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Add cohort review columns for procedure in SD #1182

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merged 4 commits into from
Feb 28, 2025
Merged

Add cohort review columns for procedure in SD #1182

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0cc9d46
add review columns for procedure
dolbeew Feb 26, 2025
98b2a33
add missing attributes for condition and observation
dolbeew Feb 26, 2025
9e87c19
change dataset for indexing
dolbeew Feb 27, 2025
f9c4be6
revert change dataset for indexing
dolbeew Feb 27, 2025
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1 change: 1 addition & 0 deletions underlay/src/main/resources/config/datamapping/sd/entity/conditionOccurrence/entity.json
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Expand Up @@ -25,6 +25,7 @@
"displayFieldTableJoinFieldName": "concept_id"
}
},
{ "name": "condition_concept_id", "dataType": "INT64" },
{ "name": "standard_concept", "dataType": "STRING", "isSuppressedForExport": true },
{ "name": "start_date", "dataType": "TIMESTAMP", "valueFieldName": "condition_start_date" },
{ "name": "end_date", "dataType": "TIMESTAMP", "valueFieldName": "condition_end_date" },
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1 change: 1 addition & 0 deletions underlay/src/main/resources/config/datamapping/sd/entity/observationOccurrence/entity.json
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Expand Up @@ -19,6 +19,7 @@
"displayFieldTableJoinFieldName": "concept_id"
}
},
{ "name": "observation_concept_id", "dataType": "INT64" },
{ "name": "standard_concept", "dataType": "STRING", "isSuppressedForExport": true },
{ "name": "start_date", "dataType": "TIMESTAMP", "valueFieldName": "observation_date" },
{ "name": "value_as_string", "dataType": "STRING" },
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2 changes: 2 additions & 0 deletions underlay/src/main/resources/config/datamapping/sd/entity/procedureOccurrence/all.sql
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Expand Up @@ -4,6 +4,8 @@ SELECT
p.person_source_value,
po.procedure_concept_id,
pc.concept_name AS procedure_concept_name,
pc.concept_code AS procedure_concept_code,
(CASE WHEN pc.standard_concept IS NULL THEN 'Source' WHEN pc.standard_concept = 'S' THEN 'Standard' ELSE 'Unknown' END) AS standard_concept,
po.procedure_date,
po.procedure_source_value,
po.procedure_source_concept_id,
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9 changes: 9 additions & 0 deletions underlay/src/main/resources/config/datamapping/sd/entity/procedureOccurrence/entity.json
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Expand Up @@ -12,6 +12,15 @@
"displayFieldTableJoinFieldName": "concept_id"
}
},
{ "name": "procedure_concept_code", "dataType": "INT64", "valueFieldName": "procedure_concept_id", "displayFieldName": "procedure_concept_code",
"sourceQuery": {
"displayFieldName": "concept_code",
"displayFieldTable": "${omopDataset}.concept",
"displayFieldTableJoinFieldName": "concept_id"
}
},
{ "name": "procedure_concept_id", "dataType": "INT64" },
{ "name": "standard_concept", "dataType": "STRING", "isSuppressedForExport": true },
{ "name": "start_date", "dataType": "TIMESTAMP", "valueFieldName": "procedure_date" },
{ "name": "source_value", "dataType": "STRING", "valueFieldName": "procedure_source_value" },
{ "name": "source_criteria_id", "dataType": "INT64", "valueFieldName": "procedure_source_concept_id" },
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45 changes: 43 additions & 2 deletions underlay/src/main/resources/config/underlay/sd/ui.json
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Expand Up @@ -111,12 +111,53 @@
"columns": [
{
"key": "procedure",
"width": "100%",
"width": "20%",
"title": "Procedure name",
"sortable": true,
"filterable": true
},
{ "key": "date", "width": 200, "title": "Date", "sortable": true }
{
"key": "procedure_concept_code",
"width": "15%",
"title": "Code",
"sortable": true,
"filterable": true
},
{
"key": "procedure_concept_id",
"width": "15%",
"title": "Concept ID",
"sortable": true,
"filterable": true
},
{
"key": "standard_concept",
"width": "15%",
"title": "Standard/source",
"sortable": true,
"filterable": true
},
{
"key": "start_date",
"width": "10%",
"title": "Date",
"sortable": true,
"filterable": true
},
{
"key": "age_at_occurrence",
"width": "10%",
"title": "Age at event",
"sortable": true,
"filterable": true
},
{
"key": "visit_type",
"width": "15%",
"title": "Visit type",
"sortable": true,
"filterable": true
}
]
}
},
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