Job request: 10739
- Organisation:
- University of Surrey
- Workspace:
- adtinjectables
- ID:
- gm3t3c5jnhf2ats4
This page shows the technical details of what happened when authorised researcher AgzLeman 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:
-
27rjsoyswa5a575u
-
- Job identifier:
-
zjpclkk5ajfukiqj
-
- Job identifier:
-
qmwqdgrkkkr34x6b
-
- Job identifier:
-
xubnecal4z2ocphn
-
- Job identifier:
-
x23grtby5i4w2cwo
-
- Job identifier:
-
zmdyqle3yy6jljfk
Pipeline
Show project.yaml
version: '3.0'
expectations:
population_size: 1000
actions:
generate_ethnicity:
run: cohortextractor:latest generate_cohort --study-definition study_definition_ethnicity --output-format=feather
outputs:
highly_sensitive:
cohort: output/input_ethnicity.feather
# generate_study_population:
# run: cohortextractor:latest generate_cohort --study-definition study_definition
# outputs:
# highly_sensitive:
# cohort: output/input.csv
generate_ADT_rates_1:
run: cohortextractor:latest generate_cohort --study-definition study_definition_rates --index-date-range "2015-01-01 to 2018-08-01 by month" --skip-existing --output-dir=output --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/inpu*.feather
generate_ADT_rates_2:
run: cohortextractor:latest generate_cohort --study-definition study_definition_rates --index-date-range "2018-09-01 to 2022-07-01 by month" --skip-existing --output-dir=output --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/inp*.feather
join_ethnicity:
run: python:latest python analysis/join_ethnicity.py
needs:
[
generate_ADT_rates_1,
generate_ADT_rates_2,
generate_ethnicity,
]
outputs:
highly_sensitive:
cohort: output/measures/in*.feather
generate_measures_ADT:
run: cohortextractor:latest generate_measures --study-definition study_definition_rates --skip-existing --output-dir=output/measures
needs:
[
generate_ADT_rates_1,
generate_ADT_rates_2,
join_ethnicity,
]
outputs:
moderately_sensitive:
measure_csv1: output/measures/measure_ADT_inj*_rate.csv
measure_csv2: output/measures/measure_ADTinjbyRegion*_rate.csv
measure_csv3: output/measures/measure_ADTinjbyIMD*_rate.csv
measure_csv4: output/measures/measure_ADTinjbyEthnicity*_rate.csv
measure_csv5: output/measures/measure_ADT_oral*_rate.csv
measure_csv6: output/measures/measure_ADToralbyRegion*_rate.csv
measure_csv7: output/measures/measure_ADToralbyIMD*_rate.csv
measure_csv8: output/measures/measure_ADToralbyEthnicity*_rate.csv
describe_trends:
run: r:latest analysis/Descriptive_trends.R
needs:
[
generate_measures_ADT,
]
outputs:
moderately_sensitive:
Fig1: output/ADTinj_count.png
Fig2: output/ADTinj_rates.png
Fig3: output/ADTinjbyRegion.png
Fig4: output/ADTinjbyIMD.png
Fig5: output/ADTinjbyEthnicity.png
Fig6: output/ADToral_count.png
Fig7: output/ADToral_rates.png
Fig8: output/ADToralbyRegion.png
Fig9: output/ADToralbyIMD.png
Fig10: output/ADToralbyEthnicity.png
Timeline
-
Created:
-
Started:
-
Finished:
-
Runtime: 22:09:26
These timestamps are generated and stored using the UTC timezone on the TPP backend.
Job information
- Status
-
Succeeded
- Backend
- TPP
- Workspace
- adtinjectables
- Requested by
- AgzLeman
- Branch
- main
- Force run dependencies
- Yes
- Git commit hash
- 769522f
- Requested actions
-
-
run_all
-
Code comparison
Compare the code used in this Job Request