Job request: 21445
- Organisation:
- University of Bristol
- Workspace:
- lockdown-and-vulnerable-groups
- ID:
- 4lom2fmaz3mnpsra
This page shows the technical details of what happened when authorised researcher Scott Walter 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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tsw7vsg4muj76f7h
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- Job identifier:
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2ub73zsyuxoxyst6
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- Job identifier:
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a2mh4b5vfy2pdao2
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- Job identifier:
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kkggvhkm2nxa3waj
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- Job identifier:
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rgqx5rx7cm2zbhgo
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- Job identifier:
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zujevzbp24ksoqyl
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- Job identifier:
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h7k4critmjxkzndc
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- Job identifier:
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mllsflh6v37elrhe
Pipeline
Show project.yaml
version: '3.0'
expectations:
population_size: 1000
actions:
generate_study_population_1:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2019-09-02 to 2020-01-13 by week" --output-format=csv.gz
outputs:
highly_sensitive:
cohort: output/input_*.csv.gz
generate_study_population_2:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2020-01-20 to 2020-06-01 by week" --output-format=csv.gz
outputs:
highly_sensitive:
cohort: output/input*.csv.gz
generate_study_population_3:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2020-06-08 to 2020-10-19 by week" --output-format=csv.gz
outputs:
highly_sensitive:
cohort: output/inpu*.csv.gz
generate_study_population_4:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2020-10-26 to 2021-03-01 by week" --output-format=csv.gz
outputs:
highly_sensitive:
cohort: output/inp*.csv.gz
generate_study_population_5:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2021-03-08 to 2021-06-14 by week" --output-format=csv.gz
outputs:
highly_sensitive:
cohort: output/in*.csv.gz
generate_study_population_6:
run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2021-06-21 to 2021-09-27 by week" --output-format=csv.gz
outputs:
highly_sensitive:
cohort: output/i*.csv.gz
generate_measures:
run: cohortextractor:latest generate_measures --study-definition study_definition
needs: [generate_study_population_1, generate_study_population_2, generate_study_population_3, generate_study_population_4, generate_study_population_5, generate_study_population_6]
outputs:
moderately_sensitive:
measure_csv: output/measure_*_rate.csv
subgroup_setup:
run: stata-mp:latest analysis/subgroup_data_setup.do
needs:
- generate_measures
outputs:
highly_sensitive:
subgroup1: output/measure_dvafemale_rate.dta
subgroup2: output/measure_dvamale_rate.dta
subgroup3: output/measure_intdissub14_rate.dta
subgroup4: output/measure_intdisover14_rate.dta
subgroup5: output/measure_rcgpsafeguard_rate.dta
subgroup6: output/measure_alcmisuse_rate.dta
subgroup7: output/measure_drugmisuse_rate.dta
subgroup8: output/measure_opioid_rate.dta
model_alcmisuse:
run: stata-mp:latest analysis/model.do alcmisuse
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/alcmisuse_RR_LD1.dta
results2: output/alcmisuse_RD_LD1.dta
results3: output/alcmisuse_RR_LD2.dta
results4: output/alcmisuse_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/alcmisuse_diagnostics1.svg
diagnostics2: output/diagnostics/alcmisuse_diagnostics2.svg
plot1: output/alcmisuse_plot1.svg
plot2: output/alcmisuse_plot2.svg
model_drugmisuse:
run: stata-mp:latest analysis/model.do drugmisuse
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/drugmisuse_RR_LD1.dta
results2: output/drugmisuse_RD_LD1.dta
results3: output/drugmisuse_RR_LD2.dta
results4: output/drugmisuse_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/drugmisuse_diagnostics1.svg
diagnostics2: output/diagnostics/drugmisuse_diagnostics2.svg
plot1: output/drugmisuse_plot1.svg
plot2: output/drugmisuse_plot2.svg
model_opioid:
run: stata-mp:latest analysis/model.do opioid
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/opioid_RR_LD1.dta
results2: output/opioid_RD_LD1.dta
results3: output/opioid_RR_LD2.dta
results4: output/opioid_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/opioid_diagnostics1.svg
diagnostics2: output/diagnostics/opioid_diagnostics2.svg
plot1: output/opioid_plot1.svg
plot2: output/opioid_plot2.svg
model_dvafemale:
run: stata-mp:latest analysis/model.do dvafemale
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/dvafemale_RR_LD1.dta
results2: output/dvafemale_RD_LD1.dta
results3: output/dvafemale_RR_LD2.dta
results4: output/dvafemale_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/dvafemale_diagnostics1.svg
diagnostics2: output/diagnostics/dvafemale_diagnostics2.svg
plot1: output/dvafemale_plot1.svg
plot2: output/dvafemale_plot2.svg
model_dvamale:
run: stata-mp:latest analysis/model.do dvamale
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/dvamale_RR_LD1.dta
results2: output/dvamale_RD_LD1.dta
results3: output/dvamale_RR_LD2.dta
results4: output/dvamale_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/dvamale_diagnostics1.svg
diagnostics2: output/diagnostics/dvamale_diagnostics2.svg
plot1: output/dvamale_plot1.svg
plot2: output/dvamale_plot2.svg
model_intdissub14:
run: stata-mp:latest analysis/model.do intdissub14
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/intdissub14_RR_LD1.dta
results2: output/intdissub14_RD_LD1.dta
results3: output/intdissub14_RR_LD2.dta
results4: output/intdissub14_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/intdissub14_diagnostics1.svg
diagnostics2: output/diagnostics/intdissub14_diagnostics2.svg
plot1: output/intdissub14_plot1.svg
plot2: output/intdissub14_plot2.svg
model_intdisover14:
run: stata-mp:latest analysis/model.do intdisover14
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/intdisover14_RR_LD1.dta
results2: output/intdisover14_RD_LD1.dta
results3: output/intdisover14_RR_LD2.dta
results4: output/intdisover14_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/intdisover14_diagnostics1.svg
diagnostics2: output/diagnostics/intdisover14_diagnostics2.svg
plot1: output/intdisover14_plot1.svg
plot2: output/intdisover14_plot2.svg
model_rcgpsafeguard:
run: stata-mp:latest analysis/model.do rcgpsafeguard
needs:
- subgroup_setup
outputs:
highly_sensitive:
results1: output/rcgpsafeguard_RR_LD1.dta
results2: output/rcgpsafeguard_RD_LD1.dta
results3: output/rcgpsafeguard_RR_LD2.dta
results4: output/rcgpsafeguard_RD_LD2.dta
moderately_sensitive:
diagnostics1: output/diagnostics/rcgpsafeguard_diagnostics1.svg
diagnostics2: output/diagnostics/rcgpsafeguard_diagnostics2.svg
plot1: output/rcgpsafeguard_plot1.svg
plot2: output/rcgpsafeguard_plot2.svg
combine_results:
run: stata-mp:latest analysis/combine_results.do
needs:
- model_alcmisuse
- model_drugmisuse
- model_opioid
- model_dvafemale
- model_dvamale
- model_intdissub14
- model_intdisover14
- model_rcgpsafeguard
outputs:
moderately_sensitive:
results: output/CITS_results.csv
Timeline
-
Created:
-
Started:
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Finished:
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Runtime: 00:07:40
These timestamps are generated and stored using the UTC timezone on the TPP backend.
Job information
- Status
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Succeeded
- Backend
- TPP
- Workspace
- lockdown-and-vulnerable-groups
- Requested by
- Scott Walter
- Branch
- main
- Force run dependencies
- No
- Git commit hash
- 9e3760e
- Requested actions
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model_drugmisuse
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model_opioid
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model_dvafemale
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model_dvamale
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model_intdissub14
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model_intdisover14
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model_rcgpsafeguard
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combine_results
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Code comparison
Compare the code used in this Job Request