Job request: 5475
- Organisation:
- University of Surrey
- Workspace:
- pancreatic_cancer
- ID:
- qu3ajzlcziy3jhnk
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:
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ac2xdykggnq5mo43
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- Job identifier:
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m2qerffgz5wf56vy
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- Job identifier:
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zrggo7dcyonpjild
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- Job identifier:
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7ik5auspyrrbtwsq
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- Job identifier:
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7e36ctl74i7nwp2f
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- Job identifier:
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dy7i5opyedgel4hc
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- Job identifier:
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albc4huql7aqpwbr
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- Job identifier:
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bolvph67tq7ppwve
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_1:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2015-01-01 to 2016-12-01 by month" --skip-existing --output-dir=output/measures --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/inp*.feather
generate_study_population_2:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2017-01-01 to 2018-12-01 by month" --skip-existing --output-dir=output/measures --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/inpu*.feather
generate_study_population_3:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2019-01-01 to 2020-12-01 by month" --skip-existing --output-dir=output/measures --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/input*.feather
generate_study_population_4:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2021-01-01 to today by month" --skip-existing --output-dir=output/measures --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/input_*.feather
join_ethnicity:
run: python:latest python analysis/join_ethnicity.py
needs:
[
generate_study_population_1,
generate_study_population_2,
generate_study_population_3,
generate_study_population_4,
generate_ethnicity,
]
outputs:
highly_sensitive:
cohort: output/measures/in*.feather
generate_measures:
run: cohortextractor:latest generate_measures --study-definition study_definition --skip-existing --output-dir=output/measures
needs:
[join_ethnicity]
outputs:
moderately_sensitive:
measure_csv: output/measures/measure_*_rate.csv
describe:
run: r:latest analysis/report.R
needs: [generate_measures]
outputs:
moderately_sensitive:
Fig1: output/paca_rate.png
Tab1: output/paca_rate.csv
Fig2: output/paca_rate_region.png
Tab2: output/paca_rate_region.csv
Fig3: output/paca_rate_IMD.png
Tab3: output/paca_rate_IMD.csv
Timeline
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Created:
-
Started:
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Finished:
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Runtime: 110:31:01
These timestamps are generated and stored using the UTC timezone on the TPP backend.
Job information
- Status
-
Failed
- Backend
- TPP
- Workspace
- pancreatic_cancer
- Requested by
- AgzLeman
- Branch
- main
- Force run dependencies
- Yes
- Git commit hash
- ca8de21
- Requested actions
-
-
run_all
-
Code comparison
Compare the code used in this Job Request
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