14:56:52 RRSAgent has joined #hcls 14:56:52 logging to http://www.w3.org/2007/05/24-hcls-irc 14:57:07 rrsagent, set log world-visible 14:58:57 SW_HCLS()11:00AM has now started 14:59:04 +??P15 15:00:51 +Eric_Neumann 15:00:53 Are we on HCLS or BioRDF for the call? 15:02:09 Don has joined #hcls 15:03:03 +Tanya_Hongsermeier 15:03:25 +Don_Doherty 15:03:33 +Vipul_Kashyap 15:03:58 Tonya has joined #hcls 15:04:02 vipul has joined #hcls 15:04:05 +Alan 15:07:44 eneumann: Alan did an amazing job at Banff 15:07:48 ZAKIM info - http://www.w3.org/2001/12/zakim-irc-bot.html 15:11:48 alan ruttenberg: still remaining data sources to add, ISMB poster to do, in July, there is interest in perl.org for URL standardization, might be good to write up, calls out to NCBO and Amith, cuz we have the machine about 2 weeks before we have to give back to HP, anyone else who can provide a host would be great, server at Science Commons is a dev environment, over next few months, this is a basis for ongoing work at Science Commons, there is a list of kno 15:12:30 Billbug: consider adding monoclonal information 15:13:46 alan ruttenberg: if people have ontologies they want to load and play with, please send me a note, over the next weeks, I'm still recovering from being in demo mode, so won't be a lot of activity 15:14:47 eneumann: the word is out, people are interested, we need to put together a web page that simplifies the user experience, let's put a small set of front ends to the SPARQL engine, 15:15:28 alan ruttenberg: also things that can be done with Virtuoso interfaces, it might be worth getting Kingsly to do a demo for us, they have RDF browser, etc, to show us prebuilt interfaces 15:15:42 ACTION eneumann will contact Kingsley to arrange demo 15:16:28 Alan Ruttenberg: Mattias will be presenter for ISMB 15:17:05 BillBug: I'm curious to know, if people have chunks of OWL,, you'll load it, how does that relate to all the OWL artifacts that Chris Mungle has, etc. 15:17:50 Alan Ruttenberg: some are already loaded, we can load arbitrary OWL, yes, but links will be less straightforward. 15:19:12 BillBug: can we systematically load some resources, ACTION ITEM Bill will collect list of URLs, send to Alan Rutttenberg so Alan can load 15:20:13 +1 to what Tonya is saying 15:20:21 It's a whole bureacratic process 15:20:31 Has to be outside the firewall 15:20:50 AD privileges need to be set 15:20:54 Allan: Apple or Partners machines? 15:21:06 Approval process for this can be complicated 15:21:39 re: Apple machines - can the software run on Darwin OS 15:21:40 ACTION ITEMS BIll will look at APPLE, Tonya will inquire at Partners 15:21:41 Alan: yes 15:22:43 Question: What are the hardware requirements - specifically RAM & HD storage requirements 15:23:35 I would look to get loans (long term) for an XServe or two (dual or quad Intel CoreDuo) 15:24:15 Action ITEMS Tonya will also inquire with Ray about continuing the HP relationship 15:25:15 Allan Ruttenberg - Hardware 2 discs, 10gb of RAM, 150 gb drive 15:26:05 ACTION ITEM - please send Tonya updated list of demo sites 15:26:18 Alan: hardware requirements (corrections) - 4 - 8 GB RAM; 2 HDs - 10 - 15k rpm, 150 GB+, SATA 15:26:39 Tonya : we need a 2 tier strategy, 1 is to continue for the demo, 2nd is to create sustainable environment for future scope 15:27:56 Tonya: should we stabilize at HP or elsewhere 15:28:31 Allan Ruttenberg: eric, you mention you are writing an article, how do we ensure articles are appropriately attributed 15:28:54 eneumann: it's my column in this case, will mention the participants 15:29:13 eneumann: should we write an article on the demo? 15:29:20 billbug: absolutely 15:30:55 ACTION: BillBUG will start a googledoc draft 15:31:09 -Alan 15:31:09 ACTION: BIll will look at APPLE, Tonya will inquire at Partners 15:32:04 ACTION: Alan please send Tonya updated list of demo sites 15:32:09 eneumann: BANFF workshop well attended, 60 people, with panel discussion, it was fun 15:32:19 q+ 15:33:41 ack vipul 15:34:33 Vipul: conclusion at panel, it's ready for use but more work to be done 15:36:21 eneumann: we need to show accumulation of knowledge over time, hope to show at next gathering these kinds of these things, not just working with packages of data, but also networks of people 15:38:35 eneumann: we need to pursue metadata contracts on the nature of the data, what must stay constant, also who owns the URIs for NCBI? who owns the Entrez Gene record? We need to focus on this for future calls 15:39:15 BillBug: there is a groundswell from the OBO side of things 15:40:23 eneumann: Each of the working groups needs to finish writing up what they have learned by November, BioRDF can write up the demo, BioOnt, Vipul? 15:41:16 q+ 15:42:00 Vipul: we can write a report on what we learned about all these ontology development projects, how do we incorporate uncertainty into ontologies, we'll kickstart a task on collaborating with Stan Huff on clinical models that span EMR and Clinical Trials for observation capture 15:42:37 ACTION: Eneumann will report on the clinical trials workshop 15:45:27 eneumann: clinical trials workshop, complex individuals, lots of conflict, 15:45:51 http://www.bioontology.org/wiki/index.php/Meetings_and_Events 15:46:00 vipul: Partners has kicked off information modeling project for clinical observations 15:47:28 jar286 has joined #hcls 15:47:57 eneumann: we could say that HCLS adopts NCBO's definition of ontology 15:48:16 vipul: we could enumerate the various definitions in our write up 15:49:22 http://www.bioontology.org/wiki/index.php/Workshop_on_Clinical_Trial_Ontology 15:50:20 +June_Kinoshita 15:51:17 + +1.203.737.aaaa 15:52:47 NIST Onto workshop http://ontolog.cim3.net/cgi-bin/wiki.pl?OntologySummit2007 15:53:47 eneumann: we'll devote a chunk of time to learning from the demo and how that reflects on the state of the ontologies 15:54:16 matthias: I'll will also participate 15:54:41 http://esw.w3.org/topic/HCLS/UncertaintyUseCases 15:55:27 Vipul: I've posted an Uncertainty Use Case for comment, it is proposed to create an ontology of uncertainty 15:57:55 eneumann: had lunch with Ken Lasky, uncertainty is very different in surveillance, we need to be clear about what we mean, there are different use cases in life sciences from the engineering world, capturing the use cases will be important, what are the patterns and constraints to uncertainty, 15:59:41 -??P15 16:00:59 eneumann: if we do a questionairre, why do we need this information 16:01:25 matthias: does this have PR role vis a vis the skeptics, to elicit information on what people are doing in this space 16:01:51 we should be able to aggregate information about successes and shortcomings 16:02:31 -Vipul_Kashyap 16:02:33 -June_Kinoshita 16:02:33 -Eric_Neumann 16:02:35 - +1.203.737.aaaa 16:02:40 rrsagent, drat minutes 16:02:40 I'm logging. I don't understand 'drat minutes', eneumann. Try /msg RRSAgent help 16:02:41 -Don_Doherty 16:02:51 rrsagent, draft minutes 16:02:51 I have made the request to generate http://www.w3.org/2007/05/24-hcls-minutes.html eneumann 16:03:08 scribe: Tonya 16:03:20 rrsagent, bye 16:03:20 I see 4 open action items saved in http://www.w3.org/2007/05/24-hcls-actions.rdf : 16:03:20 ACTION: BillBUG will start a googledoc draft [1] 16:03:20 recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-30-55 16:03:20 ACTION: BIll will look at APPLE, Tonya will inquire at Partners [2] 16:03:20 recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-31-09-1 16:03:20 ACTION: Alan please send Tonya updated list of demo sites [3] 16:03:20 recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-32-04 16:03:20 ACTION: Eneumann will report on the clinical trials workshop [4] 16:03:20 recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-42-37