Job request: 11719
- Organisation:
- University of Surrey
- Workspace:
- adtinjectables
- ID:
- 4xzfhgwexa7hfsqi
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
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- Job identifier:
-
l6eavrtzksr4mfbe
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- Job identifier:
-
x3u26q26isymhgft
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- Job identifier:
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lhimtp6dyr32ojoq
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- Job identifier:
-
ze3oyehur4klyjpu
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- Job identifier:
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2vr3kervvcbpyxjl
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- Job identifier:
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upqugp7yz4wiavgq
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- Job identifier:
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o4weijrv4w2gj6h6
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 2022-08-01 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_ADTinjbyAge*_rate.csv
measure_csv6: output/measures/measure_ADT_oral*_rate.csv
measure_csv7: output/measures/measure_ADToralbyRegion*_rate.csv
measure_csv8: output/measures/measure_ADToralbyIMD*_rate.csv
measure_csv9: output/measures/measure_ADToralbyEthnicity*_rate.csv
measure_csv10: output/measures/measure_ADToralbyAge*_rate.csv
describe_trends:
run: r:latest analysis/Descriptive_trends.R
needs:
[
generate_measures_ADT,
]
outputs:
moderately_sensitive:
Fig1: output/ADTinj_count1.png
Fig2: output/ADTinj_rates1.png
Fig3: output/ADTinjbyRegion1.png
Fig4: output/ADTinjbyIMD1.png
Fig5: output/ADTinjbyEthnicity1.png
Fig6: output/ADTinjbyAge1.png
Fig7: output/ADToral_count1.png
Fig8: output/ADToral_rates1.png
Fig9: output/ADToralbyRegion1.png
Fig10: output/ADToralbyIMD1.png
Fig11: output/ADToralbyEthnicity1.png
Fig12: output/ADToralbyAge1.png
Timeline
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Created:
-
Started:
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Finished:
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Runtime: 11:03:01
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
- 6ca9616
- Requested actions
-
-
run_all
-
Code comparison
Compare the code used in this Job Request