Formalize handling and reporting of input errors #128
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# Conflicts: # notebooks/KBG/KBG.ipynb
…d reporting to the upper level.
…or-errors # Conflicts: # src/genophenocorr/preprocessing/_phenopacket.py
ielis
changed the title
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@lnrekerle please have a look, please check the notebooks as we discussed, and give it a 👍 if looks good. |
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Jan 16, 2024
This was
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lnrekerle
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Jan 17, 2024
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Create an
AuditorAPI to formalize recording and reporting errors in the input data, while preserving the context of the hierarchical data.Auditoris implemented on the following APIs:PhenotypeCreatorPatientCreatorCohortCreatorNote, we introduce
CohortCreatoras the top-level API for creating cohort e.g. from a phenopacket folder. We provide a new convenience method for configuring the cohort creator:The errors and warnings are handled depending on the validation policy. See the docs for more info.
fixes #56
fixes #120
fixes #84
fixes #113
fixes #79