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04:58:59
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<Shazin> Hi All
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04:59:16
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<Shazin> May I know when the final decision on Gsoc projects
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04:59:21
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<Shazin> will be made?
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05:32:28
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<robbyoconnor> Shazin: this is in the FAQ
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05:32:34
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<robbyoconnor> show due dilligence.
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05:32:43
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<robbyoconnor> hell it's in the timeline!
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05:32:48
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<robbyoconnor> :)
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05:33:07
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<Shazin> I know it is on 26th of April that the results will be annouced
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05:33:09
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<robbyoconnor> But, April 26 19:00 UTC
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05:33:24
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<robbyoconnor> Shazin: nothing is final until google publishes the list
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05:33:33
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<Shazin> I was asking internally
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05:33:43
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<robbyoconnor> Even if they knew, they couldn't tell you
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05:34:08
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<robbyoconnor> they could tell you definitely "no"
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05:34:16
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<robbyoconnor> but not yes
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05:34:35
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<robbyoconnor> so relax!
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05:34:53
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<Shazin> Ok. You seemed to be an expert in Gsoc
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05:34:54
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<Shazin> :)
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05:34:54
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<robbyoconnor> also: it's 134am in the US right now (EDT)
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05:34:56
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<Shazin> Thanks
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05:35:08
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<robbyoconnor> Shazin: not expert, just been around for 3 years now
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05:35:29
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<Shazin> WOW that is a feat
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05:35:53
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<Shazin> great
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05:36:31
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<robbyoconnor> I also just know that mentors are asked to not say anything until the announcement
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05:36:41
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<Shazin> Ok
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05:38:34
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<robbyoconnor> The program, once yoi get your head around how it works -- is pretty straight forward
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<robbyoconnor> you*
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<openmrs_web258> hi wyclif
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<suneeth> u there
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<suneeth> pascal r u around
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08:33:12
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<pascal`> hi suneeth
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08:33:20
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<pascal`> !refer suneeth [tabcomplete]
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08:33:20
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* 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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08:33:48
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<suneeth> hey
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08:34:20
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<suneeth> r u mentoring any project
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08:34:51
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<pascal`> suneeth, yes
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08:35:16
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<suneeth> ohh which one
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08:35:25
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<suneeth> i didnt check the list
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08:35:54
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<pascal`> suneeth, http://openmrs.org/wiki/Unassigned_Projects#Genome_Data_Storage_and_Drug_Resistance_Prediction
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08:35:58
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<OpenMRSBot> <http://ln-s.net/5ohP> (at openmrs.org)
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08:36:44
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<suneeth> oh
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08:36:57
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<suneeth> but i thought carl
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08:37:01
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<suneeth> was doing that
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08:37:19
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<suneeth> hey saimanohar has applied for it
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08:37:46
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<suneeth> hey pascal this is sai
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08:37:51
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<suneeth> i mean saimanohar
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08:37:59
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<pascal`> suneeth, Carl was going to be the primary mentor, but I took over and now he's backup
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08:38:05
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<pascal`> hi saimanohar
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08:38:22
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<suneeth> i replied to your comment in the application but didnt get any reply from you
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08:38:36
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<suneeth> hey hi
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08:38:45
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<suneeth> i mean this is saimanohar
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08:39:04
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<suneeth> i hope we got the slot from google for this project
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08:39:50
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<pascal`> the announcement will be made on the 26th afaik
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08:39:57
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<suneeth> just saw the update
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08:40:05
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<suneeth> ya i know that
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08:40:22
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<suneeth> but can you tell me how many proposals came for that project
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08:40:29
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<suneeth> if its fair to tell
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08:40:43
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<suneeth> just too worried about it
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08:41:07
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<pascal`> suneeth, unfortunately I can't say anything until the announcement is made
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08:41:16
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<suneeth> ok
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08:41:37
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<suneeth> thats fine
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08:41:42
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<suneeth> i know how it is
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08:42:19
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<pascal`> If you want to help out the OpenMRS community, keep working on tickets :)
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08:42:20
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<suneeth> hey now i am having all the more butterflies in my stomach
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08:42:31
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<suneeth> yes
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08:42:33
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<pascal`> It will also look good on your application next year ;)
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08:42:43
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<suneeth> my two tickets have been accepted
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08:42:55
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<suneeth> which means i didnt get through this year
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08:42:58
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<suneeth> :(
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08:43:14
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<suneeth> i have already worked on 3 tickets
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08:44:24
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<suneeth> i had high hopes with this one coz i had done the same kinda work before
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08:44:39
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<suneeth> its really heart breaking
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08:45:47
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<pascal`> no decision has been made yet suneeth, what makes you think you didn't get accepted?
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08:46:11
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<suneeth> no this is saimanohar you are talking to
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08:46:26
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<saimanohar> hi pascal
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08:46:36
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<saimanohar> me n suneeth were on the same pc
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08:47:05
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<pascal`> still, no decision has been made
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08:48:20
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<saimanohar> so please can i improve my proposal more so that you can review it again
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08:50:32
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<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
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08:50:42
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<saimanohar> 21st april is the last date
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08:51:15
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<pascal`> saimanohar, I liked your plan, but it lacks technical detail
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08:51:35
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<pascal`> saimanohar, add some technical/design ideas if you can
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08:51:49
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<saimanohar> ok
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08:51:59
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<saimanohar> i would change it a bit
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08:53:26
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<pascal`> saimanohar, also, think about some use cases... think about how the data capturer is going to enter data into the system
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08:53:55
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<pascal`> saimanohar, and think about how a clinician is going to use the captured data to make a diagnosis, think about the workflows etc.
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08:54:49
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<saimanohar> i have even installed regadb
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08:55:21
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<pascal`> saimanohar, yes we know :)
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08:55:53
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<saimanohar> ok i would think about all these parts n rectify my proposal
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08:56:05
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<pascal`> saimanohar, great
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<pascal`> hey rcrichton
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08:58:39
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<rcrichton> Hi pascal`
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<pascal`> o/ chopin
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<astelmashenko> hi all
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09:34:10
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<Echidna> hi
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<pascal`> hi astelmashenko
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10:10:05
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<pascal`> hi Echidna
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10:37:48
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<saimanohar> hey pascal
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10:37:54
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<saimanohar> u there
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10:48:57
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<saimanohar> need to ask something
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10:48:59
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<saimanohar> pascal
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<maveriick> !refer suneeth [tabcomplete]
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* 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
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<pascal`> hi saimanohar
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11:02:36
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<pascal`> saimanohar, you're not typing my nick correctly... it has a backtick (`) at the end... follow OpenMRSBot's instructions :)
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11:02:39
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<saimanohar> hey in that
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11:02:53
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<pascal`> saimanohar, if you dont type my nick correctly... I don't get notified of the message
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11:03:04
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<saimanohar> are we looking at all these features
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11:03:06
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<saimanohar> http://bioafrica.mrc.ac.za:8080/regadb-ui/RegaDB
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11:03:11
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<OpenMRSBot> <http://ln-s.net/5ok7> (at bioafrica.mrc.ac.za:8080)
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11:03:25
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<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
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<saimanohar> do we need all the four features in our module
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11:05:09
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<pascal`> saimanohar, it would be ideal to have all the features available
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11:05:15
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<pascal`> saimanohar, but we'll see how the time goes
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11:05:33
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<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.
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11:05:35
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<saimanohar> ok right now there is no documentation avaiable on the user guide of regadb
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11:06:30
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<pascal`> saimanohar, there should be some
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11:06:49
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<saimanohar> genomic data is one aspect of all the features provided
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11:07:07
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<saimanohar> i couldnt find any
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11:07:32
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<pascal`> saimanohar, yeah, the documentation does seem a bit thin
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11:07:55
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<pascal`> saimanohar, we're primarily interested in genomic data and it's use in the context of drug resistance prediction
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11:08:18
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<saimanohar> so i am unable to understand the input parameter it would require to generate muttation patterns
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11:08:18
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<pascal`> saimanohar, the module is going to be used as part of a research study by the medical research council (of South Africa) :)
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11:08:54
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<pascal`> saimanohar, the input is a pre-existing database of mutations
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11:09:24
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<pascal`> saimanohar, so the patient gets sequenced, and that is compared to a database to look for mutations
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11:09:46
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<saimanohar> so we need to anotate the patient
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11:10:57
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<pascal`> saimanohar, basically, we need a way to input the data (the sequence) from OpenMRS... and view whatever rega produces
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11:10:57
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<saimanohar> from the openmrs UI to the regadb
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11:11:09
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<saimanohar> ya got that
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11:11:44
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<saimanohar> just looking for the way the sequence should be passed
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11:12:10
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<pascal`> saimanohar, it will probably be in the form of a FASTA file, or something similar
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11:12:33
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<pascal`> saimanohar, in terms of the features, it's the analysis services we're really interested in
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11:12:41
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<pascal`> saimanohar, http://en.wikipedia.org/wiki/FASTA
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11:12:52
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<saimanohar> do we store the analysis in openmrs db too
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11:13:03
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<pascal`> saimanohar, or rather, http://en.wikipedia.org/wiki/FASTA_format
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11:13:18
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<pascal`> saimanohar, that's up to how you want to design it :)
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11:13:31
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<pascal`> saimanohar, i would use the rega infrastructure that's there already if it were up to me
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11:13:32
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<saimanohar> ya would look into it now
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11:13:55
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<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
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<saimanohar> ya i would do that now see it in my local db
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11:14:31
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<pascal`> saimanohar, well, it's not necessarily the visuals we're interested in
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11:14:54
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<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.
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11:16:37
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<saimanohar> ok
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11:16:50
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<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
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11:16:56
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<saimanohar> so even a tabular summary would do instead of the visual
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11:17:00
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<pascal`> saimanohar, make sense?
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11:17:09
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<saimanohar> perfectly
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11:17:16
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<pascal`> saimanohar, great
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11:17:58
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<saimanohar> should i include this in my proposal to make it look good
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11:18:07
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<saimanohar> cheating no ;)
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11:18:57
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<pascal`> saimanohar, technical/design thoughts will help... as well as understanding the workflow, yes
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11:19:11
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<pascal`> saimanohar, do you have access to the rega source?
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11:20:27
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<saimanohar> yes
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<pascal`> hey bwolfe
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11:53:42
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<saimanohar> @pascal' can u give me a day i would definately come up with a workflow n technicalities
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11:54:22
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<bwolfe> hi pascal`
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11:54:27
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<pascal`> sure saimanohar
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11:55:00
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<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 (=
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11:55:32
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<pascal`> (without the @)
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<saimanohar> pascal`:
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12:07:26
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<saimanohar> now i got ur name right
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12:10:37
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<pascal`> heh, yeah
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12:13:44
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<saimanohar> does openmrs have any documentationregarding regadb
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12:15:17
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<saimanohar> pascal`: coz we first need to analyize what i/p does rega db require to Drug Resistance interpretation
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12:15:40
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<saimanohar> then only we can chalk out what all inputs we require from the openmrs
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<Ladyfa> hi
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<Ladyfa> hi downeym
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13:31:32
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<downeym> bonsoir Ladyfa
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13:33:03
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<downeym> et slt a tous ;)
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13:33:39
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<Ladyfa> tu aimes vraiment le francais ;)
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<chopin_> does every sentence in french have a winky face after it?
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<downeym> oui bien sur ;)
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<Ladyfa> haha
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<bwolfe> chopin: its the french period
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<chopin> heheh
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14:02:38
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<OpenMRSBot> Recent updates in the world of openmrs: OpenMRS Changesets: Changeset [13018]: Modified By Krishnaja <http://dev.openmrs.org/changeset/13018>
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14:10:49
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<downeym> hi lu
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<luzhuangwei> hi downeym
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<downeym> hi maveriick & firzhan
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<suneeth> hi wyclif
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<suneeth> hi wyclif
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<firzhan> downeym: Hi downeym
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<chopin> hi
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* chopin sees a lot of "hi"s today
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<bwolfe> hi
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<downeym> hi chopin
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<maveriick> hi downeym
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<wyclif> hey suneeth
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<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>
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<diptanuc> Hi
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<diptanuc> Is anyone maintaining a git repository of the openmrs codebase on github?
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15:38:24
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<downeym> not that i'm aware of - someone else may know otherwise
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<diptanuc> ok
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<diptanuc> Does the community plan to move into git from svn?
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15:41:37
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* downeym checks the archives
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<diptanuc> ok
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15:41:59
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<downeym> don't see any talk about moving the trunk to git ....
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<downeym> some people are using it for smaller related projects, though
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<diptanuc> i see
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<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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<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>
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<bwolfe> downeym: there are rumblings about git instead of svn...but its a big change
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<saimanohar> pascal`: u there
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<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
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<OpenMRSBot> <http://ln-s.net/5pRs> (at jose.med.kuleuven.be)
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<saimanohar> hey pascal`
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<saimanohar> need to discuss with you
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<bwolfe> saimanohar: he might be off to dinner. its about that time in SA
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<saimanohar> ok
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<saimanohar> is he usually back after dinner
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<suneeth> hey hi syhaas
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<suneeth> hi wyclif
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<syhaas> sup suneeth
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<suneeth> i hope you got my mail regarding the remarks module
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<syhaas> we did, thanx
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<bwolfe> saimanohar: no idea. I'm usually taking my afternoon nap by then ;-)
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<suneeth> syhaas: do you think i need to add some points to it
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<syhaas> some points?
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<syhaas> suneeth: what on earth do you mean, points?
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17:56:18
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<suneeth> i mean was the description sufficient or should i have mentioned the way i would implement too
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<syhaas> suneeth: your submission is sufficient
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<suneeth> thanks syhaas
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<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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<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>
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<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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* sgrannis likey
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<bwolfe> sgrannis: is there something specific that you likey, or do you just likey everything?
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* downeym likey bwolfe
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* bwolfe is creeped out
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<downeym> :D
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*** downeym is now known as Eyjafjallajokull
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<syhaas> isnt that the name of the volcano??
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<Eyjafjallajokull> no
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<Eyjafjallajokull> you're confusing me with Eyjafjallajökull
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<Eyjafjallajokull> :)
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<syhaas> haha, close: Eyjafjalla
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<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>
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<Eyjafjallajokull> !refer syhaas [tabcomplete]
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20:08:31
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* 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!
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20:08:32
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* chopin is drowning in formentry hell
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* Eyjafjallajokull cancels chopin's work
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* chopin wishes that worked
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* Eyjafjallajokull strands chopin in the airport
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<Eyjafjallajokull> :)
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<sgrannis> bwolfe -- not everything.
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<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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<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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<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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<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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<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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