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51 changes: 0 additions & 51 deletions vadcprod/vpodc.data-commons.org/values/values.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -62,55 +62,6 @@ etl:
esEndpoint: elasticsearch
etlMapping:
mappings:
- name: etl_mickey_case
doc_type: case
type: aggregator
root: case
props:
- name: project_id
- name: submitter_id
nested_props:
- name: clinical_demographics
path: clinical_demographics
props:
- name: Ethnicity
- name: Gender
- name: Race
- name: oncology_primaries
path: oncology_primaries
props:
- name: ICDOSite
- name: Stagegroupclinical
- name: Texthistologytitle
- name: Gradedifferentiation
- name: Stagegroupbest
- name: somatic_mutations
path: somatic_mutations
props:
- name: Gene
- name: Mutation
joining_props:
- index: file
join_on: _case_id
props:
- name: object_id
src: object_id
fn: set
- name: data_format
src: data_format
fn: set
- name: data_type
src: data_type
fn: set
- name: data_category
src: data_category
fn: set
- name: modality
src: modality
fn: set
- name: body_part_examined
src: body_part_examined
fn: set
- name: etl_mickey_file
doc_type: file
type: collector
Expand Down Expand Up @@ -224,8 +175,6 @@ guppy:
indices:
- index: etl_mickey
type: patients
- index: etl_mickey_case
type: case
- index: etl_mickey_file
type: file
- index: omop_etl_index_cohortb_20251119
Expand Down
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