Timeline


and

Mar 24, 2015:

3:51 PM PCORnet GPC Site Visit Slidesv4.pptx attached to WikiStart by dconnolly
PCORI presentation slides from March 19 GPC site visit
2:09 AM HERONIndependentStudy edited by rwaitman
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2:06 AM HERONIndependentStudy edited by tmcmahon
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Mar 23, 2015:

5:01 PM Ticket #197 (REDCap data dictionary for ALS survey) reopened by dconnolly
looks like there's an updated data dictionary attached to #208

Mar 19, 2015:

11:09 PM StacyKeller edited by s335k516
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11:08 PM StacyKeller edited by s335k516
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11:07 PM StacyKeller edited by s335k516
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11:05 PM StacyKeller edited by s335k516
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11:03 PM StacyKeller edited by s335k516
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8:59 PM Ticket #148 (PopMedNet node at MCW) closed by gkowalski
fixed
5:23 PM fig3.svg attached to DataStandardization by dconnolly
5:22 PM fig2.svg attached to DataStandardization by dconnolly
5:22 PM fig1.svg attached to DataStandardization by dconnolly
5:15 PM Milestone drn-basic-query completed
This should involve satisfying the following PMO milestone: - 2.4: …
4:46 PM DataStandardization edited by dconnolly
SVG didn't work so well here; used … (diff)
4:38 PM DataStandardization edited by dconnolly
try SVG diagrams for OpenOffice? import (diff)

Mar 18, 2015:

10:47 PM Ticket #160 (reproducible GPC, CDM refresh at a critical mass of GPC sites (PMO ...) closed by dconnolly
fixed: Russ, John, How does DataStandardization#m2.4 work as a write-up? It …
10:41 PM DataStandardization edited by dconnolly
2.4 draft complete (diff)
10:16 PM ModelMashUp edited by dconnolly
SCILHS typo fix (diff)
10:04 PM DevTeams edited by dconnolly
stable section ids for MU, IU (diff)
9:57 PM DevTeams edited by dconnolly
prune top of page (diff)
9:54 PM DevTeams edited by dconnolly
-Mani (diff)
7:11 PM DataStandardization edited by dconnolly
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5:45 PM DataStandardization edited by dconnolly
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5:30 PM DataStandardization edited by dconnolly
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5:02 PM DataStandardization edited by dconnolly
layered metadata architecture diagram (diff)
3:20 PM DataStandardization edited by dconnolly
refs (diff)
3:10 PM DevTeams edited by ngraham
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2:19 PM Ticket #255 (Inefficient CDM ETL SQL causes Oracle to ran out of temp space building ...) closed by ngraham
fixed: Dan merged my pull request in …

Mar 17, 2015:

6:37 PM Ticket #221 (Weight and Health survey data request plan) closed by dconnolly
fixed: Alex confirmed the dependency graph looks reasonable in today's gpc-dev …
6:31 PM KeyGoalTracking edited by dconnolly
UIOWA has BMI %ile (diff)
5:06 PM Ticket #258 (Summary of breast cancer treatment) created by tmcmahon
Breast cancer group interested in this data for cohort characterization …
3:15 PM Ticket #257 (pg_dump in /usr/bin/ (default path) is outdated) closed by ngraham
wontfix: It looks like the right version is on the server - something like the …
3:04 PM Ticket #257 (pg_dump in /usr/bin/ (default path) is outdated) created by preeder
(Nathan reporting for Phillip) On Mar 16, 2015, at 12:17, Phillip Reeder …
1:27 PM Ticket #256 (Investigate capturing e-consent via e-signature) created by rwaitman
(Nathan reporting for Russ) In preparation for phase 2 application (goal …

Mar 16, 2015:

10:39 PM KeyGoalTracking edited by dconnolly
ALS survey -> Apr, Obesity -> May per RW @ PMO mtg (diff)
10:38 PM KeyGoalTracking edited by dconnolly
drop ext. agreement tracking for now (per SF @ PMO meeting) (diff)
8:32 PM Ticket #255 (Inefficient CDM ETL SQL causes Oracle to ran out of temp space building ...) created by dconnolly
On March 13, we tried to refresh our CDM ETL with recent design …
7:53 PM Ticket #254 (Weight and Health survey cohort: prepare contact information and begin ...) created by sschlacter
Collect reports of successful deployment of survey trackers (each site) …
7:47 PM Ticket #253 (obesity survey REDCap tracker and tools) created by bokov
Development of [https://bitbucket.org/bos_uthscsa/survey_tracker
7:44 PM Ticket #252 (collect test results of Weight and Height cohort selection queries from ...) created by bokov
Dry-run of query and report back counts; see #250, #251 for details …
7:40 PM Ticket #251 (Weight and Health survey i2b2 query (adult)) created by dconnolly
Query design seems to have gotten rolled into #254.
7:39 PM Ticket #250 (Weight and Health survey cohort i2b2 identification query (pediatric)) created by dconnolly
Query design seems to have gotten rolled into #254.
7:37 PM Ticket #249 (establish GPC Weight and Health survey protocol) created by dconnolly
7:27 PM Ticket #164 (PopMedNet node at UTHSCSA) closed by bos
fixed
5:37 PM Ticket #208 (Formulate ALS survey plan and test it at one site) reopened by dconnolly
Discussion with Bhargav reveals there's a meeting scheduled for Wed, 18 …
5:35 PM Ticket #248 (spreadsheet of ALS honest broker query results for import to REDCap) created by tmcmahon
How exactly should the honest brokers format the results of the ALS query …
5:26 PM Ticket #247 (i2b2 query to select initial ALS survey cohort) closed by dconnolly
fixed: I just created a query ALS Survey HB #247 [3-16-2015] …
4:35 PM Ticket #247 (i2b2 query to select initial ALS survey cohort) created by tmcmahon
In ticket:208#comment:5 we have: > Final Cohort should be: > > - Three …
3:35 PM SoftwareDev edited by dconnolly
move DataRepositoryManagement from future topics to nearby nav (diff)

Mar 12, 2015:

8:28 PM Ticket #110 (securely de-identify and re-identify patient data) reopened by dconnolly
John needs a write-up. I'll see what I can do.

Mar 11, 2015:

11:08 PM HERONIndependentStudy edited by rwaitman
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11:03 PM HERONIndependentStudy edited by rwaitman
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10:48 PM Ticket #235 (insufficient data to exclude prior cancer diagnoses) closed by dconnolly
fixed: Bingo. (re UNMC submission of 2015-03-11 17:44:21)
10:44 PM Ticket #246 (HERON misinterprets 560 Sequence Number – Hospital in cancer tumor ...) created by dconnolly
ref ticket:235#comment:2
8:54 PM Ticket #224 (distribution of breast cancer diagnoses by month shows insufficient data) closed by dconnolly
fixed: The submission from UNMC of 2015-03-11 14:00:11 seems to have a …
8:36 PM BuilderSaga edited by dconnolly
SEINE manuscript is now in the KUMC digital archive (diff)

Mar 10, 2015:

10:12 PM DataSecurity edited by dconnolly
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9:55 PM KeyGoalTracking edited by dconnolly
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9:52 PM KeyGoalTracking edited by dconnolly
BMI %ile update (diff)
9:43 PM Ticket #160 (reproducible GPC, CDM refresh at a critical mass of GPC sites (PMO ...) reopened by dconnolly
oh yeah; we owe a few paragraphs for PMO milestone 2.4
9:38 PM Ticket #160 (reproducible GPC, CDM refresh at a critical mass of GPC sites (PMO ...) closed by dconnolly
fixed: UTHSCSA, MCRF, and KUMC are using a shared approach to CDM ETL (#145). …
9:32 PM RepositoryUseCases edited by dconnolly
stable heading anchors (diff)
9:22 PM Ticket #145 (transform (ETL) GPC i2b2 data to PCORNet CDM) closed by dconnolly
fixed
9:05 PM Ticket #146 (map CDM-in-i2b2 to existing i2b2 data and/or ontologies) closed by dconnolly
fixed: While pcori_to_gpc.csv is expected to change as various parts of the GPC …
9:05 PM Ticket #120 (encounter terms; e.g. discharge disposition, encounter type, provider) closed by dconnolly
fixed: We (Nathan and I) extracted the CDM encounter terms and "rooted" them at …
6:35 PM Ticket #109 (represent PCORI CDM terminology as i2b2 metadata) closed by dconnolly
fixed: Finally found time to address the c_columndatatype='T' issue (in …
12:10 AM KeyGoalTracking edited by dconnolly
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12:01 AM Ticket #67 (Demographics ontology and value sets, e.g. age) closed by dconnolly
fixed: What's on babel as "GPC[PR]: Demographics" meets all the requirements I …

Mar 9, 2015:

11:51 PM Ticket #229 (Enrollment terms based on Catchment Area, encounters, etc.) closed by dconnolly
fixed: Based on recent discussion with Russ, I'm inclined to try the optimistic …
11:45 PM Ticket #186 (Querying age by numerical constraints) closed by dconnolly
fixed: On babel, we have \\GPC_TERMS\i2b2\Demographics\Age by Value\ This …
10:47 PM Milestone bc-tracker-wp2 completed
Major Project Management Tasks and Timeline for the Breast Cancer Cohort …
8:32 PM Ticket #204 (i2b2 query for underlying breast cancer study population) closed by dconnolly
fixed: A little testing suggests it's not feasible to get the dates to stick. I …
5:26 PM Ticket #230 (cannot interpret observation_fact.start_date in Breast Cancer data files) closed by dconnolly
fixed: recent data from UIOWA (e.g. 2015-03-05 11:31:21) addresses the last of …
4:44 PM Ticket #245 (living situation, occupation, and years of education for ALS analysis) created by badagarla
In section 5.0 Data management and case report forms of the protocol …

Mar 6, 2015:

10:08 PM Ticket #244 (Generate randomized BC patient sets) created by vleonardo
Using output of bc_qa methods, create a randomized file of eligible …

Mar 5, 2015:

5:45 PM Ticket #243 (GPC Procedure Ontology: CPT, HCPCS) created by rwaitman
For CDM ETL (#145), we need a shared GPC hierarchy to map to the …
5:41 PM Ticket #207 (breast cancer survey tracker REDCap project) closed by badagarla
fixed: The data dictionary for the tracker project is attached. Will reopen if …
5:40 PM Ticket #206 (breast cancer survey tracker: coordinating center requirements and review) closed by badagarla
fixed
4:13 PM Ticket #223 (variability in breast cancer data set terms) closed by dconnolly
fixed: This "patching" approach is a bit fragile, but it seems to be working for …
12:02 AM Ticket #222 (Lack of variable table in breast cancer data sets) closed by dconnolly
fixed: Yes, this is addressed in the data from MCW of 2015-03-04 11:10:09.

Mar 4, 2015:

9:58 PM HERONIndependentStudy edited by rwaitman
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9:57 PM HERONIndependentStudy edited by rwaitman
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3:42 PM KeyGoalTracking edited by hweedman
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Mar 3, 2015:

7:16 PM KeyGoalTracking edited by dconnolly
UIOWA ALS Redcap link (diff)
7:02 PM KeyGoalTracking edited by dconnolly
ALS redcap at nearly all sites; let's track common CDM build too (diff)
4:00 PM Ticket #235 (insufficient data to exclude prior cancer diagnoses) reopened by dconnolly
Actually, in a way, the i2b2 query _is_ looking for all prior diagnosis: …
3:07 PM Ticket #242 (CDM V2 SNOMED CT Conditions compliance) created by campbell
CDM V2 requires deployment of patient problem list and related patient …
2:45 PM Ticket #241 (CDM V2 Lab LOINC Standardization) created by campbell
CDM V2 requires a subset of lab data be available in the Common Data …

Mar 2, 2015:

8:55 PM Ticket #240 (Data Characterization queries for phase 1 CDM V1 compliance) created by campbell
At DSSNI meeting 3/2/15 Jeff Brown reported on plan for assessing CDRN …
7:17 PM GPC - SOPs.pdf attached to GovernanceMaterials by sfennel
GPC SOPs (1-12)
3:27 PM Ticket #239 (WISC cancer tumor registry terms and counts not available on GPC term ...) reopened by dconnolly
This ticket is about the availability of the WISC tumor registry terms on …
2:19 PM Ticket #239 (WISC cancer tumor registry terms and counts not available on GPC term ...) closed by mish
fixed

Feb 28, 2015:

12:49 AM Ticket #239 (WISC cancer tumor registry terms and counts not available on GPC term ...) created by dconnolly
see also KeyGoalTracking#bc-survey promoted to its own ticket from …
12:43 AM Ticket #231 (Analysis requires alignment of more than concept_path such as ...) closed by dconnolly
fixed: I'm able to reproduce Wendy's analysis; it doesn't rely on alignment …
12:39 AM Ticket #233 (Use of code names for analytics purposes) closed by dconnolly
invalid: Let's use #204 to track the set of query terms. As to how pick() works, …
12:30 AM Ticket #110 (securely de-identify and re-identify patient data) closed by dconnolly
fixed: I presume this is done at UIOWA too.
12:29 AM Ticket #235 (insufficient data to exclude prior cancer diagnoses) closed by dconnolly
fixed: We've come up with a work-around: - in case of multiple diagnoses, only …

Feb 27, 2015:

3:40 PM Ticket #230 (cannot interpret observation_fact.start_date in Breast Cancer data files) reopened by dconnolly
Prakash, The recent submission from UIOWA (2015-02-24 15:41:54) has dates …

Feb 26, 2015:

7:41 PM Ticket #238 (Q1 2015 QA Query) created by mish
The quality query for March needs to be developed and tested. It should …
5:11 PM Ticket #204 (i2b2 query for underlying breast cancer study population) reopened by dconnolly
TM to update the query on Babel to include dates (per GPC BC Research …

Feb 25, 2015:

10:54 PM JasminNwachokorProject edited by jnwachokor
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7:03 PM HERONIndependentStudy edited by rwaitman
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7:02 PM HERONIndependentStudy edited by rwaitman
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4:57 PM Ticket #237 (GPC to PCORNet CDM ETL uses concept_cd for certain values CDM fields (e.g. ...) created by dconnolly
In #145, we wrote software …
3:52 PM Ticket #163 (PopMedNet node at UNMC) closed by mikemunns
fixed: Ashok has completed this.

Feb 24, 2015:

8:43 PM DevTeams edited by bokov
(diff)
5:10 PM Ticket #236 (Missing drug forms in GPC medication hierarchy (e.g. Acetylcysteine)) created by preeder
Nathan reporting for preeder: …
4:15 PM Ticket #235 (insufficient data to exclude prior cancer diagnoses) created by bchrischilles
Sequence number was not submitted by most sites. The data request query …
4:07 PM Ticket #234 (Alignment of NAACCR Abridged query terms, e.g. 0240 Date of Birth) closed by dconnolly
fixed: I went with the "Support either term when processing data files" option. …

Feb 23, 2015:

2:32 PM Ticket #157 (CDM 2.x review: outpatient medication dispense etc.) closed by dconnolly
fixed: Campbell writes Saturday, February 21, 2015 5:28 PM: > ... In total I …
12:24 AM Ticket #234 (Alignment of NAACCR Abridged query terms, e.g. 0240 Date of Birth) created by dconnolly
The concept paths for the abridged terms and the unabridged terms are …
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