What else for tomorrow?
* gpc-dev 18 Oct shared
notes<https://docs.google.com/document/d/1_Cv0kBsplaOMJ-kNZVmNIwq53IhfQLj5EjLVkcU-BKo/edit>;
scribe: WISC
current snapshot:
________________________________
1. Convene, take roll, review records and plan next meeting
* Meeting ID and access code:
817-393-381<https://global.gotomeeting.com/meeting/join/817393381>; call +1
(571) 317-3131
* roll: all 12
DevTeams<https://informatics.gpcnetwork.org/trac/Project/wiki/DevTeams>
represented? KUMC, CMH, UIOWA, WISC, MCW, MCRF, UMN, UNMC, UTHSCSA, UTSW, MU, IU
Reminder - put institution after your name in GoToMeeting preferences
* today's scribe: WISC
* comments on the agenda? On last week’s notes? No.
(#12<https://informatics.gpcnetwork.org/trac/Project/ticket/12>)
Last week’s notes should show regrets from WISC.
Recent tickets
opened/closed<https://informatics.gpcnetwork.org/trac/Project/timeline> - FYI
(i.e. not intended for discussion)
* #496 (integrate i2p-transform with HERON ETL meds (prescribing))
closed<https://informatics.gpcnetwork.org/trac/Project/ticket/496#comment:18>
Aug 15 design confirmed
* Next Meeting: 25 Oct; scribe: CMH?
Note LRU
schedule<https://informatics.gpcnetwork.org/trac/Project/ticket/12#comment:92>,
which nominates CMH, UTSW …
2.
Milestone:cdm-refresh6<https://informatics.gpcnetwork.org/trac/Project/milestone/cdm-refresh6>
* #530<https://informatics.gpcnetwork.org/trac/Project/ticket/530> specs
(SAS code) for Cycle 2 of PCORnet Data Characterization
<https://informatics.gpcnetwork.org/trac/Project/ticket/530>“The beta testing
went well at KUMC. The issues in our data that it turned up were…”
* CDM 3.1 review requested by DRN OC forum
3.
Milestone:cohort-char-bc-db<https://informatics.gpcnetwork.org/trac/Project/milestone/cohort-char-bc-db>
- due 24 Oct
#297<https://informatics.gpcnetwork.org/trac/Project/ticket/297>: Site status,
issues
* KUMC - done with tumor, med exposure
#493<https://informatics.gpcnetwork.org/trac/Project/ticket/493> Additional
cases<https://informatics.gpcnetwork.org/trac/Project/ticket/493> - update
diagnoses, procedures
* Reminder from #448:
REDCap survey: diagnoses and procedures for consented Breast Cancer Study
patients<https://redcap.gpcnetwork.org/surveys/?s=EEF8DKCA4T>
* UTSW - ETA ???
#493<https://informatics.gpcnetwork.org/trac/Project/ticket/493> Additional
cases<https://informatics.gpcnetwork.org/trac/Project/ticket/493> - update
diagnoses, procedures
* UIOWA - ETA Thursday 10/13 - new best guess?
#493<https://informatics.gpcnetwork.org/trac/Project/ticket/493> Additional
cases<https://informatics.gpcnetwork.org/trac/Project/ticket/493> - update
diagnoses, procedures
* UMN - ETA Friday 10/14
* #493<https://informatics.gpcnetwork.org/trac/Project/ticket/493>
Additional cases<https://informatics.gpcnetwork.org/trac/Project/ticket/493> -
update diagnoses, procedures done 4 Oct.
* tumor file uploaded
* ERROR: Illegal use of 'redcap_data_access_group' fixed in
rc_codebook.zip<https://github.com/kumc-bmi/bc_qa/archive/rc_codebook.zip> rev
a72e52a
* #513 (~3% missing data due to opt-out at UMN)
closed<https://informatics.gpcnetwork.org/trac/Project/ticket/513#comment:17>
* #480 Missing morphology
values<https://informatics.gpcnetwork.org/trac/Project/ticket/480> fixed for UMN
* Medication exposure uploaded
* “what constitutes a valid RxCUI as far as these imports go?”
“The relevant RxCUIs are the direct children of the VA classes that descend
from ...” --
ticket:360#comment:10<https://informatics.gpcnetwork.org/trac/Project/ticket/360#comment:10>
* UNMC - ETA Friday 10/14.
* #533 (code 8 not a valid category for v59_690_rx_hospradiation)
closed<https://informatics.gpcnetwork.org/trac/Project/ticket/533#comment:1>
* #466 duplicate tumor records: same subject, sequence
number<https://informatics.gpcnetwork.org/trac/Project/ticket/466> re-opened
* Missing 2 subjects from crosswalk?
* Meds done (modulo 2 subjects?)
List of RxCUI's updated in REDCap data dictionary
ticket:360#comment:10<https://informatics.gpcnetwork.org/trac/Project/ticket/360#comment:10>;
ref
rx_choices.txt<https://github.com/kumc-bmi/bc_qa/blob/rc_codebook/bc2_collect/rx_choices.txt>.
* #480 Missing morphology
values<https://informatics.gpcnetwork.org/trac/Project/ticket/480>
* “We’re missing NAACCR folder 15.” from NAACCR_ETL
<https://informatics.gpcnetwork.org/trac/Project/wiki/NAACCR_ETL>#358 update
all sites to include summary of treatment etc.
<https://informatics.gpcnetwork.org/trac/Project/ticket/358>Possible
work-around:
#534<https://informatics.gpcnetwork.org/trac/Project/ticket/534> assemble
per-tumor BC data directly from NAACCR
record<https://informatics.gpcnetwork.org/trac/Project/ticket/534> created
* #535 (bc-emr-registry.py emits times with dates that conflict with
Breast Cancer ...)
created<https://informatics.gpcnetwork.org/trac/Project/ticket/535> minor -
foudn work-around
* WISC - ETA Tue 10/18
#493<https://informatics.gpcnetwork.org/trac/Project/ticket/493> Additional
cases<https://informatics.gpcnetwork.org/trac/Project/ticket/493> - update
diagnoses, procedures
* MCW - ETA Fri 10/21
#482<https://informatics.gpcnetwork.org/trac/Project/ticket/482> missing
surgery and examined nodes …
<https://informatics.gpcnetwork.org/trac/Project/ticket/482>#493<https://informatics.gpcnetwork.org/trac/Project/ticket/493>
Additional cases<https://informatics.gpcnetwork.org/trac/Project/ticket/493> -
update diagnoses, procedures
* MCRF - Friday 10/21
#471 MCRF tumor registry not available in NAACCR file format
<https://informatics.gpcnetwork.org/trac/Project/ticket/471>Possible
work-around:
#534<https://informatics.gpcnetwork.org/trac/Project/ticket/534> assemble
per-tumor BC data directly from NAACCR
record<https://informatics.gpcnetwork.org/trac/Project/ticket/534>
4.
Milestone:bariatric-study-data<https://informatics.gpcnetwork.org/trac/Project/milestone/bariatric-study-data>,
Milestone:antibiotic-study-data<https://informatics.gpcnetwork.org/trac/Project/milestone/antibiotic-study-data>
* #524<https://informatics.gpcnetwork.org/trac/Project/ticket/524>
Analytic Aim 1 individual-level query
<https://informatics.gpcnetwork.org/trac/Project/ticket/524>Due date was 12
Oct; extended somewhat (see note from Jim M. in #524)
relevant sites: UTSW, WISC (done), UIOWA, KUMC (done), Marshfield (done)
* UTSW Received the query on 10/6. Due 10/20. Planning to run this
week.
* UIOWA - Nick to follow up with Prakash for status
5.
Milestone:grouse-research-1<https://informatics.gpcnetwork.org/trac/Project/milestone/grouse-research-1>;
GROUSE<https://informatics.gpcnetwork.org/trac/Project/wiki/GROUSE>
* #526<https://informatics.gpcnetwork.org/trac/Project/ticket/526>
Finder file for GROUSE (KUMC)
<https://informatics.gpcnetwork.org/trac/Project/ticket/526>SC: to share the
query in https://github.com/kumc-bmi/heron
6. LEC<http://www.gpcnetwork.org/?q=2016LEC> recap
* Friday 8am: Claims Data Integration through
GROUSE<https://informatics.gpcnetwork.org/trac/Project/wiki/GROUSE> Project and
Engaging Investigators
* #377 (Social Security Death Master file: regular updates to GPC sites)
<https://informatics.gpcnetwork.org/trac/Project/ticket/377#comment:43>added
MCRF
* #509<https://informatics.gpcnetwork.org/trac/Project/ticket/509>
geocoding ETL: reproducible method with version-controlled code
<https://informatics.gpcnetwork.org/trac/Project/ticket/509>“At the LEC, Tim
went over the materials with me, including some recently added documentation. I
took some photos to jog my memory”
7. #459<https://informatics.gpcnetwork.org/trac/Project/ticket/459> How to
add GPC sites to SNOW SHRINE
network?<https://informatics.gpcnetwork.org/trac/Project/ticket/459>
* SNOW Shrine
Version<http://listserv.kumc.edu/pipermail/gpc-dev/2016q4/003262.html>
Phillip Reeder
Upgrade from 1.18.2 to 1.20.1 to match ACT and SCILHS networks?
________________________________
--
Dan
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