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the spreadsheet and give some feedback.
DC: Hubert, Nathan flip coins to load into Babel
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? Preferably your harmonizing with the existing work and that
the final approach is scriptable from the UMLS and doesn't require
curation.
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:91#comment:26.
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in the agreed-upon format to the GPC Honest Broker.
''The status of that document isn't entirely clear, but planning
conservatively...''
This implies deploying the data builder (#87) at all participating sites.
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:
Laurel,
In tomorrow's teleconference, please poll sites for their guestimate of
when they can have the data builder deployed for use in the breast cancer
survey.
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AUI path of A6321000.A1582
Please see attached the code and also cc'ing Tim Meyer from our team in
case of questions related to the code.
Let me know if you need anything else.
Thanks,
Supreet
}}}
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this?:
HH will point to documentation and will experimentally flip the server
side conversion flag to measure any performance difference
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for this tool down the line for other cohorts, we can certainly take
on that project. Knowing that will help inform our work prioritization.
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cancer survey. And yes, that's only the first of many planned uses of the
technique; see DataSecurity#providing-data. So please do provide an
estimate for deployment at CMH.
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Batch modification to #119, #169 by dconnolly:
priority to minor
Comment:
clarifying priorities for milestone:bc-survey-cohort-def
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of the unit code conversion is in the CRC Design
document, section 3.2.2. I will attach the pages to this ticket, and
attach some timing results as well.
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the timing experiment
as well.
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he's using.
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/UNMC: will poll users by next week
b. Bonnie/UMN: will poll users
c. other sites are encouraged to do likewise
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CDM_transform.sql] we used for the ETL Annotated Data Dictionary. Instead
of using the `path_map` file to map from PCORI to HERON terms, it could
just query the PCORI hierarchy directly.
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@09:01:26
[1.7 secs]
Compute Time: 1 secs
Number of patients for HISPANIC@09:01:26
patient_count: 721
}}}
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that exist
in the heron code base. I've been conservative in adding in indexes as we
go along.
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in parallel with version 2.0 but has
a longer timeline until release.
Again, thank you for your valuable contributions.
Regards,
Jenny
Jenny C. Ibarra, RN, MSN
Project Leader
Duke Clinical Research Institute
919.236.3291
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| Blocked By:
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---+
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* milestone: data-quality2 = data-domains2
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* cc: gpc-dev@… (added)
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* status: reopened = assigned
Comment:
Russ to escalate.
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populations when looking at these sorts
of things?
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on [https://bitbucket.org/njgraham/gpc-pcornet-cdm gpc-
pcornet-cdm] but compatible with Microsoft SQL Server.
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correspondence to the GPC PopMedNet Administrators
to guide this process forward (likely 2/3/15 or so).
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correspondence to the GPC PopMedNet Administrators
to guide this process forward (likely 2/3/15 or so).
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Administrators
to guide this process forward (likely 2/3/15 or so).
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* resolution: fixed =
Comment:
Forgot to reopen this, as it's active.
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Administrators
to guide this process forward (likely 2/3/15 or so).
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. We're
investigating.
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By:
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Comment (by huhickman):
That is the code we use for BMI at UNMC.
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does that sound?
And, Dan, Phillip, would you recommend putting this fact into the
`\\GPC\LP29694-4\LP30604-0\LP29703-3\LP7775-2\59576-9\` path?
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|
-+-
Changes (by dconnolly):
* priority: major = minor
* milestone: morning-star = drn-basic-query
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-vm-dep), but perhaps your configuration is different?
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into production mode and specify the data_builder account
instead for this access. Thanks.
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}}}
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are blank, will that interfere
with your being able to extract our data for the purposes of the breast
cancer cohort selection?
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not 100% sure.
Thank you.
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run the query manually, then
convert it to sqlite. Hence, hence our job and variable tables are empty.
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: = fixed
Comment:
Done: KUMC, WISC, UNMC, UTHSCSA, UTSW
tracked as separate tickets:
[[TicketQuery(id=217|218|168|205)]]
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closing #202.
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and can generate sqlite files - so
for UNMC, we won't be going to the interim route.
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up but we're operational enough to generate
files.
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using the data mart client. Making ticket as
closed.
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.
The BC group is reviewing the files ...
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accepted tickets; I am
completely swapped out. Maybe the most useful thing to do is declare
victory and re-open this if we find reason to do more work on it?
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:
Keywords:| Blocked By: 209
Blocking:|
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demographics (age, gender, race,
ethnicity, living situation, occupation, years of education) and
functional burden as identified by survey response (clinical diagnosis,
and functional status).
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Comment (by gkowalski):
Workplan I received is attached to this ticket ...
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,
When we submit our results who has access to them ? To
members of the GPC , or you . ? I ask as it appears to have been
submitted by you.
G
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for ALS cohort will
stop for now to focus on the Breast cancer cohort.
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-+
Changes (by campbell):
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Comment:
Nate
We are testing out our final
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the METADATAXML
into the common GPC lab tests metadata that we agreed to share across the
network? or have you already created metadataxml for the release?
Jim
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institution's Honest Broker. You
will upload the file to the survey.
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of the output?
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demographics
terminology and diagnosis modifiers to central desktop under the GPC i2b2
metadata folder. Could you load it onto Babel for me?
also Tuesday, December 23, 2014 1:36 PM
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Batch modification to #106, #31, #132, #159 by dconnolly:
milestone to cohort-char1
Comment:
phasing out milestone:data-agg1
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in the near
term? Maybe sites that want these can just deal with them locally.
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, I think it's worthwhile to pursue Laurel's suggestion above.
Perhaps plus PR and NP for primary and nonprimary?
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before end of phase 1 assessing data quality by site. CDM V2
compliance will not be required before and of phase 1.
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Susan Morrison
susan.morri...@utsouthwestern.edu
Patrick Lenon
prle...@uwcarbone.wisc.edu
Jacquie Bohne
bohne.jacquel...@mcrf.mfldclin.edu
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Batch modification to #182, #201 by dconnolly:
milestone to data-domains3
Comment:
moving these to data-domains3 in the process of closing drn-basic-query
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i2b2metadata2.cpt into
heron_terms. We commented that out and are instead loading
blueheronmetadata.umls_cpt, which was created by umls_cpt_concepts.sql
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By:
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Comment (by susandm):
UTSW - I have completed this for UTSW - Susan
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, FI) would address the immediate need?
AD=Admitting
DI=Discharge
FI=Final
IN=Interim
NI=No information
UN=Unknown
OT=Other
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Greater Plains Network
/ticket/238#comment:6
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Comment (by bos):
Uploaded new UTHSCSA file with 560 facts
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Ticket URL:
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Greater Plains Network
)
* cc: jsteinmetz (added)
* owner: badagarla = jsteinmetz
Comment:
''I promoted the issue with living situation etc. (comment:31) to its own
ticket: #245.''
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gpc-informatics http://informatics.gpcnetwork.org
, and run the lineage tool to tell me that we
simply pull procedure_cd ultimately from clarity_eap.proc_code
in the clarity instance.
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Ticket URL:
http://informatics.gpcnetwork.org/trac/Project/ticket/243#comment:2
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\` with tooltip ** \ Vital Signs \ 39156-5: Body mass
index (bmi) [ratio]**.
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http://informatics.gpcnetwork.org/trac/Project/ticket/210#comment:17
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, we don't; not for 0380 central
nor 560 hospital.
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http://informatics.gpcnetwork.org/trac/Project/ticket/235#comment:16
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: data-domains2 = data-quality3
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Ticket URL:
http://informatics.gpcnetwork.org/trac/Project/ticket/240#comment:2
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://informatics.gpcnetwork.org/trac/Project/ticket/109#comment:28
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of 2015-03-05
11:31:21; it took a little digging and a kludge, but it's out of the
critical path, for now.
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Ticket URL:
http://informatics.gpcnetwork.org/trac/Project/ticket/235#comment:17
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/235#comment:20
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