDF)11:00AM has now started
15:01:28 <Zakim> +??P4
15:01:54 <matthias_samwald> zakim, ??P4 is matthias_samwald
15:01:54 <Zakim> +matthias_samwald; got it
15:02:02 <Zakim> +Don_Doherty
15:02:05 <Zakim> +Kei_Cheung
15:02:29 <matthias_samwald> matthias is here as well, i cannot really talk at the moment (shared office)
15:03:47 <jodi> jodi has left #HCLS
15:09:06 <Zakim> + +1.506.648.aaaa
15:09:47 <Zakim> -matthias_samwald
15:11:17 <kei> chris baker introduction 
15:11:26 <kei> semantic web ontologies in canada
15:11:34 <kei> worked with kei on the sw book.
15:11:54 <kei> moved to singapore to work on text mining (dengue fever)
15:12:04 <kei> lipid ontology
15:12:11 <Zakim> + +1.937.775.aabb
15:12:12 <kei> visual query access
15:12:25 <ssahoo2> ssahoo2 has joined #HCLS
15:12:34 <kei> axioms and classes for the lipid ontology
15:12:42 <kei> based on function lipid groups
15:13:02 <kei> reflect structures of lipid molecules
15:13:12 <kei> semantic web services
15:13:46 <kei> mark up lipid related abstracts
15:14:16 <kei> semantic assistant framework
15:20:10 <matthias_samwald> matthias_samwald has joined #hcls
15:25:04 <kei> semantic assistant 
15:25:07 <matthias_samwald> matthias_samwald has joined #hcls
15:26:28 <kei> described through wsdl
15:26:54 <kei> standard person location etc
15:38:41 <Zakim> -Don_Doherty
15:38:42 <Zakim> - +1.937.775.aabb
15:38:42 <Zakim> -Kei_Cheung
15:38:44 <Zakim> - +1.506.648.aaaa
15:38:44 <Zakim> SW_HCLS(BioRDF)11:00AM has ended
15:38:46 <Zakim> Attendees were matthias_samwald, Don_Doherty, Kei_Cheung, +1.506.648.aaaa, +1.937.775.aabb
15:39:40 <Donald_Doherty> Donald_Doherty has joined #hcls
15:43:21 <matthias_samwald1> matthias_samwald1 has joined #hcls
16:34:18 <mscottm> mscottm has joined #hcls
16:46:45 <mscottm>   RRSAgent, please draft minutes
16:46:45 <RRSAgent> I have made the request to generate http://www.w3.org/2010/03/22-hcls-minutes.html mscottm
16:46:54 <mscottm>   RRSAgent, please make log world-visible
17:16:46 <Zakim> Zakim has left #hcls
18:40:07 <mscottm> mscottm has joined #hcls