Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Kids First ETL Mapping #39

Merged
merged 4 commits into from
Sep 24, 2018
Merged

Kids First ETL Mapping #39

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
4 commits
Select commit Hold shift + click to select a range
237b10c
kids first
abgeorge7 Sep 24, 2018
33b3cd4
manifest
abgeorge7 Sep 24, 2018
4e7cf59
counts
abgeorge7 Sep 24, 2018
616d238
only demographics
abgeorge7 Sep 24, 2018
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
24 changes: 24 additions & 0 deletions qa-kidsfirst.planx-pla.net/etlMapping.yaml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1,24 @@
participant:
_props:
- submitter_id
- project_id
- consent_type
_flatten_props:
- path: demographics
_props:
- gender
- race
- ethnicity
_aggregated_props:
- name: _samples_count
path: samples
fn: count
- name: _aliquots_count
path: samples.aliquots
fn: count
- name: _read_groups_count
path: samples.aliquots.read_groups
fn: count
- name: _submitted_aligned_reads_files_count
path: samples.aliquots.read_groups.submitted_aligned_reads_files
fn: count
8 changes: 8 additions & 0 deletions qa-kidsfirst.planx-pla.net/manifest.json
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -26,6 +26,14 @@
"jupyterhub": {
"enabled": "no"
},
"arranger": {
"project_id": "kidsfirst",
"auth_filter_field": "auth_resource_path",
"auth_filter_node_type": "participant"
},
"tube": {
"es_index_name": "kidsfirst_0"
},
"global": {
"environment": "qaplanetv1",
"hostname": "qa-kidsfirst.planx-pla.net",
Expand Down