Hi everyone, Below find the current agenda for the 17 July GPC-DEV call<https://docs.google.com/document/d/1Ls0l_VV3szqmf4IS36avuUaOgp2abbHTUs8rAp_CStY/edit> at 11:00 a.m. Central. UIOWA will be our scribe. Jim Campbell will be providing a brief demo.
Meeting Link<https://urldefense.proofpoint.com/v2/url?u=https-3A__global.gotomeeting.com_meeting_join_817393381&d=BQIFAw&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrbqse0CnDMUgS4P3-3HOTSAwE8Vfvoc1Wm0NCYFbuU-_5&m=YqOmNYSvieTmk4BfhPHdqgpcpVMkTHMmtii1mZRq4qQ&s=Sq-3O1mJgoZo1B0o_01hnDpPvk_8UGFZBwNBzRAIEHI&e=> 571-317-3131, Access Code: 817-393-381 Audio PIN: Shown after joining the meeting Meeting ID: 817-393-381 Thanks, Laurel -- 1. Convene, take roll, review records and plan next meeting(s) a. 11:00am Central Time. Meeting ID and access code: 817-393-381<https://global.gotomeeting.com/meeting/join/817393381>; call +1 (571) 317-3131 b. Roll; comments on the agenda? (ref SoftwareDev#tracking<https://informatics.gpcnetwork.org/trac/Project/wiki/SoftwareDev#tracking>) Reminder - put site after your name in GoToMeeting preferences i. all 12 GPC DevTeams<https://informatics.gpcnetwork.org/trac/Project/wiki/DevTeams> represented? KUMC, CMH, UIOWA, WISC, MCW, MCRI, UMN, UNMC, UTHSCSA, UTSW, MU, IU, Utah ii. Cancer RCR project sites? UFL, VUMC, MUSC iii. Today's scribe: Nick/Iowa per 10 July iv. GPC queries to discuss? Sickle Cell, IBT, LSS, others? c. Comments on last week’s notes? (#12<https://informatics.gpcnetwork.org/trac/Project/ticket/12>) Recent tickets opened/closed<https://informatics.gpcnetwork.org/trac/Project/timeline> - FYI (i.e. not intended for discussion) i. #687 KUMC GROUSE integration for CancerRCR Aim 3:.. Closed d. Next meeting(s): 24 July - Utah? WISC? i. Note scribe rotation appendix<https://docs.google.com/document/d/1ttXUveymyAZ9Hs0c84LXPjgHgz1bJ2IOaytuN3uJHjE/edit#heading=h.7048noacdrce> 2. milestone:cancer-rcr-1<https://informatics.gpcnetwork.org/trac/Project/milestone/cancer-rcr-1> a. Brian regrets 3. RCR - Aim 3 cancer-rcr-3<https://informatics.gpcnetwork.org/trac/Project/milestone/cancer-rcr-3> / Grouse-3 a. Status of RCR aim 3 Data Submissions<https://informatics.gpcnetwork.org/trac/Project/wiki/GROUSE?version=56> by site i. #693<https://informatics.gpcnetwork.org/trac/Project/ticket/693> UIOWA: owner: KUMC ii. #695<https://informatics.gpcnetwork.org/trac/Project/ticket/695> UNMC 1. CDM patient_num_hash - not consistent in old and new version 2. Lav and Yesh working through this. iii. #696<https://informatics.gpcnetwork.org/trac/Project/ticket/696> MCRI: received Jun 12; Daryl @ KUMC “having some difficulty reading the sas files” Jun 27 iv. #697<https://informatics.gpcnetwork.org/trac/Project/ticket/697> MU: Lav @ KUMC doing quality checks v. #698<https://informatics.gpcnetwork.org/trac/Project/ticket/698> UTSW: owner: KUMC vi. #699<https://informatics.gpcnetwork.org/trac/Project/ticket/699> MCW: owner: KUMC; Received crosswalk with date_off(date_shift) Jun 25. b. #677<https://informatics.gpcnetwork.org/trac/Project/ticket/677> Develop and test Aim 3 SAS code <https://informatics.gpcnetwork.org/trac/Project/ticket/677>Ref: Using GROUSE for Analysis<https://docs.google.com/presentation/d/1scQ5KfSTMIoBwgPu0-_o8-Gik24jlCk-i9ix2ErcgNo/edit> slides: Aim 3 framework, status<https://docs.google.com/presentation/d/1scQ5KfSTMIoBwgPu0-_o8-Gik24jlCk-i9ix2ErcgNo/edit#slide=id.g37ca31954b_1_10> i. ETA July 12? 4. Pilot Award: Brimhall - check-in about datasets a. Marshfield - missing times; new file submitted 7/16. i. Asked Laura for clarification if anything else (panel names, etc.) was needed. Response that it’s nice to have, but not in scope. b. Nebraska - ? 5. milestone:text-notes-1<https://informatics.gpcnetwork.org/trac/Project/milestone/text-notes-1> De-identification a. Nothing new based on Trac? 6. milestone:snow-shrine-2<https://informatics.gpcnetwork.org/trac/Project/milestone/snow-shrine-2> , milestone:snow-shrine-3<https://informatics.gpcnetwork.org/trac/Project/milestone/snow-shrine-3> a. #411 - Align SNOW SHRINE terminology with ARCH and ACT ontology for interoperation of query<https://informatics.gpcnetwork.org/trac/Project/ticket/411> - Jim Campbell provided query XML b. Demo by Jim Campbell c. SNOW SHRINE metadata published at https://www.unmc.edu/pathology/informatics/tdc 7. PCORnet 2.0/PCRF a. PCRF Kick-off & Planning call on Friday, July 20th from 2:00-4:00 ET. i. Will include 9 networks b. “PCRF will also begin to negotiate with each network individually to set clear performance goals to ensure that GPC is meeting the highest PCORnet 2.0 expectations for participation, quality and efficiency. This will include establishing performance expectations with consequences, revising your overall network and subaward budgets and for some networks, removing participating institution(s).” 8. PCORnet CDM v4.1 (milestone:pcornet-cdm-4<https://informatics.gpcnetwork.org/trac/Project/milestone/pcornet-cdm-4> due July 13) a. Metadata Transparency Report i. Based on Cycle 4, Refresh 2 ii. Shared with PIs… can this be posted? iii. Comments / concerns / feedback from sites on the data curation? b. Data Curation Cycle 5 (Distributed 7/2; Due 8/6) CDM v4.1 i. Updated CDM, parseable file & value set appendix on iMeet<http://r20.rs6.net/tn.jsp?f=0010dYIDkJmRA9Dm1IV13MKlEVhmvoOYfGLPR_M9lq1sxTuKPZpHwWLiQpyKLjxD9vjxWjS1-NeYwCFNe7w3ZSHEerZIIbGrnB01MCreRf7GeECV8kGKXoAAOJuPeupg0sikpbzR9WqzfQ0cM5adnI2silcIFAqJTHOXQE9iXpryQBqMCCgc7NFuMPyWTf4I9n2wc2UAo83J6RnxykOVb0SMMbz3pRS4bzOUHadMeejYksl3TVrWWdSC7hjIfaB2TNturEziTlIG_70LcEOWjxtx4rKxKjTSN_fIdMh9JB4GHyRYC3iuA3AUQCxLQy3ENefixSXdd8Bdb7tmw93AybsHDH33YikbSjcnVZgQYIYK1gVEc_x6rFU1r4QDlPILIsb9AYjU7G9DiAR1bpW9Q9Y1o-eWvG-SBEsfAPdcStKIjpbo9AAJypxrpuL058lDnQKZ2qh_Ar7BbKGv9ydaf2lJ_WsMIHmsG2S3HgsoLJfWcleabILmlmtUX0FGkRKO0ZC3ZofRCgrXlA6QRffNvKIitp3QLJSyh3uprBRDX5Re0GHgFUvArzgUK_EW5ivX-6xg-QxG9N0opzbrmhzd7FCepLqX-2W6rX-&c=v5Tmvv0IlvV1fKqJgLi-wHG0X_lxiypnO2BYVC8nSo1eSHxwILjFZA==&ch=TroRFmFcbHRAokHFm54-F8-4lSaZRwBY9QNY1GQRXimUg8KibZmNdg==> ii. 13 business days until the due date. c. KUMC CDM v4.1 Code shared 7/6 by James Gaupp<http://listserv.kumc.edu/pipermail/gpc-dev/2018q3/004725.html> i. https://github.com/kumc-bmi/heron/tree/insurance_and_payer_4687<https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_kumc-2Dbmi_heron_tree_insurance-5Fand-5Fpayer-5F4687&d=DwMFAg&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrboZc0kb2NWGliRjTa4b3xxXo7HiAVoZaxWlIgfPM_ia9&m=ymTn_ryxqUAIF2yFFUCxoOGTOmHLw52zvqsBkcN0yjk&s=KO-QSJf7P5jEZKDjT2MqNHGWhag-wvhCljSxOT5eSMw&e=> ii. Phillip will look at more this week... d. Status of progress by site i. KUMC - 1. 7/3 - https://github.com/kumc-bmi/i2p-transform Latest commit 31bb355<https://github.com/kumc-bmi/i2p-transform/commit/31bb355ed59a715202c5a4ff8b23489ccd56ad3f> 13 days ago James Gaupp <catec...@kumc.edu<mailto:catec...@kumc.edu>> please cc gpc-dev@listserv.kumc.edu<mailto:gpc-dev@listserv.kumc.edu>) 2. 7/10 - Data not loaded yet. This month’s i2b2 refresh not completed yet. Some concern about the timeline. ii. CMH - n/a iii. UIOWA - 1. 7/10 - Hoping to have first run by the end of this week iv. WISC - 1. Will likely not be complete by 8/6. 2. 7/10 - No updates. Coming along slowly. Some of the fields will be missing. Will look into August 6 due date doability. Catching up from Tom’s departure. v. MCW - 1. 7/10 - Still on track for July 20 vi. Marshfield - 1. 7/10 -Starting to generate the flat files. Hoping to kick off package this week vii. UMN - 1. 7/10 - Hoping to kick off package this week viii. UNMC - 1. 7/10 - Operating off a month old load of i2b2. Should be in position to run the package within the week. a. Phillip UTSW - Can you share the definition file? i. Laura (UTHSCSA) can share file which connects to Oracle DB ix. UTHSCSA - 1. 7/10 - Working on the CDM 4.1. SAS running currently. x. UTSW - 1. 7/10 - No updates. xi. MU - 1. 7/10 - attempting to run i2p-transform; discussed performance/processing time for demographics table xii. IU - 1. 7/10 - Got the schema, loaded demographics, loading encounters now. The person who ran the data curation is gone. Looking to replace, unsure if this will affect mid July timeframe. xiii. Utah - 1. 7/10 - No one on call. ______________________________________________________________________ The contents of this message may contain private, protected and/or privileged information. If you received this message in error, you should destroy the e-mail message and any attachments or copies, and you are prohibited from retaining, distributing, disclosing or using any information contained within. Please contact the sender and advise of the erroneous delivery by return e-mail or telephone. Thank you for your cooperation.
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