IRC log of dig on 2006-10-30
Timestamps are in UTC.
- 02:53:07 [lkagal]
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- 12:54:43 [kornbluth.freenode.net]
- topic is: DIG Meeting 23 October
- 12:54:43 [kornbluth.freenode.net]
- Users on #dig: DIGlogger RalphS tlr eikeon sandro DanC
- 12:55:09 [DIGlogger]
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- 12:55:09 [brown.freenode.net]
- topic is: DIG Meeting 23 October
- 12:55:09 [brown.freenode.net]
- Users on #dig: DIGlogger RalphS tlr DanC sandro eikeon
- 13:53:54 [lkagal]
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- 15:33:03 [sandro]
- I can't get to http://lists.csail.mit.edu/mailman/private/diggers/
- 15:33:14 [sandro]
- I see no evidence of a meeting today....
- 15:33:41 [sandro]
- (I get "Authentication Failed" with no clue if it means my password is bad or something, and no way to fix it.)
- 15:33:43 [DanC]
- I expect a meeting today, based on phone conversation with TimBL last Thu
- 15:34:06 [DanC]
- no particular agenda; just "see you monday at DIG"
- 15:34:51 [sandro]
- Any clue how to get into the mailing list archives?
- 15:38:18 [DanC]
- there's some URL near the one you give above where you can get it to mail you a password
- 15:38:34 [DanC]
- you can't follow your nose thru links, but I found it by hacking the URL
- 15:38:37 [DanC]
- I thnk
- 15:38:52 [sandro]
- I send e-mail to the mailman help address.
- 15:56:39 [djweitzner]
- djweitzner has changed the topic to: DIG meeting 30 October 2006
- 16:04:59 [DanC]
- wow... not even MIT can maintain SSL certificates.
- 16:05:19 [DanC]
- the cert for inquir.csail.mit.edu expired 10/24/06
- 16:07:29 [DanC]
- I'm gonna fix something in my IRC client...
- 16:08:39 [lkagal]
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- 16:09:19 [DanC]
- hmm... I guess that worked.
- 16:24:01 [amy]
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- 16:29:19 [roberth_]
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- 16:30:05 [RalphS]
- Meeting: DIG
- 16:30:33 [timbl]
- timbl has changed the topic to: DIG meeting 30 October 2006 - Robert Hoffmann presents iHOP
- 16:30:37 [RalphS]
- Agenda: https://lists.csail.mit.edu/mailman/private/diggers/2006-October/001053.html
- 16:30:50 [sandro]
- do we have Zakim somewhere for this call?
- 16:32:36 [Zakim]
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- 16:32:41 [RalphS]
- zakim, this is dig
- 16:32:41 [Zakim]
- ok, RalphS; that matches DIG_weekly()11:30AM
- 16:32:50 [RalphS]
- zakim, mit531 has Robert, TimBL, Ralph
- 16:32:51 [Zakim]
- +Robert, TimBL, Ralph; got it
- 16:32:55 [RalphS]
- zakim, who's on the call?
- 16:32:55 [Zakim]
- On the phone I see Sandro, MIT531, Danny, DanC
- 16:32:57 [Zakim]
- MIT531 has Robert, TimBL, Ralph
- 16:33:09 [timbl]
- webcal://www.w3.org/2002/12/calendar/danny.ics
- 16:33:13 [djweitzner]
- webcal://jigteam.w3.org/Team/Weitzner/DannyWorkDC.ics
- 16:33:27 [djweitzner]
- webcal://jigteam.w3.org/Team/Weitzner/DannyWorkMIT.ics
- 16:33:38 [djweitzner]
- webcal://jigteam.w3.org/Team/Weitzner/DannyTravel.ics
- 16:33:48 [djweitzner]
- webcal://jigteam.w3.org/Team/Weitzner/DJWPresent.ics
- 16:33:50 [ryanlee]
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- 16:34:14 [sandro]
- Do we have an ICS -> RDF web service?
- 16:34:55 [DanC]
- there's a japanese guy that runs one.
- 16:35:03 [DanC]
- I have ics->RDF python code
- 16:35:16 [DanC]
- but i'm too paranoid or lazy or something to run it as a service.
- 16:35:21 [Zakim]
- +RyanL
- 16:36:10 [DanC]
- http://www.w3.org/2002/12/cal/fromIcal.py">http://www.w3.org/2002/12/cal/fromIcal.py <- http://www.w3.org/2002/12/cal/
- 16:36:26 [RalphS]
- zakim, monica just arrived in mit531
- 16:36:26 [Zakim]
- +monica; got it
- 16:36:52 [RalphS]
- zakim, Lalana just arrived in mit531
- 16:36:52 [Zakim]
- +Lalana; got it
- 16:37:00 [RalphS]
- zakim, Carlos just arrived in mit531
- 16:37:01 [Zakim]
- +Carlos; got it
- 16:37:11 [roberth_]
- talk for download: http://cbio.mskcc.org/~hoffmann/talks/iHOP_dig.pdf
- 16:38:04 [mc_]
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- 16:38:08 [lkagal]
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- 16:39:14 [DanC]
- hi Monica. if you want to know what I look like, see http://www.w3.org/People/Connolly/ and/or http://dm93.org/
- 16:39:42 [mc_]
- it's lovely to have an image to put to a face Dan, thanks.
- 16:39:49 [mc_]
- thanks for saying hi
- 16:39:58 [DanC]
- (I see slides)
- 16:40:42 [RalphS]
- Robert: iHOP = Information Hyperlinked over Proteins
- 16:40:52 [DanC]
- ow
- 16:41:00 [mc_]
- sorry - we have adjusted it now
- 16:41:02 [cdkloos]
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- 16:41:09 [djweitzner]
- +1
- 16:41:53 [DanC]
- (slide 3 now?)
- 16:41:54 [RalphS]
- [moving the speakerphone closer to open laptops -- or opening laptops close to it -- after it's ajusted its echo cancellation is always risky]
- 16:42:42 [RalphS]
- [slide 3 Biotech revolution / Bottleneck human]
- 16:43:12 [RalphS]
- [slide 4 Information overload]
- 16:43:13 [DanC]
- (I'm curious about how one measures the amount of money spent on research. probably not worth meeting time, though.)
- 16:44:24 [DanC]
- (at the U.T. Austin library seminar, the "rising cost of publication" was sort of assumed. It seems to me that the real cost is trying to provide the same quality of service with so much more stuff published all the time.)
- 16:44:33 [RalphS]
- [slide 5 Identify and extract information]
- 16:45:12 [DanC]
- NCBI... which "national"? USA?
- 16:45:48 [DanC]
- "
- 16:45:48 [DanC]
- MeSH is the U.S. National Library of Medicine's controlled vocabulary used for indexing articles for MEDLINE/PubMed. " -- http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=mesh
- 16:47:27 [RalphS]
- [slide 6 Difficulties in Information extraction]
- 16:49:46 [RalphS]
- [slide 7 iHOP - System architecture]
- 16:50:29 [DanC]
- q+
- 16:52:19 [DanC]
- gene sequences are used (indirectly) as keys in the term database
- 16:52:41 [DanC]
- (still slide 7?)
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- 16:55:04 [RalphS]
- [slide 8 iHOP - Indexing pipeline]
- 16:55:59 [DanC]
- q+ to ask if there is any feedback to the publishing workflows; the journals employ keyword indexers, no?
- 16:57:04 [RalphS]
- [slide 9 Precomputation of Online Information]
- 16:58:08 [RalphS]
- [slide 10 Information Hyperlinked over Proteins]
- 17:00:22 [DanC]
- q+ to ask if this whole problem is just that the papers aren't written for the web in the first place? if we teach researchers about hypertext, won't google and the like do this work?
- 17:00:53 [djweitzner]
- q+ to ask about error rates
- 17:01:03 [RalphS]
- [slide 11 iHOP navigation trail]
- 17:01:16 [RalphS]
- [slide 12 Different views]
- 17:01:33 [cdkloos]
- q+ How does Wordnet cover this particular area?
- 17:02:16 [cdkloos]
- q+ to ask about how Wordnet cover this area
- 17:02:33 [RalphS]
- -> http://www.ihop-net.org/UniPub/iHOP/ iHOP demo
- 17:02:35 [djweitzner]
- please do walk through
- 17:02:37 [djweitzner]
- we have time
- 17:02:49 [timbl]
- http://www.ihop-net.org/UniPub/iHOP/
- 17:02:50 [roberth_]
- http://www.ihop-net.org/UniPub/iHOP/
- 17:03:11 [RalphS]
- enter 'snf1'
- 17:03:40 [DanC]
- I wonder if case matters
- 17:04:33 [RalphS]
- I got the same result with lowercase that Robert seems to have gotten with uppercase
- 17:04:41 [DanC]
- q+ to ask about what's encoded in the URI http://www.ihop-net.org/UniPub/iHOP/gs/32484.html?IN=1
- 17:06:39 [DanC]
- looking at the uniprot link... javascript:if(window.name=='') { window.location.href='./nil'; } else { dynPopitupType('UNIPROT__PRIMARY_AC', 'http://www.ebi.uniprot.org/entry/P06782'); }
- 17:06:54 [DanC]
- ah... ok... http://www.ebi.uniprot.org/entry/P06782
- 17:08:20 [Zakim]
- -Sandro
- 17:09:40 [RalphS]
- (we're looking at -> http://www.ihop-net.org/UniPub/iHOP/gs/32484.html?IN=1 SNF1 interaction information
- 17:10:39 [timbl]
- http://www.ihop-net.org/UniPub/iHOP/gs/34403.html?ID=32484
- 17:12:19 [RalphS]
- "Cat1 [?]" on SNF1 page represents uncertainty -- with multilinks
- 17:13:09 [djweitzner]
- q?
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- 17:13:40 [timbl]
- q?
- 17:13:50 [djweitzner]
- djweitzner is now known as Danny
- 17:13:57 [Zakim]
- DanC, you wanted to ask if there is any feedback to the publishing workflows; the journals employ keyword indexers, no? and to ask if this whole problem is just that the papers
- 17:14:00 [Zakim]
- ... aren't written for the web in the first place? if we teach researchers about hypertext, won't google and the like do this work? and to ask about what's encoded in the URI
- 17:14:03 [Zakim]
- ... http://www.ihop-net.org/UniPub/iHOP/gs/32484.html?IN=1
- 17:17:23 [timbl]
- ack djw
- 17:17:24 [Zakim]
- djweitzner, you wanted to ask about error rates
- 17:17:58 [DanC]
- Robert says that few journals spend enough to do the indexing for the authors
- 17:20:43 [timbl]
- q+ to ask about the wikigenes possibility fo inputting RDF directly .. or are these relationships too fuzzy? Aslo to wonder whether good indexing is in authpr's benefits for being cited.
- 17:21:07 [Zakim]
- cdkloos, you wanted to ask about how Wordnet cover this area
- 17:22:24 [timbl]
- ack timbl
- 17:22:24 [Zakim]
- timbl, you wanted to ask about the wikigenes possibility fo inputting RDF directly .. or are these relationships too fuzzy? Aslo to wonder whether good indexing is in authpr's
- 17:22:28 [Zakim]
- ... benefits for being cited.
- 17:26:53 [Danny]
- Tim?
- 17:27:04 [Danny]
- we should reserve 5 minutes for scheduling
- 17:27:08 [timbl]
- ok
- 17:27:10 [Danny]
- discusison
- 17:28:24 [DanC]
- (when Danny sent out the agenda with "PAW update (DanC)" on it, I did a few minutes prep; I could send an update by email if anybody would read it.)
- 17:29:16 [DanC]
- 16 Jan DIG is OK by me, I think, whether t-and-s meets 17 or 19 Jan
- 17:29:28 [DanC]
- TimBL: 17 Jan [missed...] IAP
- 17:29:42 [timbl]
- The afternoon
- 17:30:08 [DanC]
- DJW: I expect most IAP lectures to happen the week of 8 Jan
- 17:30:43 [DanC]
- TimBL: with Hal [?] I had 2 hours discussion and fixed 4pm Wednesdays. [?]
- 17:31:36 [DanC]
- I'm getting a mental 404 @ "the project"
- 17:32:35 [DanC]
- "the project" = "the course", I gather; an IAP course.
- 17:33:10 [DanC]
- DJW: how about Tue, 16 Jan?
- 17:33:21 [DanC]
- DanC: I think I can do Tue, 16 Jan
- 17:33:38 [DanC]
- RRS: I think I can preempt regular stuff for Tue, 16 Jan
- 17:33:43 [DanC]
- TimBL: likewise
- 17:33:55 [RalphS]
- s/think I can/would have to/
- 17:34:59 [RalphS]
- (i.e. I have a regularly scheduled W3C Working Group meeting on Tuesdays)
- 17:35:00 [timbl]
- sandro?
- 17:35:01 [DanC]
- DJW: ok, let's plan on that [DIG ftf Tue 16 Jan 2007]
- 17:36:24 [DanC]
- ... 9:30am thru dinner.
- 17:36:40 [DanC]
- TimBL not yet confirmed for dinner
- 17:37:15 [DanC]
- .
- 17:37:16 [DanC]
- .
- 17:37:35 [DanC]
- Topic: PAW Update
- 17:37:36 [DanC]
- http://www.policyawareweb.org/2005/demo/README
- 17:37:41 [DanC]
- http://dig.csail.mit.edu/2005/09/rein/examples/
- 17:37:42 [timbl]
- agenda?
- 17:37:56 [DanC]
- jan ftf http://www.policyawareweb.org/
- 17:38:03 [timbl]
- topic: The PAW thing
- 17:38:27 [mc_]
- goodness i've been PAWing at the MindLab. yo girlguides
- 17:39:01 [harveyj]
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- 17:41:44 [lkagal]
- http://dig.csail.mit.edu/2006/06/rein/
- 17:52:37 [timbl]
- webscirnce.org
- 17:53:06 [Zakim]
- -DanC
- 17:53:11 [DanC]
- http://www.webscience.org/
- 17:53:30 [lkagal]
- Thanks DanC.
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- -MIT531
- 17:53:56 [Zakim]
- -RyanL
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- 17:58:56 [Zakim]
- disconnecting the lone participant, Danny, in DIG_weekly()11:30AM
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- DIG_weekly()11:30AM has ended
- 17:59:00 [Zakim]
- Attendees were Sandro, Danny, DanC, Robert, TimBL, Ralph, RyanL, monica, Lalana, Carlos
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