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tompollard / omopetl

Package for creating OMOP ETLs.
MIT License
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Added a function to create a UUID for each subject_id, and another fu… #15

Open rafgia opened 3 days ago

rafgia commented 3 days ago

…nction that returns 0 if the result of an if condition is NULL. The Transform class was updated with these new functions for the final mapping

rafgia commented 2 days ago

In the mappings.yaml file, for the person mapping, we have source_column: dob, but the patients table does not contain this column.

tompollard commented 2 days ago

In the mappings.yaml file, for the person mapping, we have source_column: dob, but the patients table does not contain this column.

Yes, sorry, I am working on this now. I updated the source CSV files, but I haven't yet written the mappings. I will open a new PR with the fix in 30 minutes or so...

tompollard commented 2 days ago

@rafgia, the following issue should now be resolved:

In the mappings.yaml file, for the person mapping, we have source_column: dob, but the patients table does not contain this column.

You will need to rebase on main to pull the fix into your branch.

tompollard commented 2 days ago

@rafgia do you want to drop over to my office to sort this out?