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| 04:02:32 | <downeym> Hi upul1 and welcome to the #openmrs IRC channel. |
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| 04:26:00 | <downeym> Hi jyothi and welcome to the #openmrs IRC channel. |
| 04:27:15 | <jyothi> Hi.. we are required to work on an open source project for a course and we selected Execute Database Updates Module |
| 04:27:47 | <jyothi> We extracted the code to our machines |
| 04:28:07 | <jyothi> and ran maven build. all the tests ae working fine |
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| 04:28:33 | <jyothi> but when i run using jetty it gives me some errors |
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| 04:29:17 | <jyothi> There was an error while updating the database to the latest. file: liquibase-core-data.xml. Error: Migration failed for change set liquibase-core-data.xml::20110915-1459::sunbiz: Reason: liquibase.exception.UnexpectedLiquibaseException: liquibase.exception.CustomChangeException: Failed to insert one or more concept map types: Caused By: liquibase.exception.CustomChangeException: Failed to insert one or more concept map types: Cause |
| 04:29:25 | <jyothi> i have got errors of these kind |
| 04:29:38 | <jyothi> can u tell what does it mean.. |
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| 04:49:17 | <Harsha> Hi Ben |
| 04:49:29 | <Harsha> are you there ? |
| 04:50:46 | <Harsha> /whois magicaltrout |
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| 04:54:44 | <surangak> noirin, HI, I hear that you are working on our implementers manual ? :-) |
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| 05:07:33 | <noirin> surangak: Sure am |
| 05:08:14 | <noirin> Although right now I'm half asleep in the bus back to the hotel :-) We worked hard today |
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| 07:09:54 | <OpenMRSBot> Recent updates in the world of openmrs: On Twitter: OpenMRS: More on the documentation sprint currently underway for #OpenMRS (and others!) - blog post by @praxagora: http://t.co/vW11zpPV <http://twitter.com/OpenMRS/statuses/126550237530701824> || On Twitter: OpenMRS: RT @noirinp: Finally on a bus back to the hotel we left 14hrs & 14,000 words ago. The OpenMRS crew are *awesome*! #DocSprint <http://twitter.com/OpenMRS/statuses/126549855509282817> |
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| 07:35:36 | <surangak> looks like they r working our people really hard at the Doc camp :-) |
| 07:35:47 | <dkayiwa> oh men yessssss |
| 07:35:56 | <dkayiwa> 8am - 10pm :) |
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| 07:38:52 | <surangak_> dkayiwa, Its all for a good cause :-) |
| 07:39:00 | <dkayiwa> :D |
| 07:39:05 | <surangak_> but they're doing a lot of work.... |
| 07:40:22 | <dkayiwa> yup |
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| 07:44:17 | <pascal`> bwolfe, do you know about an error install concept maps on a clean install of trunk? |
| 07:44:59 | <bwolfe> i think dkayiwa just fixed that yesterday |
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| 07:45:29 | <pascal`> !ticket TRUNK-2766 |
| 07:45:30 | <OpenMRSBot> pascal`: [#TRUNK-2766] Cannot upgrade from 1.8 to 1.9 - OpenMRS JIRA - https://tickets.openmrs.org/browse/TRUNK-2766 |
| 07:45:50 | <pascal`> bwolfe, so it's being taken care of? Because otherwise we can submit a patch. It's a one liner I think. |
| 07:46:42 | <bwolfe> that one I know of is done, yes |
| 07:46:50 | <bwolfe> pascal`, was yours the is_hidden error? |
| 07:47:29 | <pascal`> bwolfe, yeah, looks like it's been taken care of. |
| 07:48:07 | <pascal`> bwolfe, the fix revision number isn't in the ticket comments. |
| 07:48:40 | <bwolfe> yes it is |
| 07:48:50 | <pascal`> Ah, maybe because I'm not logged in. |
| 07:49:12 | <pascal`> Yeah, that's it. Okay cool, ignore everything I said then (as usual). |
| 07:49:12 | <bwolfe> shouldn'y matte |
| 07:49:27 | <pascal`> The activity section didn't load until I logged in. |
| 07:50:04 | <bwolfe> its in the comments |
| 07:50:59 | <pascal`> Yeah I see, but I couldn't see the comments for some reason when I wasn't logged in. |
| 07:51:26 | <pascal`> Anyway, I'm glad it's taken care of, because we ended up making the fix in out workspaces, but we'll just force update to HEAD now. |
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| 08:03:30 | <dkayiwa> bwolfe: do you know the commit revision for this TRUNK-1952 |
| 08:03:52 | <dkayiwa> bwolfe: i want to review and hopefully close it |
| 08:03:58 | <bwolfe> !ticket TRUNK-1952 |
| 08:03:59 | <OpenMRSBot> bwolfe: [#TRUNK-1952] Add placeholder attribute to search boxes - OpenMRS JIRA - https://tickets.openmrs.org/browse/TRUNK-1952 |
| 08:04:29 | <bwolfe> is it not in the source tab? |
| 08:04:34 | <dkayiwa> no |
| 08:04:40 | <bwolfe> hmm, odd |
| 08:04:49 | <bwolfe> I must have put in the wrong ticket number :-/ |
| 08:05:16 | <dkayiwa> bwolfe: should i just close it? |
| 08:05:41 | <bwolfe> I'm looking at the history of one of the files in there |
| 08:05:47 | <dkayiwa> ok |
| 08:06:08 | <bwolfe> odd, the ticket number is in the comment :-/ |
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| 08:07:02 | <bwolfe> dkayiwa, 17827. I modified the comment in the ticket so its there now |
| 08:07:12 | <dkayiwa> ok thanks |
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| 08:18:48 | <pascal`> bwolfe, dkayiwa, upul`, I'd like to introduce hannesv, the newest Jembi dev. |
| 08:19:08 | <dkayiwa> oh welcome hannesv :) |
| 08:19:39 | <dkayiwa> thanks pascal` for the introduction!!! |
| 08:19:50 | <hannesv> hi everyone |
| 08:19:57 | <pascal`> hannesv++ |
| 08:20:01 | <pascal`> !karma hannesv |
| 08:20:01 | <OpenMRSBot> pascal`: Karma for "hannesv" has been increased 1 time and decreased 0 times for a total karma of 1. |
| 08:20:08 | <pascal`> !karma |
| 08:20:08 | <OpenMRSBot> pascal`: Highest karma: "bwolfe" (98), "dkayiwa" (42), and "groovy" (30). Lowest karma: "emacs" (-9), "[INFO] ----------------------------------------------------------------------" (-8), and "windows" (-7). You (pascal`) are ranked 4 out of 288. |
| 08:21:46 | <dkayiwa> by the way pascal` i missed seeing Daniel F at the meeting |
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| 08:22:54 | <pascal`> dkayiwa, he wasn't there |
| 08:22:59 | <dkayiwa> oh |
| 08:23:11 | <pascal`> dkayiwa, he was attending to the birth of his child |
| 08:23:19 | <dkayiwa> oh i seee |
| 08:23:35 | <dkayiwa> never new that he is married :) |
| 08:28:21 | <upul`> Welcome hannesv! |
| 09:12:10 | <surangak__> !karma |
| 09:12:10 | <OpenMRSBot> surangak__: Highest karma: "bwolfe" (98), "dkayiwa" (42), and "groovy" (30). Lowest karma: "emacs" (-9), "[INFO] ----------------------------------------------------------------------" (-8), and "windows" (-7). |
| 09:12:34 | <surangak__> surangak__, ++ |
| 09:12:40 | <surangak__> !karma |
| 09:12:40 | <OpenMRSBot> surangak__: Highest karma: "bwolfe" (98), "dkayiwa" (42), and "groovy" (30). Lowest karma: "emacs" (-9), "[INFO] ----------------------------------------------------------------------" (-8), and "windows" (-7). |
| 09:26:45 | <surangak__> bwolfe, I just finished downloading Ubuntu :-) |
| 09:31:55 | <dkayiwa> hahaha!!! another bwolfe/ubuntu convert :) |
| 09:36:15 | <surangak__> dkayiwa, maybe, cant be 100% sure yet :P |
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| 09:49:22 | <dkayiwa> hi bwolfe_ |
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| 10:16:32 | <dkayiwa> is JIRA down? |
| 10:22:29 | <bwolfe_> dkayiwa, doesn't seem to be |
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| 10:22:41 | <bwolfe> dkayiwa, http://status.openmrs.org |
| 10:22:42 | <dkayiwa> yes i can now access it |
| 10:23:13 | <dkayiwa> bwolfe: i do not think TRUNK-422 is ready for 1.9 |
| 10:23:32 | <dkayiwa> bwolfe: am tempted to bump it to 1.10 |
| 10:23:40 | <bwolfe> !ticket TRUNK-422 |
| 10:23:41 | <OpenMRSBot> bwolfe: [#TRUNK-422] Edit / View of previous forms should merge into a single interface paradigm - OpenMRS JIRA - https://tickets.openmrs.org/browse/TRUNK-422 |
| 10:23:54 | <bwolfe> isn't it already committed? |
| 10:24:00 | <dkayiwa> yes it is |
| 11:08:04 | <bwolfe> dkayiwa, you just don't think its ready because of the header thing? |
| 11:08:19 | <dkayiwa> bwolfe: yes |
| 11:08:25 | <dkayiwa> and footer |
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| 11:10:28 | <bwolfe> right, its because it is using an iframe to display things, right ? |
| 11:10:35 | <dkayiwa> yes |
| 11:13:26 | <dkayiwa> bwolfe: another reason is also that, according to the ticket comments, it has some pending discussions |
| 11:13:48 | <bwolfe> I tihnk it was all on darius |
| 11:13:58 | <bwolfe> and daius said his peace :-) |
| 11:14:03 | <dkayiwa> :) |
| 11:14:05 | <bwolfe> *darius |
| 11:14:23 | <dkayiwa> was that his name in Swahili? :) |
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| 11:51:05 | <dkayiwa> hi bwolfe_ |
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| 11:51:20 | <bwolfe> hi dkayiwa |
| 11:51:39 | <dkayiwa> bwolfe: if am fixing a small one line javadoc comment, do i need to first create a ticket for it? |
| 11:51:47 | <bwolfe> no |
| 11:51:51 | <dkayiwa> ok thanks |
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| 13:08:13 | <chopin> anyone here for OpenMRS University? |
| 13:08:17 | <chopin> starting now ... |
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| 14:47:45 | <dkayiwa> bwolfe: is http://resources.openmrs.org/tools/implementationid running? |
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| 14:47:59 | <bwolfe> I dunno |
| 14:48:06 | <bwolfe> ping it and see :-) |
| 14:48:10 | <dkayiwa> bwolfe: my AdministrationServiceTest is freezing |
| 14:48:17 | <bwolfe> there used to be unit tests for it |
| 14:48:18 | <bwolfe> ah |
| 14:48:19 | <bwolfe> hmm |
| 14:48:40 | <dkayiwa> bwolfe: am tempted to commit without first running the tests :) |
| 14:49:43 | <bwolfe> ha |
| 14:49:52 | <bwolfe> or just @Ignore that test and rerun |
| 14:49:59 | <dkayiwa> bwolfe: ok |
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| 14:54:41 | <mnunez> Hi! |
| 14:55:07 | <bwolfe> hi marcos |
| 14:56:32 | <mnunez> dkayiwa: Quick XForms question: I'm adding a Problem List concept to the form schema of a new form. Once in the designer, the Problem list does not appear as a field on the left. Any ideas as to why? |
| 14:57:43 | <mnunez> Happens to every form I add a Problem List concept to. |
| 15:01:08 | <mnunez> dkayiwa: http://imageshack.us/photo/my-images/511/pantallazodel2011101911.png/ |
| 15:01:13 | <OpenMRSBot> <http://ln-s.net/9EfI> (at imageshack.us) |
| 15:02:58 | <mnunez> dkayiwa: http://imageshack.us/photo/my-images/822/pantallazodel2011101911.png/ |
| 15:03:02 | <OpenMRSBot> <http://ln-s.net/9EfL> (at imageshack.us) |
| 15:03:12 | <dkayiwa> mnunez: can i answer you later? am running to some place :) |
| 15:03:44 | <mnunez> dkayiwa: Sure, no rush. Run Forest! |
| 15:04:22 | <dkayiwa> will be back after 3 hours |
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| 15:38:24 | <chughgaurav> is http://notes.openmrs.org down ? |
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| 16:45:40 | <chopin> (late) yes. |
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| 16:58:37 | <downeym> chopin: hola |
| 16:58:51 | <chopin> downeym: hi ... notes still down? |
| 16:59:01 | <downeym> chopin: i just noticed that, will ping lance in the other channel |
| 16:59:08 | <chopin> downeym: k |
| 16:59:16 | <downeym> chopin: meanwhile, obs count for amrs? |
| 17:01:01 | <chopin> again? |
| 17:01:13 | <chopin> all, or non-voided? |
| 17:01:17 | <downeym> chopin: 103 MM or 13 MM? |
| 17:01:28 | <chopin> 103+ |
| 17:01:37 | <downeym> chopin: thx |
| 17:04:15 | <chopin> downeym: 111,001,450 |
| 17:05:18 | <downeym> cool |
| 17:05:29 | <downeym> etherpad is back :) |
| 17:05:33 | <chopin> 109,533,289 where voided=0 |
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| 17:21:06 | <Suranga> hi james_regen |
| 17:21:08 | <Suranga> sorry to keep you waiting... |
| 17:22:00 | <chopin> Suranga++ |
| 17:22:15 | <Suranga> hi Jeremy !!!! |
| 17:22:39 | <chopin> heyya! |
| 17:23:11 | <Suranga> chopin, Im working with Dr. Shaun and James these days |
| 17:23:40 | <chopin> Suranga: excellent :-) we benefit from your work! |
| 17:23:58 | <chopin> Suranga: anything new on the fileupload handler? |
| 17:24:40 | <Suranga> chopin, actually its like this |
| 17:25:01 | <james_regen> hi Suranga |
| 17:25:14 | <Suranga> chopin, I was taking to Darius abt it, and darius told me that right now, my file upload hander should not work based on the existing code |
| 17:25:29 | <chopin> ah, so we both await djazayeri |
| 17:25:37 | <Suranga> james_regen, Hi james, please give me a minute... |
| 17:25:41 | <djazayeri> yeah, sorry guys |
| 17:25:42 | <djazayeri> working on docs |
| 17:25:42 | <james_regen> no problem |
| 17:25:46 | <chopin> djazayeri: no worries |
| 17:25:54 | <Suranga> chopin,ah Darius is here |
| 17:26:02 | <chopin> in spirit, he is :-) |
| 17:26:22 | <Suranga> chopin, they are working djazayeri very hard on the docs |
| 17:26:28 | <Suranga> 14 hour days apparently |
| 17:26:39 | <chopin> Suranga: yep, dog days of documentation |
| 17:26:49 | <chopin> (we benefit from that, too) |
| 17:26:59 | <chopin> not to worry, plenty else to focus on |
| 17:27:04 | <Suranga> chopin, djazayeri said that he has something that he needs to commit so that we can continue... |
| 17:27:21 | <chopin> Suranga: ok, just ping me when yours works and i'll mess with mine then |
| 17:28:38 | <chopin> does anyone know if the maven module validator is expecting the activator to only exist in the omod instead of the api of a module? for some reason my builds are breaking now ... |
| 17:30:07 | <Suranga> chopin, sure, will do |
| 17:30:07 | <Suranga> chopin, give my love to my chineese big brother :-) |
| 17:30:33 | <chopin> Suranga: hahahah, will do |
| 17:31:11 | <Suranga> james_regen, sorry about that, I was catching up with jeremy.... |
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| 17:31:33 | <Suranga> hi james_regen ping me when u r free :-) |
| 17:33:23 | <james_regen> Suranga: i can chat now |
| 17:33:32 | <Suranga> james_regen, hi, sorry about that :-) |
| 17:35:00 | <Suranga> james_regen, I've made some progres, wanted tio share them with you, to see if im on the right path |
| 17:35:01 | <Suranga> but firstly, do I have commit permissions for patient matching module ? :-) |
| 17:36:26 | <james_regen> Suranga: i'm not sure if you do. i can't give them to you, so if it fails, then you'll have to send an email to get it setup |
| 17:36:54 | <Suranga> james_regen, send the email to you, is it ? |
| 17:37:29 | <james_regen> Suranga: no, i don't know how to set that up, and as far as i know, i don't have the ability to. |
| 17:37:49 | <Suranga> james_regen, mmm.. no problem, I'll check up on that |
| 17:37:59 | <Suranga> james_regen, let me tell waht I've been upto |
| 17:38:30 | <Suranga> 1. added the one line of code that will convert all the records into lower case |
| 17:38:53 | <Suranga> 2. created the calculateMutualScores() method in the AnalysisPanel.java |
| 17:39:22 | <Suranga> in this method, first we make a list of all columns that are used for scoring (included +blocking) |
| 17:39:34 | <Suranga> then we sort them into pairwise combinations |
| 17:39:34 | <james_regen> Suranga: committing the change for that lowercase fix could be a good test of your SVN privileges. hsouldn't affect anything else if it works and none of your other changes are committed |
| 17:39:45 | <Suranga> (that means, pairs of two's) |
| 17:40:31 | <Suranga> now I create and call the FrequencyAnalyzer |
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| 17:41:14 | <Suranga> I get the list of pairwise combinations I prepeaed earlier, and measure the frequencies of each |
| 17:41:55 | <Suranga> I set thes e values into a model object, and pass it into the MutualInformationAnalyzer class which extends DataSourceAnalyzer |
| 17:42:21 | <Suranga> in this class I have overridden the finishanalysis() method to do the math calculations... |
| 17:42:31 | <Suranga> and hence produce the results... |
| 17:43:05 | <Suranga> james_regen, so right now, I have about 75% of the work completed... |
| 17:43:18 | *** upul` has left #openmrs |
| 17:43:30 | <djazayeri> Can anyone give me 3 common Ugandan names? |
| 17:44:06 | <bwolfe> Wyclif |
| 17:44:07 | <bwolfe> Daniel |
| 17:44:10 | <bwolfe> Gilbert |
| 17:44:20 | <james_regen> Suranga: i think i'd organize the code differently |
| 17:44:33 | <bwolfe> djazayeri, each of those are 33% of the ugandans that I know |
| 17:44:34 | <downeym> Zesiro |
| 17:44:52 | <Suranga> did I go too fast, could u understand what I've done... |
| 17:44:54 | <nribeka> Eric, John, James |
| 17:45:09 | <james_regen> yeah, don't forget James. that's an awesome name |
| 17:45:09 | <downeym> Nabulungi |
| 17:45:12 | <djazayeri> lol, thanks |
| 17:45:22 | <Suranga> james_regen, im all ears :-) |
| 17:45:37 | <noirin> http://www.ugandawiki.ug/Category:Ugandan_names |
| 17:45:52 | <nribeka> scratch James ... |
| 17:45:54 | <nribeka> :D |
| 17:46:28 | <james_regen> Suranga: i'd move the code that calculates the pairwise combinations to the constructor of the MutualInformationAnalyzer class. |
| 17:47:04 | <Suranga> james_regen, oh I see... |
| 17:47:18 | <james_regen> Suranga: that is work that needs to be done every time this analysis is done, so i think it would make sense to keep that with the rest of the mutual information code, so we don't have to rewrite it in a non GUI class |
| 17:47:18 | <Suranga> but then where would I have the frequenzyAnalyzer ? |
| 17:49:36 | <james_regen> Suranga: we do have a Frequency Analyzer object, which keeps track of frequencies, but i can't think of a clean way to use the output from one Analyzer as input to another. the descriptive statistics objects that are there do it in a way that i'm not really happy with. i'm also not sure how easily the FrequencyAnalyzer, as written, can help |
| 17:50:43 | <Suranga> james_regen, that makes sense, yeah |
| 17:50:48 | <james_regen> Suranga: are we interested in how many times (John,M) and (John,F) appear? because i think Frquency Analyzer would tell us how many times John appears, and how many times M and F appears, but not the correlation of the two, fi they show up in the same record |
| 17:52:08 | <Suranga> james_regen, I faced this problem too |
| 17:52:30 | <nribeka> Suranga boy, you really need to rotate your photos ... |
| 17:52:41 | <Suranga> james_regen, I created a series of model classes, |
| 17:53:24 | <Suranga> into these classes I set the frequency data, and finally pass this model class into the second analyzer class |
| 17:54:16 | <Suranga> james_regen, the frequencyanalyzer gives how many times (john) but not how many times (john, F) |
| 17:54:22 | *** chopin has quit IRC |
| 17:54:32 | <Suranga> that we will have to code into the finishanalysis method maybe... |
| 17:54:53 | <Suranga> nribeka, sorry win, let me try that... |
| 17:55:24 | <james_regen> Suranga: i would think by the finishAnalysis method, we will have lost that information. i think you'll need to keep track of that as it looks at the data, in the analyzeRecord method |
| 17:55:33 | <Suranga> james_regen, would u like to look at the model class structure I came up for now ? :-) |
| 17:55:53 | <james_regen> Suranga: yeah, that might help me understand if i'm thinking it's a problem or not |
| 17:56:26 | <Suranga> james_regen, let me upload to the wiki... |
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| 18:08:22 | <Suranga> james_regen, sorry for the delay |
| 18:08:26 | <Suranga> the calculateMIscore method in AnalysisPanel looks like this.... |
| 18:08:29 | <Suranga> http://pastebin.com/efud9SBZ |
| 18:09:42 | <Suranga> james_regen, mind you, the code looks terrible, (needs to be cleaned up really well !) |
| 18:12:12 | <Suranga> james_regen, model classes at https://wiki.openmrs.org/download/attachments/11534634/classDigram.bmp |
| 18:12:19 | <OpenMRSBot> <http://ln-s.net/9Eh6> (at wiki.openmrs.org) |
| 18:17:30 | <Suranga> james_regen, Once again, I cant stress enough that I really have tio cleap up this code... :-) |
| 18:18:54 | <james_regen> Suranga: it's no problem, i just need to think about it more to figure it out |
| 18:19:38 | <Suranga> james_regen, want me to go over the code with you ? |
| 18:20:14 | <james_regen> Suranga: i think from line 53 would be helpful |
| 18:22:24 | <Suranga> aha, its like this |
| 18:22:25 | <Suranga> earlier, I had selected the column pairs ( something like (A,B) (B,C) (A,C) |
| 18:22:25 | <Suranga> now i go through these, finding the frequencies of each |
| 18:22:26 | <Suranga> for example, here is where I check how many john's column A contains |
| 18:22:35 | <Suranga> and how many MALE's in column b |
| 18:23:03 | <Suranga> for each column, I have a map which stores <token, frequency> |
| 18:23:17 | <Suranga> so for the column sex, the map may look like -> |
| 18:23:26 | <Suranga> (male :4 female:2) |
| 18:23:43 | <Suranga> I ssign frequency for each token into the column |
| 18:23:55 | <Suranga> this happens from 53 to 67 |
| 18:24:34 | <Suranga> now all this data (about the columns etc, are stored in the MutualCalculator model class |
| 18:24:52 | <Suranga> I pass this to the MutualInformationAnalyzer |
| 18:25:24 | <Suranga> now, the analyzerecord() method in my MutualInformationAnalyzer class is empty, because there is nothing to be done per each record. |
| 18:25:37 | <Suranga> but inthe finishAnalysis() method, I do all the math, and calculate the MI scores.... |
| 18:27:05 | <Suranga> james_regen, hope that was clear... |
| 18:28:00 | <Suranga> so basically, my code runs as, |
| 18:28:36 | <james_regen> Suranga: so if the result is frequencies for columans A and B A=(John:3, Jack:2) and B=(male:2, female:3) how does it know that the data is: John,M John,M John,F Jack,F Jack,F and not John,F John,F John,F Jack,M Jack,M? Are those treated differently, and are they different in the mutual information score? |
| 18:28:37 | <Suranga> 1. find the pairwise combinations, and set them into model class structue |
| 18:28:38 | <Suranga> 2. run frequencyanalysis and pass these values into model class |
| 18:29:18 | <Suranga> james_regen, so far, I had only calculated the parts about john:3 Jack:2 |
| 18:29:25 | <Suranga> I also need (john,M) |
| 18:29:36 | <Suranga> the frequencyanalyser does not do this, unfortunately |
| 18:29:51 | <Suranga> I will probably have to write some code somewhere :-) |
| 18:30:15 | <james_regen> ok, and this is where i think adding code to analyzeRecord will be needed, since this is the only place MutualInformationAnalzer will see it |
| 18:30:24 | <Suranga> for MI score, I need Jack:5 Male:2 and Jack,male :3 etc, etc, |
| 18:31:00 | <Suranga> james_regen, the analyze record is being called every time a single record is added right ? |
| 18:31:31 | <Suranga> I tried having the frequncy code in the analyze record method, but it kept getting called n many times too much |
| 18:31:32 | <james_regen> Suranga: it's called every time a record is read from the data. the record isn't being added anywhere, just read |
| 18:31:33 | <Suranga> .... |
| 18:32:30 | <Suranga> james_regen, ah, I see, so whenever a record is read, we compare with existing rerocrds to see it there is a match ? |
| 18:33:06 | <Suranga> james_regen, (sorry im taking so much of your time :-( |
| 18:35:10 | <james_regen> Suranga: for frequency analysis, i wouldn't say compared to existing records, since hopefully the records from earlier aren't being completely saved, just the information about them are saved. sor for a frequency analysis, for each Record, you'd call dsf.incrementCount(column, value); for every field |
| 18:36:53 | <Suranga> james_regen, I see... |
| 18:36:54 | <Suranga> james_regen, I will move that to the analyzedataI() method |
| 18:37:19 | <Suranga> james_regen, but I think that the frequency calculations for the john:2 Male:3 need to be in the finalizeData() method... |
| 18:37:36 | <Suranga> james_regen, because they dont rely on comparason, and because they will happen just once... |
| 18:37:52 | <Suranga> james_regen, am i right, or being silly :P |
| 18:39:56 | <james_regen> Suranga: the math calculations where you examine your completed frequency counts will happen in the finishAnalysis method, but i think you'll need to store those frequencies in a way beyond what just FrequencyAnalyer gets you |
| 18:41:52 | <james_regen> Suranga: currently, i think your code is reading the data once. the first time you get the simple frequency data per column. the second time, you'll need to keep track of the pairwise frequencies. is it possible to add a DataSourceFrequency object to the MutualInformationAnalyer class, and rad the data once? or you could have MutualInformationAnalyzer be a subclass of FrequencyAnalyzer, so it uses the frequency code from that, but add the pai |
| 18:42:16 | <james_regen> Suranga: sorry, i meant your code is reading the data twice. i think we can do it in just one pass |
| 18:42:31 | <Suranga> james_regen, Im using a few model classes |
| 18:42:31 | <Suranga> my token class will store unique token, frequency and log values etc. |
| 18:42:41 | <Suranga> each column class can have one or many unique tokens etc. |
| 18:43:01 | <Suranga> Im thinking tht the model class structue will take care of this ? |
| 18:44:40 | <james_regen> Suranga: ok. i think storing that information in that way is fine, but i think we can get that data and the pairwise frequency information ( the John,M frequency information ) at the same time |
| 18:47:10 | *** Suranga_ has joined #openmrs |
| 18:47:21 | <Suranga_> james_regen, sorry, I got cut off |
| 18:47:28 | <Suranga_> did u say anything importaint :-( |
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| 18:47:42 | <james_regen> Suranga_ last message i sent was: ok. i think storing that information in that way is fine, but i think we can get that data and the pairwise frequency information ( the John,M frequency information ) at the same time |
| 18:48:32 | <Suranga_> james_regen, mmm...I ws thinking, for (john,M) stufff, we need to use the analyzeRecord() method, while for the John:3 stuff, we need to use the finalizemethod() |
| 18:48:33 | <Suranga_> <Suranga> therefore wont we need to read in the data twice either way ? :-( |
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| 18:49:59 | <james_regen> Suranga_: where is the finalize method? |
| 18:50:49 | <Suranga_> james_regen, so sorry, I ment the finishAnalysis() method |
| 18:50:56 | <Suranga_> my mistake |
| 18:53:41 | <james_regen> Suranga_: that's what i thought, i just wanted to make sure. you'll need to wait until the data is read to use it in the finishAnalysis method, but i'd think you could do that first in the MutualInformationAnalyzer's finishAnalysis method before it does anything else. all you're using from the FrequencyAnalyzer object you create and use is the DataSourceFrequency object. you can create one yourself to use, and fill it yourself in the analyzeRe |
| 18:54:26 | <Suranga_> so since the analyzeData coes first, I need to read data there, plus a second time when we get to the finishAnalysis method |
| 18:54:27 | <Suranga_> the stuff im doing in the finishanalysis method cant be done at the analyze data method, I belive :-( |
| 18:55:58 | <Suranga_> james_regen, I didnt get you properly, u mean I should do both calculations in finishAnalysis ? |
| 18:56:22 | <dkayiwa> bwolfe: did you cancel the dev call? |
| 18:56:39 | <james_regen> Suranga_: well, i wouldn't say you need to read the data again. having seen all the data at this point, it should be possible to have kept rack of all the data characteristics you were interested in, and at the point that finishAnalysis is called, you have the frequencies you need |
| 18:56:41 | <bwolfe> dkayiwa, you mean design call? |
| 18:56:46 | <dkayiwa> oh yes |
| 18:57:38 | <bwolfe> design call was a few hours ago |
| 18:57:43 | <bwolfe> dev call is many hours from now |
| 18:58:39 | <dkayiwa> bwolfe: was the design call after the university call? |
| 18:58:51 | <Suranga_> james_regen, oh, so u mean that both calculations happen in finishanalysis, but the READ action occures only once, right ? |
| 18:59:04 | <bwolfe> dkayiwa, oh, right, design was 1 hour ago...just feels like many hours ago :-p |
| 18:59:17 | <dkayiwa> :) |
| 18:59:29 | <bwolfe> !weeklycalls |
| 18:59:30 | <OpenMRSBot> bwolfe: Error: "weeklycalls" is not a valid command. |
| 18:59:45 | *** Harsha has joined #openmrs |
| 18:59:52 | <dkayiwa> !bwolfecalls :) |
| 18:59:53 | <OpenMRSBot> dkayiwa: Error: "bwolfecalls" is not a valid command. |
| 18:59:53 | <james_regen> Suranga_: yes. the data is read once, and the MutualInformationAnalyzer keeps track of all the information it needs. it can count simple frequencies and pairwise frequncies both, since it'll need both of them |
| 18:59:55 | <bwolfe> !weeklymeetings |
| 18:59:56 | <OpenMRSBot> bwolfe: Error: "weeklymeetings" is not a valid command. |
| 19:00:08 | <bwolfe> !learn weeklycalls as https://wiki.openmrs.org/display/RES/Weekly+Meetings |
| 19:00:08 | <OpenMRSBot> bwolfe: The operation succeeded. |
| 19:00:14 | <bwolfe> !learn weeklymeetings as https://wiki.openmrs.org/display/RES/Weekly+Meetings |
| 19:00:14 | <OpenMRSBot> bwolfe: The operation succeeded. |
| 19:00:25 | <bwolfe> !learn bwolfecalls as hello? |
| 19:00:25 | <OpenMRSBot> bwolfe: The operation succeeded. |
| 19:00:34 | <bwolfe> !refer dkayiwa [bwolfecalls] |
| 19:00:35 | * OpenMRSBot refers dkayiwa to "bwolfecalls" --- hello? |
| 19:00:52 | <Harsha> Hi Ben |
| 19:01:00 | <bwolfe> hi harsha |
| 19:01:03 | <Harsha> This is Harsha here |
| 19:01:29 | <Harsha> we signed up for obs convorter project |
| 19:01:49 | <Harsha> and we went through the wiki abt this. |
| 19:02:28 | <Harsha> we want to know requirements for this project |
| 19:02:40 | <Harsha> i mean what needs to be done. |
| 19:02:46 | <bwolfe> more so than what is on the wiki page? |
| 19:02:55 | <Harsha> yes... |
| 19:02:56 | <bwolfe> Harsha, are you wanting something step-by-step |
| 19:03:00 | <Suranga_> james_regen, I see, so we will need to use the analyzeData() method only if it is nessesary to do something that will affect the calculations, isnt it ? |
| 19:03:02 | <Harsha> in the design section |
| 19:03:26 | <Harsha> i could see some information regarding future work |
| 19:03:43 | <Harsha> is it what we need to do? |
| 19:04:56 | * bwolfe looks at https://wiki.openmrs.org/display/projects/Obs+Converter+Module+(Design+Page) |
| 19:05:27 | <bwolfe> Harsha, everything in "design" is what you need to do |
| 19:05:50 | <Harsha> ok... got it |
| 19:05:55 | <bwolfe> and potentially anything that is listed in the 1757 ticket |
| 19:06:13 | <james_regen> Suranga_: i'd say we need to use the analyzeRecord method because that is the only way the raw data is viewed by the analyzer classes, and this raw data is what is needed to create the frequency tables used in the calculations |
| 19:08:02 | <Harsha> also Ben can we have some user guide to openmrs. I saw the userguide in documentation section but it contains only brief description of concepts, encounters and observations |
| 19:08:06 | <Suranga_> james_regen, the above functionality is needed only to calculate (james,Male) stuff, right ? |
| 19:08:07 | <james_regen> Suranga_: i can explain the reasoning why the code is setup as it is |
| 19:08:30 | <Suranga_> james_regen, that'll be great |
| 19:09:37 | <Harsha> I want to get some basic domain knowledge about difference between allergy and problems and what active_list means ? |
| 19:10:30 | <Suranga_> james_regen, really sorry to take so much time for this :-( |
| 19:10:44 | <Harsha> Ben, can we get above information |
| 19:11:13 | <james_regen> Suranga_: one concern shaun had is that reading data can take a while. reading pairs of records can take a long time, since blocking combinations can create many, many pairs, and predicting how many pairs you'll see can be complicated. the goal was to read the data once, and if you want, have multiple things done at that time. so each analyzer should be independent. there's other code that has the while(hasMoreRecords()){ Record r = reader.ge |
| 19:13:07 | <bwolfe> Harsha, there is only what is on the wiki |
| 19:13:22 | <james_regen> Suranga_: all analyzers get is that they have an analyzeRecord() method that's called for every record, and a finishAnalysis() method at the end to clean up and do stuff that can only be done once everything is done. that's all they need. mulitple analyzers can be watching the same stream of records or pairs, and they all get thier turn to look at the data and analyze it. so the data is read once, and possibly multiple things are done with it |
| 19:13:24 | <bwolfe> Harsha, there is a book being written /this week/ that might help you with some background: www.booki.cc/openmrs/ |
| 19:13:37 | <dkayiwa> :D |
| 19:13:50 | <bwolfe> Harsha, djazayeri, downeym, etc at at google working on that in hack-a-thon type fashion |
| 19:14:12 | <downeym> we'll be done with it tomorrow. :) |
| 19:16:24 | <Suranga_> james_regen, umm.. r u saying that I need only one DataSourceAnalysis, and that I should use it for both freqnency analysis and mIanalysis ? |
| 19:16:45 | <Suranga_> james_regen, is that what u mean by 'read once' that both analysers use the same stream ? |
| 19:17:18 | <dkayiwa> downeym: will the book also be open source? :) |
| 19:17:48 | <downeym> dkayiwa: yes, it will :) |
| 19:17:55 | <james_regen> Suranga_: that's one option, but i also meant that analyzeRecord() method is MutualInformationAnzlyer's access to the raw data, and it will need to be used because that's all it has |
| 19:17:56 | <dkayiwa> :D |
| 19:19:38 | <bwolfe> downeym, so its looking like you're on track? |
| 19:19:57 | <Suranga_> james_regen, hm..so we use analyzeRecord() to calculate the (john,3) stuff, and the finishAnalysis() for the john:3 |
| 19:20:35 | <james_regen> Suranga_: it should be possible to read all the data just once by either a. using two analyzers, and add them to the analysis object in the correct order b. making MutualInformationAnalyzer a subclass of FrequencyAnalyzer to use it's frequency counting code, or c. add the frequency counting code to MutualInformationAnalyzer along with the pairwise frequency counting it'll need to do anyway |
| 19:22:00 | <james_regen> Suranga_: i'd say analyzeRecord() doesn't calculate anything, it just counts what it sees. it keeps a tally of frequencies. it builds up the tables that need to be complete later. fancy math with logarithms and frequency look ups and printing output are all done in finishAnalysis |
| 19:23:42 | <Suranga_> james_regen, I think I finally understood what you ment !:-) |
| 19:23:54 | <Suranga_> james_regen, i'm going to try that out |
| 19:23:57 | <james_regen> Suranga_: there's the "using what we know" code that calculates mutual information between columns. starting out, though, we don't know anything about the data. the analyzeRecord method is where we figure out (and count) what we have |
| 19:26:04 | <Harsha> Ben, Thanks for sharing the book |
| 19:29:42 | <Suranga_> james_regen, let me think on this |
| 19:30:06 | <Suranga_> james_regen, I think theres something in what you said that I havent grasped yet, so I should probably read the logs again :-) |
| 19:30:27 | <Suranga_> james_regen, how about I report back tomorrow with my results ? |
| 19:30:36 | <james_regen> Suranga_: ok. and hopefully i'm not too set in my thinking that i'm ignoring an insight you're making |
| 19:30:43 | <james_regen> Suranga_: sure, i'll be here tomorrow |
| 19:31:10 | <Harsha> Ben, I have a class now. May i know your availability so that we can sync up. |
| 19:31:22 | <Suranga_> james_regen, I nearly forgot ! u r going on leave on the 24th right ? |
| 19:31:22 | <Suranga_> 24-28 ? |
| 19:31:54 | <james_regen> Suranga_: yes, i'll be gone next week |
| 19:32:09 | <bwolfe> Harsha, I am working in Kenya right now |
| 19:32:20 | <bwolfe> so it is 10:30pm for me |
| 19:32:47 | <Suranga_> james_regen, so I have two more days I guss :-) |
| 19:32:49 | <bwolfe> I am generally available 9-6 EAT. (which is 2am-11am EST) |
| 19:33:00 | <Suranga_> I think dr. shaun is comming back next week, is he ? |
| 19:33:50 | <james_regen> Suranga_: he might be at a conference next week. he should be checking email, but he might have trouble getting on IRC |
| 19:34:53 | <Harsha> Ben, ok... we are working from North Carolina... so will you be available during your day time. |
| 19:35:44 | <Harsha> it is 3.35 PM for me. |
| 19:36:19 | <bwolfe> yes, I'm on IRC whenever I'm at my computer generally |
| 19:36:33 | <bwolfe> wed/thurs I work on almost EST time due to late conference calls |
| 19:36:45 | <bwolfe> so you'll see my on here tomorrow late too |
| 19:36:58 | <Suranga_> james_regen, no problem, I guess I need a little more time to get used to the design... |
| 19:37:00 | <Suranga_> james_regen, so I will see you tomorrow then ? |
| 19:37:53 | <james_regen> Suranga_: yes, i'll be here |
| 19:38:04 | <Suranga_> thanks James, I appreciate all the help |
| 19:38:10 | <Suranga_> maybe we will meet one day |
| 19:39:01 | <james_regen> Suranga_: it's no problem |
| 19:41:04 | <Suranga_> bwolfe, shortly I will be installing ubuntu on my machine :-) |
| 19:41:21 | *** robbyoconnor has quit IRC |
| 19:41:49 | <bwolfe> Suranga_, woohoo! |
| 19:42:04 | <bwolfe> Suranga_, and you can start with the hot-off-the-presses ubuntu 11.10 ! |
| 19:42:41 | <Suranga_> bwolfe, yeps, thats the one, I got it off torent (at office) today :-) |
| 19:43:45 | <bwolfe> very nice |
| 19:43:47 | <bwolfe> Suranga++ |
| 19:47:23 | <OpenMRSBot> Recent updates in the world of openmrs: On Twitter: OpenMRS: RT @lhawthorn: Please help fight the cholera outbreak in #Haiti by donating to Partners in Health @pih http://t.co/429DZ4Jj #hfoss / cc ... <http://twitter.com/OpenMRS/statuses/126736483318120448> |
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| 19:48:39 | <Suranga_> !karma |
| 19:48:39 | <OpenMRSBot> Suranga_: Highest karma: "bwolfe" (98), "dkayiwa" (42), and "groovy" (30). Lowest karma: "emacs" (-9), "[INFO] ----------------------------------------------------------------------" (-8), and "windows" (-7). |
| 19:52:51 | <downeym> emacs-- |
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| 19:52:52 | <downeym> vi++ |
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| 19:57:05 | <Suranga_> downeym, hi, any ide is Dr. paul has returned yet ? |
| 19:57:19 | <Suranga_> he wanted me o do something, but has not responded to mail yet :-( |
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| 19:57:49 | <downeym> Suranga_: not sure, i am not there :) |
| 19:58:09 | <Suranga_> downeym, oh right, sorry I forgot |
| 19:58:24 | <downeym> Suranga_: i believe their meetings are over and they have been traveling back yesterday and today |
| 19:58:44 | <Suranga_> ah, I seee, that explains it :-) |
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| 22:01:28 | <mnunez> dkayiwa: Hi! Are you busy right know? Mind if I ask an XForm question? |
| 22:01:45 | <dkayiwa> u can ask |
| 22:02:33 | <mnunez> dkayiwa: Is it possible to add a problem with it's date & comment to a patient from an XForm. Not just any concept, but problems/diagnosis |
| 22:03:04 | <dkayiwa> you can create it as a conv set |
| 22:03:11 | <mnunez> dkayiwa: The same listed in the Problem List in the Description Tab |
| 22:03:39 | <mnunez> dkayiwa: Bu that way I would get a limited set of options, would I? |
| 22:04:15 | <dkayiwa> you do not have to |
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| 22:05:20 | <mnunez> dkayiwa: Example: I create a ConvSet called "MRI DIAGNOSIS" with a problem, a date, and a comment as answers. |
| 22:05:58 | <mnunez> dkayiwa: Now I'd like it to show under problem only the concepts labeled "diagnosis", not just any concept such as drugs. |
| 22:06:05 | <dkayiwa> coded concept, date and comment as conv set members |
| 22:06:33 | <mnunez> dkayiwa: coded concept then? |
| 22:06:46 | <dkayiwa> ? |
| 22:07:26 | <mnunez> dkayiwa: what would the answers for that coded concept be? |
| 22:07:51 | <dkayiwa> do you ant it to be a fixed list? |
| 22:07:58 | <dkayiwa> ant = want |
| 22:08:31 | <mnunez> dkayiwa: Nop. A variable list. Displaying every concept in the concept dictionary with class Diagnosis |
| 22:09:30 | <dkayiwa> which openmrs version do you use |
| 22:09:36 | <mnunez> dkayiwa: 1.8 |
| 22:10:20 | <dkayiwa> ok just leave the coded concept with no answers |
| 22:10:34 | <mnunez> dkayiwa: Ok. |
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| 22:11:07 | <mnunez> dkayiwa: And as for the list of diagnosis to choose from? |
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| 22:39:00 | <dkayiwa> mnunez: sorry i got disconnected |
| 22:39:11 | <mnunez> dkayiwa: no problem |
| 22:40:08 | <mnunez> dkayiwa: See, what I want to do is append to an MRI date concept a couple of repeatboxes. |
| 22:40:23 | <dkayiwa> yes i got u |
| 22:40:26 | <mnunez> dkayiwa: First, lets say findings |
| 22:42:05 | <mnunez> dkayiwa: In this case, this would be used in a "first visit form", so these finding are all extracted from an MRI the patient already had. The doctor is looking at the study as he loads the findings. |
| 22:42:21 | <dkayiwa> ok |
| 22:43:02 | <mnunez> dkayiwa: What I'd like to have is a repeat widget that suggests all available concepts with a Finding Class |
| 22:43:35 | <dkayiwa> yes |
| 22:43:36 | <mnunez> dkayiwa: How possible is that? |
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| 22:44:16 | <mnunez> feasible i believe is the right word |
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