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Job request: 27351

Organisation:
NICE
Workspace:
nice001-osteo-mta
ID:
eraq4xmi2mlbocdo
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Meghna Dey requested one or more actions to be run against real patient data within a secure environment.

By cross-referencing the list of jobs with the pipeline section below, you can infer what security level the outputs were written to.

The output security levels are:

  • highly_sensitive
    • Researchers can never directly view these outputs
    • Researchers can only request code is run against them
  • moderately_sensitive
    • Can be viewed by an approved researcher by logging into a highly secure environment
    • These are the only outputs that can be requested for public release via a controlled output review service.

Jobs

  • Action:
    prepare_hip_selection_qa
    Status:
    Succeeded
    Job identifier:
    up5kx5d5afxjsw5z

Pipeline

Show project.yaml 
version: '5.0'

actions:
  generate_dataset:
    run: ehrql:v1 generate-dataset analysis/dataset_definition.py --test-data-file analysis/test_dataset_definition.py --output output/dataset.csv.gz
    outputs:
      highly_sensitive:
        dataset: output/dataset.csv.gz

  select_hip_index_event:
    run: python:v2 python analysis/select_hip_index_event.py
    needs: [generate_dataset]
    outputs:
      highly_sensitive:
        selected_cases: output/selected_hip_index_cases.csv
        selection_qa: output/selected_hip_index_cases_qa.csv

  check_hip_index_selection:
    run: python:v2 python analysis/check_hip_index_selection.py
    needs:
      - generate_dataset
      - select_hip_index_event
    outputs:
      highly_sensitive:
        selection_check: output/hip_index_selection_check.txt

  prepare_hip_selection_qa:
    run: python:v2 python analysis/prepare_hip_selection_qa.py
    needs: [select_hip_index_event]
    outputs:
      moderately_sensitive:
        selection_qa: output/selected_hip_index_cases_qa_sdc.csv

  generate_wrist_candidates:
    run: ehrql:v1 generate-dataset analysis/dataset_definition_wrist.py --test-data-file analysis/test_dataset_definition_wrist.py --output output/wrist_candidates.csv.gz
    outputs:
      highly_sensitive:
        wrist_candidates: output/wrist_candidates.csv.gz

  select_wrist_index_event:
    run: python:v2 python analysis/select_wrist_index_event.py
    needs: [generate_wrist_candidates]
    outputs:
      highly_sensitive:
        selected_cases: output/selected_wrist_index_cases.csv
        selection_qa: output/selected_wrist_index_cases_qa.csv

  check_wrist_index_selection:
    run: python:v2 python analysis/check_wrist_index_selection.py
    needs:
      - generate_wrist_candidates
      - select_wrist_index_event
    outputs:
      highly_sensitive:
        selection_check: output/wrist_index_selection_check.txt

  generate_vertebral_candidates:
    run: ehrql:v1 generate-dataset analysis/dataset_definition_vertebral.py --test-data-file analysis/test_dataset_definition_vertebral.py --output output/vertebral_candidates.csv.gz
    outputs:
      highly_sensitive:
        vertebral_candidates: output/vertebral_candidates.csv.gz

  select_vertebral_index_event:
    run: python:v2 python analysis/select_vertebral_index_event.py
    needs: [generate_vertebral_candidates]
    outputs:
      highly_sensitive:
        selected_cases: output/selected_vertebral_index_cases.csv
        selection_qa: output/selected_vertebral_index_cases_qa.csv

  check_vertebral_index_selection:
    run: python:v2 python analysis/check_vertebral_index_selection.py
    needs:
      - generate_vertebral_candidates
      - select_vertebral_index_event
    outputs:
      highly_sensitive:
        selection_check: output/vertebral_index_selection_check.txt

  generate_prox_humerus_candidates:
    run: ehrql:v1 generate-dataset analysis/dataset_definition_prox_humerus.py --test-data-file analysis/test_dataset_definition_prox_humerus.py --output output/prox_humerus_candidates.csv.gz
    outputs:
      highly_sensitive:
        prox_humerus_candidates: output/prox_humerus_candidates.csv.gz

  select_prox_humerus_index_event:
    run: python:v2 python analysis/select_prox_humerus_index_event.py
    needs: [generate_prox_humerus_candidates]
    outputs:
      highly_sensitive:
        selected_cases: output/selected_prox_humerus_index_cases.csv
        selection_qa: output/selected_prox_humerus_index_cases_qa.csv

  check_prox_humerus_index_selection:
    run: python:v2 python analysis/check_prox_humerus_index_selection.py
    needs:
      - generate_prox_humerus_candidates
      - select_prox_humerus_index_event
    outputs:
      highly_sensitive:
        selection_check: output/prox_humerus_index_selection_check.txt

Job statistics

Status Count Percentage
Pending 0 0%
Running 0 0%
Succeeded 1 100%
Failed 0 0%

1 / 1 (100%) complete

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:00:58

These timestamps are generated and stored using the UTC timezone on the TPP backend.

Job request

Status
Succeeded
Backend
TPP
Workspace
nice001-osteo-mta
Requested by
Meghna Dey
Branch
cohortbuild_md
Force run dependencies
No
Git commit hash
55da01c
Requested actions
  • prepare_hip_selection_qa

Code comparison

Compare the code used in this job request