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In our source system for medication orders the quantity is captured as a rather unconstrained text field.
This raises some challenges with making best use of the strictly numeric RX_QUANTITY field i…
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Release new pcornet_med ontology with pcori_ndc and pcori_rxnorm already populated, to obviate the need to run my complex script that fills these in. Perhaps also release a simpler propagation script …
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My config:
```
LOAD database
FROM mysql://dev:dev@localhost/main
INTO postgresql://dev@localhost/main
WITH include no drop, create tables, no truncate, create indexes, reset sequences, fore…
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When checkboxes used and data copied from left record to right record, formatting is not applied to "updated" part (e.g. date formatting or code formattng)
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The CDM page 68 indicates in the "Additional Notes" section that "If a medication cannot be mapped it should still be present".
My interpretation of this sentence is along the lines of "If the EHR is…
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When I submit a very long text query to NCBO annotator service using Python3.5 on urllib3, it gives me this error.
> exceptions.MaxRetryError: HTTPConnectionPool(host='data.bioontology.org', port=80…
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We should speculatively log the `.json()` value of response bodies to make the ES logs more useful. (e.g. a body and, when no parse failure, bodyJson property)?
This would help us do things like ask…
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When I submit a very long text query to NCBO annotator service using Python3.5 on urllib3, it gives me this error.
> exceptions.MaxRetryError: HTTPConnectionPool(host='data.bioontology.org', port=80…
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I'm not getting much value out of the concept_sysnonym table for mapping drugs. One important example: The synonym 'Paracetamol' is not linked to the standard ingredient 'Acetaminophen'. I know this i…
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Comment by Charlie
One thing to note: I was looking at Toan/Ritu/PEDSnet’s transformation code for dispensed drugs, and my read is that you’ll end up with correct NDCs iff the source_concept_ids you’…