Job request: 1775
- Organisation:
- Bennett Institute
- Workspace:
- mechanical-valve-anticoag
- ID:
- 3txf6m52guonnqor
This page shows the technical details of what happened when authorised researcher Louis Fisher requested one or more actions to be run against real patient data in the project, within a secure environment.
By cross-referencing the indicated Requested Actions with the
Pipeline section below, you can infer what
security level
various outputs were written to. Outputs marked as
highly_sensitive
can never be viewed directly by a researcher; they can only
request that code runs against them. Outputs marked as
moderately_sensitive
can be viewed by an approved researcher by logging into a highly
secure environment. Only outputs marked as
moderately_sensitive
can be requested for release to the public, via a controlled
output review service.
Jobs
-
- Job identifier:
-
wykoxapw3ay75b7x
Pipeline
Show project.yaml
version: '3.0'
expectations:
population_size: 15000
actions:
generate_study_population:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2019-09-01 to 2021-04-01 by month" --output-dir=output
outputs:
highly_sensitive:
cohort: output/input_*.csv
generate_study_population_demographics:
run: cohortextractor:latest generate_cohort --study-definition study_definition_demographics
outputs:
highly_sensitive:
cohort: output/input_demographics.csv
generate_measures:
run: cohortextractor:latest generate_measures --study-definition study_definition --output-dir=output
needs: [generate_study_population]
outputs:
moderately_sensitive:
measure_csv: output/measure_*.csv
# generate_notebook:
# run: jupyter:latest jupyter nbconvert /workspace/analysis/measures_notebook.ipynb --execute --to html --output-dir=/workspace/output --ExecutePreprocessor.timeout=86400 --no-input
# needs: [generate_study_population, generate_measures]
# outputs:
# moderately_sensitive:
# notebook: output/measures_notebook.html
# measures_csv: output/measures_dropped.csv
# csv: output/check.csv
generate_notebook:
run: jupyter:latest jupyter nbconvert /workspace/analysis/notebook.ipynb --execute --to html --output-dir=/workspace/output --ExecutePreprocessor.timeout=86400 --no-input
needs: [generate_study_population, generate_study_population_demographics,generate_measures]
outputs:
moderately_sensitive:
notebook: output/notebook.html
figures: output/measure_*.jpeg
Timeline
-
Created:
-
Started:
-
Finished:
-
Runtime: 00:28:15
These timestamps are generated and stored using the UTC timezone on the TPP backend.
Job information
- Status
-
Succeeded
- Backend
- TPP
- Workspace
- mechanical-valve-anticoag
- Requested by
- Louis Fisher
- Branch
- master
- Force run dependencies
- No
- Git commit hash
- ecac0f2
- Requested actions
-
-
generate_notebook
-
Code comparison
Compare the code used in this Job Request