Job request: 8001
- Organisation:
- University of Bristol
- Workspace:
- covid-ve-change-over-time--include-prev-infection
- ID:
- iirx7gd5xdjwsr7y
This page shows the technical details of what happened when authorised researcher Elsie Horne 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:
-
lttc4tonpgewxrdj
Pipeline
Show project.yaml
version: '3.0'
expectations:
population_size: 100000
actions:
## # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #
## DO NOT EDIT project.yaml
## This file is created by create_project.R
## Edit and run create_project.R to update the project.yaml
## # # # # # # # # # # # # # # # # # # # # # # # # # # # # # # #
## ####################################
## study definition
## ####################################
## generate dummy data for study_definition
# dummy_data_vax:
# run: r:latest analysis/dummy_data_vax.R
# outputs:
# moderately_sensitive:
# dummy_data: analysis/dummy_data_vax.feather
## study definition
generate_study_population:
run: cohortextractor:latest generate_cohort --study-definition study_definition_vax
--output-format feather
# dummy_data_file: analysis/dummy_data_vax.feather
# needs:
# - dummy_data_vax
outputs:
highly_sensitive:
cohort: output/input_vax.feather
## ####################################
## preprocessing
## ####################################
## process data from study_definition
data_input_process:
run: r:latest analysis/preprocess/data_input_process.R
needs:
# - dummy_data_vax
- generate_study_population
outputs:
highly_sensitive:
data_wide_vax_dates: output/data/data_wide_vax_dates.rds
data_processed: output/data/data_processed.rds
moderately_sensitive:
data_properties: output/tables/data_*_tabulate.txt
## check number of events for defining prior covid
check_prior_covid:
run: r:latest analysis/preprocess/check_prior_covid.R
needs:
- data_input_process
outputs:
moderately_sensitive:
prior_covid_outcomes_n: output/eda/prior_covid_outcomes_n.png
Timeline
-
Created:
-
Finished:
-
Runtime:
These timestamps are generated and stored using the UTC timezone on the TPP backend.
Job information
- Status
-
Failed
- Backend
- TPP
- Requested by
- Elsie Horne
- Branch
- include-prev-infection
- Force run dependencies
- No
- Git commit hash
- 98f0a2f
- Requested actions
-
-
generate_study_population
-