IRC Chat : 2010-04-20 - OpenMRS

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04:58:59 <Shazin> Hi All
04:59:16 <Shazin> May I know when the final decision on Gsoc projects
04:59:21 <Shazin> will be made?
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05:32:28 <robbyoconnor> Shazin: this is in the FAQ
05:32:34 <robbyoconnor> show due dilligence.
05:32:43 <robbyoconnor> hell it's in the timeline!
05:32:48 <robbyoconnor> :)
05:33:07 <Shazin> I know it is on 26th of April that the results will be annouced
05:33:09 <robbyoconnor> But, April 26 19:00 UTC
05:33:24 <robbyoconnor> Shazin: nothing is final until google publishes the list
05:33:33 <Shazin> I was asking internally
05:33:43 <robbyoconnor> Even if they knew, they couldn't tell you
05:34:08 <robbyoconnor> they could tell you definitely "no"
05:34:16 <robbyoconnor> but not yes
05:34:35 <robbyoconnor> so relax!
05:34:53 <Shazin> Ok. You seemed to be an expert in Gsoc
05:34:54 <Shazin> :)
05:34:54 <robbyoconnor> also: it's 134am in the US right now (EDT)
05:34:56 <Shazin> Thanks
05:35:08 <robbyoconnor> Shazin: not expert, just been around for 3 years now
05:35:29 <Shazin> WOW that is a feat
05:35:53 <Shazin> great
05:36:31 <robbyoconnor> I also just know that mentors are asked to not say anything until the announcement
05:36:41 <Shazin> Ok
05:38:34 <robbyoconnor> The program, once yoi get your head around how it works -- is pretty straight forward
05:38:42 <robbyoconnor> you*
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08:11:46 <openmrs_web258> hi wyclif
08:11:50 *** openmrs_web258 is now known as suneeth
08:13:29 <suneeth> u there
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08:30:22 <suneeth> pascal r u around
08:33:12 <pascal`> hi suneeth
08:33:20 <pascal`> !refer suneeth [tabcomplete]
08:33:20 * OpenMRSBot refers suneeth to "tabcomplete" --- Most IRC clients let you easily write someone's nickname in the channel using tab completion. Just type the first few letters, then <tab>, and voila!
08:33:48 <suneeth> hey
08:34:20 <suneeth> r u mentoring any project
08:34:51 <pascal`> suneeth, yes
08:35:16 <suneeth> ohh which one
08:35:25 <suneeth> i didnt check the list
08:35:54 <pascal`> suneeth, http://openmrs.org/wiki/Unassigned_Projects#Genome_Data_Storage_and_Drug_Resistance_Prediction
08:35:58 <OpenMRSBot> <http://ln-s.net/5ohP> (at openmrs.org)
08:36:44 <suneeth> oh
08:36:57 <suneeth> but i thought carl
08:37:01 <suneeth> was doing that
08:37:19 <suneeth> hey saimanohar has applied for it
08:37:46 <suneeth> hey pascal this is sai
08:37:51 <suneeth> i mean saimanohar
08:37:59 <pascal`> suneeth, Carl was going to be the primary mentor, but I took over and now he's backup
08:38:05 <pascal`> hi saimanohar
08:38:22 <suneeth> i replied to your comment in the application but didnt get any reply from you
08:38:36 <suneeth> hey hi
08:38:45 <suneeth> i mean this is saimanohar
08:39:04 <suneeth> i hope we got the slot from google for this project
08:39:50 <pascal`> the announcement will be made on the 26th afaik
08:39:57 <suneeth> just saw the update
08:40:05 <suneeth> ya i know that
08:40:22 <suneeth> but can you tell me how many proposals came for that project
08:40:29 <suneeth> if its fair to tell
08:40:43 <suneeth> just too worried about it
08:41:07 <pascal`> suneeth, unfortunately I can't say anything until the announcement is made
08:41:16 <suneeth> ok
08:41:37 <suneeth> thats fine
08:41:42 <suneeth> i know how it is
08:42:19 <pascal`> If you want to help out the OpenMRS community, keep working on tickets :)
08:42:20 <suneeth> hey now i am having all the more butterflies in my stomach
08:42:31 <suneeth> yes
08:42:33 <pascal`> It will also look good on your application next year ;)
08:42:43 <suneeth> my two tickets have been accepted
08:42:55 <suneeth> which means i didnt get through this year
08:42:58 <suneeth> :(
08:43:14 <suneeth> i have already worked on 3 tickets
08:44:24 <suneeth> i had high hopes with this one coz i had done the same kinda work before
08:44:39 <suneeth> its really heart breaking
08:45:47 <pascal`> no decision has been made yet suneeth, what makes you think you didn't get accepted?
08:46:11 <suneeth> no this is saimanohar you are talking to
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08:46:26 <saimanohar> hi pascal
08:46:36 <saimanohar> me n suneeth were on the same pc
08:47:05 <pascal`> still, no decision has been made
08:48:20 <saimanohar> so please can i improve my proposal more so that you can review it again
08:50:32 <saimanohar> # All mentors must be signed up and all student proposals matched with a mentor - 07:00 UTC # Student ranking/scoring deadline. Please do not add private comments with a nonzero score or mark students as ineligible (unless doing so as part of resolving duplicate accepted students) after this deadline - 17:00 UTC
08:50:42 <saimanohar> 21st april is the last date
08:51:15 <pascal`> saimanohar, I liked your plan, but it lacks technical detail
08:51:35 <pascal`> saimanohar, add some technical/design ideas if you can
08:51:49 <saimanohar> ok
08:51:59 <saimanohar> i would change it a bit
08:53:26 <pascal`> saimanohar, also, think about some use cases... think about how the data capturer is going to enter data into the system
08:53:55 <pascal`> saimanohar, and think about how a clinician is going to use the captured data to make a diagnosis, think about the workflows etc.
08:54:49 <saimanohar> i have even installed regadb
08:55:21 <pascal`> saimanohar, yes we know :)
08:55:53 <saimanohar> ok i would think about all these parts n rectify my proposal
08:56:05 <pascal`> saimanohar, great
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08:58:28 <pascal`> hey rcrichton
08:58:39 <rcrichton> Hi pascal`
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09:03:02 <pascal`> o/ chopin
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09:32:23 <astelmashenko> hi all
09:34:10 <Echidna> hi
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10:10:03 <pascal`> hi astelmashenko
10:10:05 <pascal`> hi Echidna
10:37:48 <saimanohar> hey pascal
10:37:54 <saimanohar> u there
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10:48:57 <saimanohar> need to ask something
10:48:59 <saimanohar> pascal
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10:52:39 <maveriick> !refer suneeth [tabcomplete]
10:52:39 * OpenMRSBot refers suneeth to "tabcomplete" --- Most IRC clients let you easily write someone's nickname in the channel using tab completion. Just type the first few letters, then <tab>, and voila!
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11:02:08 <pascal`> hi saimanohar
11:02:36 <pascal`> saimanohar, you're not typing my nick correctly... it has a backtick (`) at the end... follow OpenMRSBot's instructions :)
11:02:39 <saimanohar> hey in that
11:02:53 <pascal`> saimanohar, if you dont type my nick correctly... I don't get notified of the message
11:03:04 <saimanohar> are we looking at all these features
11:03:06 <saimanohar> http://bioafrica.mrc.ac.za:8080/regadb-ui/RegaDB
11:03:11 <OpenMRSBot> <http://ln-s.net/5ok7> (at bioafrica.mrc.ac.za:8080)
11:03:25 <saimanohar> A patient history chart summarizes the patients status showing both therapy, CD4/VL and mutation in a synoptic way. The resistance interpretation chart provides a clinician with an overview of all the relevant drugs and algorithms. The visual mutation representation provides a quick overview on all the mutations for a specific protein. Generation of resistance interpretation reports.
11:05:04 <saimanohar> do we need all the four features in our module
11:05:09 <pascal`> saimanohar, it would be ideal to have all the features available
11:05:15 <pascal`> saimanohar, but we'll see how the time goes
11:05:33 <pascal`> saimanohar, as the project description says: Target: Successful completion of this project would allow OpenMRS to store, interpret and render the results of passing genomic data to the RegaDB system.
11:05:35 <saimanohar> ok right now there is no documentation avaiable on the user guide of regadb
11:06:30 <pascal`> saimanohar, there should be some
11:06:49 <saimanohar> genomic data is one aspect of all the features provided
11:07:07 <saimanohar> i couldnt find any
11:07:32 <pascal`> saimanohar, yeah, the documentation does seem a bit thin
11:07:55 <pascal`> saimanohar, we're primarily interested in genomic data and it's use in the context of drug resistance prediction
11:08:18 <saimanohar> so i am unable to understand the input parameter it would require to generate muttation patterns
11:08:18 <pascal`> saimanohar, the module is going to be used as part of a research study by the medical research council (of South Africa) :)
11:08:54 <pascal`> saimanohar, the input is a pre-existing database of mutations
11:09:24 <pascal`> saimanohar, so the patient gets sequenced, and that is compared to a database to look for mutations
11:09:46 <saimanohar> so we need to anotate the patient
11:10:57 <pascal`> saimanohar, basically, we need a way to input the data (the sequence) from OpenMRS... and view whatever rega produces
11:10:57 <saimanohar> from the openmrs UI to the regadb
11:11:09 <saimanohar> ya got that
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11:11:44 <saimanohar> just looking for the way the sequence should be passed
11:12:10 <pascal`> saimanohar, it will probably be in the form of a FASTA file, or something similar
11:12:33 <pascal`> saimanohar, in terms of the features, it's the analysis services we're really interested in
11:12:41 <pascal`> saimanohar, http://en.wikipedia.org/wiki/FASTA
11:12:52 <saimanohar> do we store the analysis in openmrs db too
11:13:03 <pascal`> saimanohar, or rather, http://en.wikipedia.org/wiki/FASTA_format
11:13:18 <pascal`> saimanohar, that's up to how you want to design it :)
11:13:31 <pascal`> saimanohar, i would use the rega infrastructure that's there already if it were up to me
11:13:32 <saimanohar> ya would look into it now
11:13:55 <saimanohar> so basically we are intrested in The visual mutation representation provides a quick overview on all the mutations for a specific protein. this feature of regadb
11:14:19 <saimanohar> ya i would do that now see it in my local db
11:14:31 <pascal`> saimanohar, well, it's not necessarily the visuals we're interested in
11:14:54 <pascal`> saimanohar, we want to know, for a patients, which drugs we /shouldn't/ give them, because they have a mutation which is resistant to that drug.
11:16:37 <saimanohar> ok
11:16:50 <pascal`> saimanohar, so the workflow would be: 1. patient seems to be failing treatment 2. sequence patient 3. enter data into openmrs 4. use rega to analyse 5. view some kind of result in openmrs and let clinician make decision
11:16:56 <saimanohar> so even a tabular summary would do instead of the visual
11:17:00 <pascal`> saimanohar, make sense?
11:17:09 <saimanohar> perfectly
11:17:16 <pascal`> saimanohar, great
11:17:58 <saimanohar> should i include this in my proposal to make it look good
11:18:07 <saimanohar> cheating no ;)
11:18:57 <pascal`> saimanohar, technical/design thoughts will help... as well as understanding the workflow, yes
11:19:11 <pascal`> saimanohar, do you have access to the rega source?
11:20:27 <saimanohar> yes
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11:52:10 <pascal`> hey bwolfe
11:53:42 <saimanohar> @pascal' can u give me a day i would definately come up with a workflow n technicalities
11:54:22 <bwolfe> hi pascal`
11:54:27 <pascal`> sure saimanohar
11:55:00 <pascal`> saimanohar, you're still not getting my name right :) it's a backtick (`), not a quote... type the first few characters and press tab... it should autocomplete (=
11:55:32 <pascal`> (without the @)
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12:07:16 <saimanohar> pascal`:
12:07:26 <saimanohar> now i got ur name right
12:10:37 <pascal`> heh, yeah
12:13:44 <saimanohar> does openmrs have any documentationregarding regadb
12:15:17 <saimanohar> pascal`: coz we first need to analyize what i/p does rega db require to Drug Resistance interpretation
12:15:40 <saimanohar> then only we can chalk out what all inputs we require from the openmrs
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13:17:06 <Ladyfa> hi
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13:31:22 <Ladyfa> hi downeym
13:31:32 <downeym> bonsoir Ladyfa
13:33:03 <downeym> et slt a tous ;)
13:33:39 <Ladyfa> tu aimes vraiment le francais ;)
13:33:56 <chopin_> does every sentence in french have a winky face after it?
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13:34:06 <downeym> oui bien sur ;)
13:34:08 <Ladyfa> haha
13:35:10 <bwolfe> chopin: its the french period
13:37:05 <chopin> heheh
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14:02:38 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Changesets: Changeset [13018]: Modified By Krishnaja <http://dev.openmrs.org/changeset/13018>
14:10:49 <downeym> hi lu
14:15:02 <luzhuangwei> hi downeym
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14:30:24 <downeym> hi maveriick & firzhan
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14:31:54 <suneeth> hi wyclif
14:32:11 <suneeth> hi wyclif
14:36:29 <firzhan> downeym: Hi downeym
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14:46:28 <chopin> hi
14:46:36 * chopin sees a lot of "hi"s today
14:46:48 <bwolfe> hi
14:46:51 <downeym> hi chopin
14:48:49 <maveriick> hi downeym
14:52:32 <wyclif> hey suneeth
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15:34:02 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2264 (defect created): Patient Flags Module causes dashboard to fail to load with SQL flag <http://dev.openmrs.org/ticket/2264>
15:36:44 <diptanuc> Hi
15:37:14 <diptanuc> Is anyone maintaining a git repository of the openmrs codebase on github?
15:38:24 <downeym> not that i'm aware of - someone else may know otherwise
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15:40:14 <diptanuc> ok
15:40:51 <diptanuc> Does the community plan to move into git from svn?
15:41:37 * downeym checks the archives
15:41:57 <diptanuc> ok
15:41:59 <downeym> don't see any talk about moving the trunk to git ....
15:42:12 <downeym> some people are using it for smaller related projects, though
15:42:22 <diptanuc> i see
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16:05:14 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2265 (task created): ConceptDatatype needs isComplex and isRule methods <http://dev.openmrs.org/ticket/2265> || OpenMRS Changesets: Changeset [13019]: in patientmatching module, fixed random sampling method of estimating … <http://dev.openmrs.org/changeset/13019> || OpenMRS Tickets: Ticket #2256 (task created): Rename wsGetAllPatientsAssignedToPerson(String uuid) <http://dev.openmrs.org/ticket/2256>
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17:05:30 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2266 (defect created): Error when attempting to search for voided encounters: Don't include voided encounters <http://dev.openmrs.org/ticket/2266>
17:05:57 <bwolfe> downeym: there are rumblings about git instead of svn...but its a big change
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17:28:46 <saimanohar> pascal`: u there
17:29:20 <saimanohar> just wanted to you to go through this tool of regadb http://jose.med.kuleuven.be/sequencetool/sequencetool.wt?wtd=kv8vLxmZtsJXtTbm4DWwQimXrbElqmnW&js=yes&ajax=yes
17:29:23 <OpenMRSBot> <http://ln-s.net/5pRs> (at jose.med.kuleuven.be)
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17:36:50 <saimanohar> hey pascal`
17:36:57 <saimanohar> need to discuss with you
17:40:15 <bwolfe> saimanohar: he might be off to dinner. its about that time in SA
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17:42:00 <saimanohar> ok
17:42:21 <saimanohar> is he usually back after dinner
17:42:41 <suneeth> hey hi syhaas
17:42:45 <suneeth> hi wyclif
17:42:50 <syhaas> sup suneeth
17:43:17 <suneeth> i hope you got my mail regarding the remarks module
17:43:28 <syhaas> we did, thanx
17:44:27 <bwolfe> saimanohar: no idea. I'm usually taking my afternoon nap by then ;-)
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17:51:58 <suneeth> syhaas: do you think i need to add some points to it
17:52:14 <syhaas> some points?
17:55:28 <syhaas> suneeth: what on earth do you mean, points?
17:56:18 <suneeth> i mean was the description sufficient or should i have mentioned the way i would implement too
18:10:11 <syhaas> suneeth: your submission is sufficient
18:12:45 <suneeth> thanks syhaas
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18:37:49 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Changesets: Changeset [13020]: Chica: Initial set of ADHD rules that compile. 1. Some inconsistencies … <http://dev.openmrs.org/changeset/13020>
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19:08:00 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Changesets: Changeset [13022]: webservices.jaxws: advancing the module version number <http://dev.openmrs.org/changeset/13022> || OpenMRS Changesets: Changeset [13021]: webservices.jaxws: upgrading to jaxws libraries to 2.2 <http://dev.openmrs.org/changeset/13021> || OpenMRS Modules: JaxWS Web Services 1.2 uploaded to OpenMRS Module Repository <https://dev.openmrs.org/modules/view.jsp?module=webservices.jaxws&version=&1.2>
19:38:08 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Changesets: Changeset [13026]: spring-3.0: classpath <http://dev.openmrs.org/changeset/13026> || OpenMRS Changesets: Changeset [13025]: spring-3.0: modified handling of autowiring <http://dev.openmrs.org/changeset/13025> || OpenMRS Changesets: Changeset [13024]: rwandaprimarycarepilot: added internationalization capabilities for … <http://dev.openmrs.org/changeset/13024> || OpenMRS Tickets: Ticket #2189 (defect closed): PersonService.getPersonAttributeTypeByName(String) returns null if a retired PersonAttributeType exists with the given name <http://dev.openmrs.org/ticket/2189#comment:14> || OpenMRS Changesets: Changeset [13023]: PersonService.getPersonAttributeTypeByName(String) returns null if a … <http://dev.openmrs.org/changeset/13023>
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19:57:15 * sgrannis likey
20:01:45 <bwolfe> sgrannis: is there something specific that you likey, or do you just likey everything?
20:04:17 * downeym likey bwolfe
20:04:54 * bwolfe is creeped out
20:05:02 <downeym> :D
20:05:40 *** downeym is now known as Eyjafjallajokull
20:06:19 <syhaas> isnt that the name of the volcano??
20:06:36 <Eyjafjallajokull> no
20:07:11 <Eyjafjallajokull> you're confusing me with Eyjafjallajökull
20:07:18 <Eyjafjallajokull> :)
20:07:54 <syhaas> haha, close: Eyjafjalla
20:08:15 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Forum: Re: ContextDAO is null <http://forum.openmrs.org/viewtopic.php?f=22&t=583#p2190>
20:08:31 <Eyjafjallajokull> !refer syhaas [tabcomplete]
20:08:31 * OpenMRSBot refers syhaas to "tabcomplete" --- Most IRC clients let you easily write someone's nickname in the channel using tab completion. Just type the first few letters, then <tab>, and voila!
20:08:32 * chopin is drowning in formentry hell
20:09:11 * Eyjafjallajokull cancels chopin's work
20:09:35 * chopin wishes that worked
20:09:56 * Eyjafjallajokull strands chopin in the airport
20:09:58 <Eyjafjallajokull> :)
20:10:13 <sgrannis> bwolfe -- not everything.
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20:38:26 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2267 (defect created): Cohort Builder Error: Error reading CohortSearchHistory <http://dev.openmrs.org/ticket/2267>
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21:08:34 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2263 (task closed): Formentry-4.4.1 module is not working with OpenMRS 1.6.1. The Administration page is loading only partially and you see a OutOfMemory error in tomcat logs <http://dev.openmrs.org/ticket/2263#comment:1> || OpenMRS Changesets: Changeset [13028]: formentry/1.5-compat: Fixed OutOfMemory error on Administration page - … <http://dev.openmrs.org/changeset/13028> || OpenMRS Changesets: Changeset [13027]: formentry: Fixed OutOfMemory error on Administration page - #2263 <http://dev.openmrs.org/changeset/13027> || OpenMRS Modules: Form Entry 4.4.2 uploaded to OpenMRS Module Repository <https://dev.openmrs.org/modules/view.jsp?module=formentry&version=&4.4.2> || OpenMRS Modules: Form Entry 4.3.2 uploaded to OpenMRS Module Repository <https://dev.openmrs.org/modules/view.jsp?module=formentry&version=&4.3.2>
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21:38:40 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2269 (defect created): Patient Flags Module: SQL Flag Preview displays Error <http://dev.openmrs.org/ticket/2269> || OpenMRS Changesets: Changeset [13030]: interceptorexample: updated example for Spring 3.0 integration <http://dev.openmrs.org/changeset/13030> || OpenMRS Tickets: Ticket #2264 (defect closed): Patient Flags Module causes dashboard to fail to load with SQL flag <http://dev.openmrs.org/ticket/2264#comment:1> || OpenMRS Tickets: Ticket #2268 (defect created): Cohort Builder - Defaults to Female if Gender is null <http://dev.openmrs.org/ticket/2268> || OpenMRS Changesets: Changeset [13029]: patientflags: fixing bug #2264; upgraded version to 1.2.7 <http://dev.openmrs.org/changeset/13029> || OpenMRS Modules: Patient Flags 1.2.7 uploaded to OpenMRS Module Repository <https://dev.openmrs.org/modules/view.jsp?module=patientflags&version=&1.2.7>
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22:08:48 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Changesets: Changeset [13031]: Cleaned up wildcard version number errors - #2198 Author: luzhuangwei <http://dev.openmrs.org/changeset/13031>
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22:38:56 <OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Tickets: Ticket #2198 (enhancement closed): Wildcard * not working properly in require_version tag of module config.xml <http://dev.openmrs.org/ticket/2198#comment:16>
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