A short log w/a =few questions (for my lab-mates) included:[Please write then me.]

eg. Is there apc/mac that I could connect to via the network? got g4&updating it now..

Right now other machines have been more trouble than help; so far. [I'd like a usable OS.]

If I thought there was any chance we could actually use OSX I'd get a fully speced Intel 17"

•  <even the past days links are only, on the new website> NO MORE POSTS HERE -GOTO NEW WEBSITE!!
  
• 11 AM Tues. Mar 4, AM group meeting 
• Mon Mar3, UMLS starts the use of V6  
• weekend:  I'll be swtiching this page over to: http://domsetup.ucsf.edu:8080/mb/daily.htm
• Fri f29:umls semantic-net webcast  ;biotop . . . ;Even though Ben will rework new umls data into old data schema, I wrote nlm asking for the new load scripts; &my pre-comment for today's talk is I'd like to see an easy way to get it into an instance/obj(or even triple)store, and very easy(rest-ful?)ws-api; After watching a few more screencasts, I decide to augment my question about the load files w/a request for the dvd if that is the only way to get the real ones.;I did find that mmsys.zip has the *mmsys.sh install files, but not sql scripts(yet). * . 
• Thur, set up an admin list, since no wiki yet; You can open the latest onto via open-URL from here; Here is a standard html dump; I think an easier vers of a live website is coming as well. ;gs
• Wednesday 2/27 at 2 pm. elig-rule-gram meeting   (pick: today or tomorrow on sysadmin);I was happy w/the call, it is good to see the use of SAGE, and pulling in some of the sumo and other ideas in as well; Samson is also right about it being time consuming to map to the eMR; I think a simple eMR and showing the match is more important, then the time consuming map back to whatever actually ends up being the flavorful eMR at that time (being able to(somewhat more easily)go to more than one would be a bonus)
  
• tue:have a public apache page now, to link out to; mentioned protege-server that I originally had on the win-xp box &only recently got up again on the g4;want umls up;.. A few pprjs you should be able to get to now.;I might make a homepage, so I can get a 6month trial of racer, which could replace ocelot/gkb, be seen via Protege, &even has a quick web display.;tried&got cl- http -load on deb box, will wrk on pick/open a port to run;but had to reset rctbank inetd.conf to turn off services;[darwin&deb are running cl-http on 8080, but no pages are assigned yet] &should prep4call
  
• mon:turns out ben made it own script&wants to modify it for 2007flat files, rather than use the new ones.  He had a comment about pg/cl-sql, &I suggested   ; Added another annotate linkfor by hand making of a gold-standard; though I'd like to move towards something automated.;
  
• weekend: .;[For some tables;See: reason.pdf ]
• Friday, got sudo on RH box, but have been asked to not really use it[&no vnc &even cmnd line is noticably slower]; So might still work on Deb box@1st, to not be further slowed down[actually whichever gets me going the fastest];(os-x is still my fastest/easiest dev env, In fact it is the only one that can get Protege-Server out via the network);  I still have gate on the deb box; I'm going to try to find the sql import scripts &get it in mysql; I did check cl-http it is on the deb box, but untouched for 2months; So I'll do that next.
  
• Thursday, Feb 21 at 10:15am sysadmin meeting w/Ben&Andrew, et.al; arches off; new umls on lnx&rctbank, need to get it into mysql; then look at web-server; &ask Dr.Karp about libs again ;;added sage pprjs to server;g-HR;.
  
• feb20 10am Eligibility Rule Grammar telecon (might incl some sage)..rescheduled&@least ben consistently dissapoints. I got the 10.4 disk for the g4 this morn so installing.
  
•  f19: umls v6 delayed indefinitely;[Got ptools, &promise of the updated libs]; went in to put 10.4 on g4, got 10.5 didn't work; Tried live cd of lnx os that dom likes; had to forgo that; not getting anymore help from DOM(incl on test machine)till our meeting(I think).;I still don't understand how ben is going to get on a phone, &still won't do that w/me? ;almost got umlsQuery.pm to work, but umls mysql db too old, so downloading new nlm files now.
  
• weekend: *...vmr;.mon f18: pres day; ql on dell ;wrote about ptools
• fri f15: bp-page-updates; perl umls-qry not running yet (getting perl updates)
  
• thur f14_went2the talk2see pres of franz.com talk about: /)It has ext sparql incl numeric ranges &allen time logic &much more.;.
  
• wed f13: 10am call;...,.trying out test lnx box; sbuo;nl;got the bioportal-webservices example code;in the short term Niggam suggests his perl module;
  
• tue f12: Is Ben working on Arches? He hasn't logged in yet.  The ptools downloads are all old (v6) we should ask Dr. Karp about updates.  Also, is the g3 ready? We should also talk about acl.;setup link I was given--->license;rctbank aic-export setup is from 2004(4yrs old)&uses a Lisp(2versions old)probably from the same period.;sumo*;..
  
• mon feb11, umls-v6 goes live[mved back to the 19th];will be trying this &/or have asked smi for help (w/this &/or ontrez like tagging directly); Will wait for SImona's feedback on jan-report, as I could add almost nothing or reword in a few places.(She already made some great changes, I added just a bit here).DOM can now work on rctbank; Asked for ontrez abilities again; we might  get them in a month; Got hints&wsdl right now.;Ben&I will work on Arches now.;I'll ask for more time from Franz &/or for the price for Linux;,.
  
• weekend*: .got Elig_frames update from Mor
  
• fri f8:will look at Jan report again today; [ During the sysadmin meeting, I felt like I was being 'sold' more than maybe we needed, &the email on today only makes me feel that more so.]
  
• feb7: meet w/Dr Sun 9am; then 10:30 on admin of machines;need a tagging service(like ontrez), so prepping to use umlsV6 till I get that;[re: I'm more worried about having something to match than how to match it.]
  
• wed f6:*. will look@R01 for tonight, then meeting prep, then monthly-progress-report tomorrow.;ec.pprj w/extra(potential)concepts, to get a feel for concept matches.
  
• tue f5: das-pubs;:,..;Looking at the progress-report has been good background on the group.
  
• mon feb4: what I want from SMI; meeting 1pm; rulesys,fwd/bw2; 1st shot @KRR pdf;
  
• weekend: m0.pat,km;,finding-rule;:...;v M R;jess;....;BioLisp=;reasoner; (middle? of sick ~week)
  
• fri feb1:km: loading Elig+ccr pprj in dflt-lang&will print2km format;loads now to the export to km;........
  
• th j31:...,.eMR/ccr-services;s,
• wed j30:still trying to get rid of sun distractions;more km;umls-lisp or v6 web-srv can be used w/it; if smi doesn't do an ontrez like onto-tagging for us;
  
• j29 tue;can get to umls-db; will try something ~new; 10am meeting w/Dr.Sun; ~admin; finally got to start using KM end of the day; it should be a useful/quick testbed.
  
• j28mon; asked Ben for mysql paswd/etc; &got my only 1line response in a wk; basic system not loading enough w/or w/o(acl62)script to be able to access the(mysql)db yet. Also gkb still unavailable;[ I'd like to move some umls data to a-cache if not a-graph, for much easier(persistent)access, incl a-graph sparql qry ability)
  
• weekend... .gkb-fix(only got rid of the palette error, but did not display); nl_ie;
  
• f j25: trying2get gkb,still no ben; swrl-time; Still frustrated w/Solaris 8,9&10;&no help from Ben w/it or the setups; I've got to push back from this&get back to the bpd case. When I get a new laptop I'm going to put mine on site(given no other around)to get something more stable around.
  
• thj24: Need help w/GKB/etc; Never having got an intro is showing more now.
  
• wj23, looking@code; another dell: no ssh but vnc;try fw-easy vnc for arches 123;With this cfgit works to Arches!;&kepes &rctbank;;Tried to setup arches, but tar files Ben had not enough/also hard coded bits.
  
• tu j22 ; in to check on arches again[power off again?];[1st dell ssh intermitency, while vnc through mac still ok];maybe another g3 to vnc through?; parser;
  
• weekend.: goog.sci.db:....;pat;intWbp;tag;
• j18: 11am meeting w/Dr.SIm [we can go over: pprj*copy*],Questions:[ have 1 tst in-ex(range)rule for hie, but what about bpd;&have you heard anything about ontrez yet] then to LH to finish arches (external)-networking (almost working, need2restart dns);Arches is reachable via the outside!!
  
• th j17:tryingumlsclients;txt;u;(got caught w/UMLS vs. re-doing reasoning on this pprj yet/closer though for bpd, need in-ex for this though as was on hie]
• w j16:<quick look@lisp2java/rmi link(again)to speed some things up[looks like Ben:"or else access OpenNLP from ACL."has the same problem(again too)]>;Found Solaris10 so put it on Arches;umlstab works everywhere but from sun/lnx@LH.;Arches has a dns/network issue, so have2log in locally right now, but does have most everything installed on it now; except Ben still hadn't moved the files over yet.;**;;&some on the Elig_frames+ccrpprj.
  
• tuj15:(macworld&maybe a new machine?no);bay-area-lisp-meeting; UMLStab is much faster w/exact-match 1st;Had dwnld/looked@NL:(pitt-Gate/LexGrid/umls)..but Ben is on this,now; I have to get a pic, &short bio,for a link from, the ncbo-people-page.[updated pic]
  
• m j14:umls-tab*works can be(very)slow, So I'd like to find out about a/the local server; It has been instructive as to how easy misses can happen(&has given me a few ideas);nl;;ccr samples;prj*;loinc;labs;
  
• weekend;... <next week I'll go in, look for Solaris10 disk, and install it on Arches> add dell IP4umls tab*works*(from home not through firewall); Ben said he couldn't get the Solaris10 disk, So I will try to do it.
  
• fri j 11, LH meeting, can go over patient-records;will put CUI-tagged info in a ccr&apply the last example to it. I will also prep a paper on possible reasoning mechanism/tools; &we'll meet w/in w-f next week.;mr;
  
• th j10: acl-graph-talk*;;; pitt;rc;a*;gate;;
  
• w j 9: More pkg installs arches; AAAI;
  
• Tue j8, Ben updates arches, changes paswds(?), might move files; I still want to get a baby into a CCR record w/SNOMED codes, but am not sure that RuleEd is going to help; I've been asking about this, for a few wks.;[Started2code hie case w/RuleEd, but if it gets confused I don't get any output/..];Looks like arches was wiped, along w/all my files there, &the ones Simona had just moved on.;In trying to (re)update, I find the very much older OS's dflt settings, to be a big pain again(like the other sun boxes); Installed some pkgs on arches
  
• Mon Jan7: into office to look at arches &get rctbank back online&ext-HD finally on the UPC; arches didn't boot into the Solaris9 CD, but this isn't a priority, as 11makes life easier, &just needs to be downgraded 1 for sw support.
  
• 2008: weekend back in SF, finish off arches if ben can't
  
• 2008: in CU mock record, &some on Linux setup ;i,,p,,
• IL week of 24th & 31st (available via email, &at: 217-356-9465),,,,a,,,,,ben puts os9 on arches?; nih; oeHR;
  
• d19-> in IL, Though I can be available via email/phone&to catch up on anything. (staying through Jan5)
  

• d18 (I'd wanted to have a meeting by now; To clarify things for the next 2weeks work); kn;uncert;v;
  
• d17:epoch ,, x-problems, s,http://www.cs.utexas.edu/users/kbarker/thesis/, [I'd like to book my return tonight, I'll write about it.]
  
• weekend,,,jpgbpdvncOnSunsshdOnRCTbank, Oops 64bit machine not needed.,
• d14,,(lost comments?) [*look@sage'svMR]
• d13, sun visit today~4pm(can boot from CD, but hard-drives are Bad);
  
• d12,meet w/Dr.Sun(good one) &get another sun visit(tomorrow); try PROMPTto cmp/align elig ont's; will merge Elig_frames w/ccr via prompt;or merge &look@sage'svMR which has labs; MedLnx;
  

• d11(will miss:bay-are-lisp meeting redwood city), sri/ut(km);llb;;t.nl.b;
  
• mon d10, rule grammar call 11am; Sun tech visit in the afternoon;rule-ed=more tagging than parse, but that is what smi wants ;fzjt *;c;*; (rct has new batery; arches needs a new cpu/tomorrow)
  
• weekend,,,,,,v,,,,,;,
  
• d7, was2meet w/Dr.Sun [mved2 12/12,12:00]emailed on the 6th; Sun coming Mon
  
• dec6"If we build it, will they come? Social-engineering of new technology to disseminate biomedical ontologies";;local bp dir; =Need OK on new sun re-billing; Labs; Elig-rule-ed-output?looks funny;
  
• d5 (LHts meeting)bring over UPS,timesheets,give SMI data,..;will askYao about(even just some markup/commentary, on a baby that I could enter by hand; I'll run some related elig rules through rule-ed, then can extend the appli work, to use all this,&extend the 1st numeric cnstr matches, to other classes from the heuristics-doc.
  
• tued4,have you seen sage?,[dropped ePCRN after umnschema was found lacking]So working w/Dr.Sun to be able to enter ccr records. [&@generic appli cnstr match]
  
• mon d3, SAGE,,encoding,,clinical-guidelines,, ez,[will book flight for the break, shoot for fri/sat 21, but might get out day earlier, Got mid-wed19th@large savings&will be available by end of work that day&after that as much as needed]
  
• weekend ,mv2a place w/a bay-view(same phone though)I hope to keep this one for awhile; Could use a 64bit system;
  
• n30fri; hopefully powerBackup will be in, &I'll go into the office again;(sun vnc?); sriLinuxTools;(bin is 64, but can still look at this)/maybe Ben will look as well? &would like to get ruleEd output for our appli test trials.;KM,,,,;tracking lost shipment,pestering helio-sln, [catch up more by mon]
  
• thn29,bat.kb.jpg*KB,oht,,, Appli, Prot4apps;3in1,
  
• wed n28, installed nagios 2check website;normal rang interp ;office:look4contract# &restart vnc from ben;;,,,,,;,v,,,;,,acl agtut,<-ccr info into? ; rule-classes.jpg ,
  
• tue,n27,,,,,,,,,,,(bay area lisp meeting)webChecking;; calling in for sunsneed serviceCntrct#,
  
• mon:n26,,,,, focus on ccr/med-record extraction ;Answer to Q about Linux@SRI,;, can pull ccr tags
  
• weekend, pub, conf:,,,p,NormalRange,;CTView,
• n22/23-thanksgiving--,viz/et,
• wed n21 ;m,
  
• tue n20 9am meeting w/Dr. Sun; setup Protege, ~explained how ben's output could be automatically turned into restriction/classification rules; &spoke in terms of meeting/other findings[which seam to ~fit w/prev ideas]; Pr(dl),
  
• mon nov19,trip2stanford maps&timetables,my-quick-notes,got:normal range data, CTView(which could use cl-dot/graphviz) made me think of power(set's power)mouse[you pick 2of a triple&get back possible 3rds; w/related concept hier];,tools,
  
• weekend, finally able to get order for UPS in; looking over bpd ccr xml (messy); pubmed-plugin,my-birthday
  
• fri nov 16, start to look at ccr/xml again
  
• thur nov15 (can't goto IL now)/mv2 temp housing, till dec1; wrote nigam&natasha,might have to write about 30k ccr records soon.,,healthgrid,
  
• wedn n 14,, web-services,amia07,
• tue,n13, found new place to live,,just got delivery address to send UPSs to, &now the new website is down
  
• mon n12,Veteran's Day/looking4a place2live
  
• weekend, installs also continue, incl Lexgrid
  
• fri nov9,ag, nl,Veteran's Day(holiday)
  
• thur nov 8, meet w/Yao 1:00 pm in U503; next meeting right after stanford trip,;,
  
• wed n7,bill,auto,ups,
• tue n6,protege,*,
• mon nov5 stanford trip?/no,,ran fsck on rctbank till errors went away then ben restarted servers,|:|;,
  
• weekend,;c:v,7*,pc,
  
• fri n2,,;,,
• thur n1(1st/time reporting) eligibility-format,mved to 984.1949 till n15; txt-idx,,
  
• wed o31 11am meeting, go here for the ccr attachment that didn't make it in the mail,
  
• tue oct30,ncbocall,d.parry;Good call, I'm glad I read widely;cl-soap;*;I've been trying to narrow down to a ~framwork to catch most of the(qry)needs(expressed in the meeting) &here for protege/isp/other;