IRC log of hcls on 2007-05-24

Timestamps are in UTC.

14:56:52 [RRSAgent]
RRSAgent has joined #hcls
14:56:52 [RRSAgent]
logging to http://www.w3.org/2007/05/24-hcls-irc
14:57:07 [eneumann]
rrsagent, set log world-visible
14:58:57 [Zakim]
SW_HCLS()11:00AM has now started
14:59:04 [Zakim]
+??P15
15:00:51 [Zakim]
+Eric_Neumann
15:00:53 [BillBug]
Are we on HCLS or BioRDF for the call?
15:02:09 [Don]
Don has joined #hcls
15:03:03 [Zakim]
+Tanya_Hongsermeier
15:03:25 [Zakim]
+Don_Doherty
15:03:33 [Zakim]
+Vipul_Kashyap
15:03:58 [Tonya]
Tonya has joined #hcls
15:04:02 [vipul]
vipul has joined #hcls
15:04:05 [Zakim]
+Alan
15:07:44 [Tonya]
eneumann: Alan did an amazing job at Banff
15:07:48 [BillBug]
ZAKIM info - http://www.w3.org/2001/12/zakim-irc-bot.html
15:11:48 [Tonya]
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 [Tonya]
Billbug: consider adding monoclonal information
15:13:46 [Tonya]
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 [Tonya]
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 [Tonya]
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 [Tonya]
ACTION eneumann will contact Kingsley to arrange demo
15:16:28 [Tonya]
Alan Ruttenberg: Mattias will be presenter for ISMB
15:17:05 [Tonya]
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 [Tonya]
Alan Ruttenberg: some are already loaded, we can load arbitrary OWL, yes, but links will be less straightforward.
15:19:12 [Tonya]
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 [vipul]
+1 to what Tonya is saying
15:20:21 [vipul]
It's a whole bureacratic process
15:20:31 [vipul]
Has to be outside the firewall
15:20:50 [vipul]
AD privileges need to be set
15:20:54 [Tonya]
Allan: Apple or Partners machines?
15:21:06 [vipul]
Approval process for this can be complicated
15:21:39 [BillBug]
re: Apple machines - can the software run on Darwin OS
15:21:40 [Tonya]
ACTION ITEMS BIll will look at APPLE, Tonya will inquire at Partners
15:21:41 [BillBug]
Alan: yes
15:22:43 [BillBug]
Question: What are the hardware requirements - specifically RAM & HD storage requirements
15:23:35 [BillBug]
I would look to get loans (long term) for an XServe or two (dual or quad Intel CoreDuo)
15:24:15 [Tonya]
Action ITEMS Tonya will also inquire with Ray about continuing the HP relationship
15:25:15 [Tonya]
Allan Ruttenberg - Hardware 2 discs, 10gb of RAM, 150 gb drive
15:26:05 [Tonya]
ACTION ITEM - please send Tonya updated list of demo sites
15:26:18 [BillBug]
Alan: hardware requirements (corrections) - 4 - 8 GB RAM; 2 HDs - 10 - 15k rpm, 150 GB+, SATA
15:26:39 [Tonya]
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]
Tonya: should we stabilize at HP or elsewhere
15:28:31 [Tonya]
Allan Ruttenberg: eric, you mention you are writing an article, how do we ensure articles are appropriately attributed
15:28:54 [Tonya]
eneumann: it's my column in this case, will mention the participants
15:29:13 [Tonya]
eneumann: should we write an article on the demo?
15:29:20 [Tonya]
billbug: absolutely
15:30:55 [Tonya]
ACTION: BillBUG will start a googledoc draft
15:31:09 [Zakim]
-Alan
15:31:09 [eneumann]
ACTION: BIll will look at APPLE, Tonya will inquire at Partners
15:32:04 [eneumann]
ACTION: Alan please send Tonya updated list of demo sites
15:32:09 [Tonya]
eneumann: BANFF workshop well attended, 60 people, with panel discussion, it was fun
15:32:19 [vipul]
q+
15:33:41 [eneumann]
ack vipul
15:34:33 [Tonya]
Vipul: conclusion at panel, it's ready for use but more work to be done
15:36:21 [Tonya]
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 [Tonya]
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 [Tonya]
BillBug: there is a groundswell from the OBO side of things
15:40:23 [Tonya]
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 [BillBug]
q+
15:42:00 [Tonya]
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 [Tonya]
ACTION: Eneumann will report on the clinical trials workshop
15:45:27 [Tonya]
eneumann: clinical trials workshop, complex individuals, lots of conflict,
15:45:51 [eneumann]
http://www.bioontology.org/wiki/index.php/Meetings_and_Events
15:46:00 [Tonya]
vipul: Partners has kicked off information modeling project for clinical observations
15:47:28 [jar286]
jar286 has joined #hcls
15:47:57 [Tonya]
eneumann: we could say that HCLS adopts NCBO's definition of ontology
15:48:16 [Tonya]
vipul: we could enumerate the various definitions in our write up
15:49:22 [eneumann]
http://www.bioontology.org/wiki/index.php/Workshop_on_Clinical_Trial_Ontology
15:50:20 [Zakim]
+June_Kinoshita
15:51:17 [Zakim]
+ +1.203.737.aaaa
15:52:47 [eneumann]
NIST Onto workshop http://ontolog.cim3.net/cgi-bin/wiki.pl?OntologySummit2007
15:53:47 [Tonya]
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 [Tonya]
matthias: I'll will also participate
15:54:41 [vipul]
http://esw.w3.org/topic/HCLS/UncertaintyUseCases
15:55:27 [Tonya]
Vipul: I've posted an Uncertainty Use Case for comment, it is proposed to create an ontology of uncertainty
15:57:55 [Tonya]
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 [Zakim]
-??P15
16:00:59 [Tonya]
eneumann: if we do a questionairre, why do we need this information
16:01:25 [Tonya]
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 [Tonya]
we should be able to aggregate information about successes and shortcomings
16:02:31 [Zakim]
-Vipul_Kashyap
16:02:33 [Zakim]
-June_Kinoshita
16:02:33 [Zakim]
-Eric_Neumann
16:02:35 [Zakim]
- +1.203.737.aaaa
16:02:40 [eneumann]
rrsagent, drat minutes
16:02:40 [RRSAgent]
I'm logging. I don't understand 'drat minutes', eneumann. Try /msg RRSAgent help
16:02:41 [Zakim]
-Don_Doherty
16:02:51 [eneumann]
rrsagent, draft minutes
16:02:51 [RRSAgent]
I have made the request to generate http://www.w3.org/2007/05/24-hcls-minutes.html eneumann
16:03:08 [eneumann]
scribe: Tonya
16:03:20 [eneumann]
rrsagent, bye
16:03:20 [RRSAgent]
I see 4 open action items saved in http://www.w3.org/2007/05/24-hcls-actions.rdf :
16:03:20 [RRSAgent]
ACTION: BillBUG will start a googledoc draft [1]
16:03:20 [RRSAgent]
recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-30-55
16:03:20 [RRSAgent]
ACTION: BIll will look at APPLE, Tonya will inquire at Partners [2]
16:03:20 [RRSAgent]
recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-31-09-1
16:03:20 [RRSAgent]
ACTION: Alan please send Tonya updated list of demo sites [3]
16:03:20 [RRSAgent]
recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-32-04
16:03:20 [RRSAgent]
ACTION: Eneumann will report on the clinical trials workshop [4]
16:03:20 [RRSAgent]
recorded in http://www.w3.org/2007/05/24-hcls-irc#T15-42-37