These are the instructions for reproducing the statistical and demographical analysis regarding the paper exploring the disease-free life expectancy of brazilian deaf adults according to National Health Survey (PNS 2019) and IBGE life tables.
The work was done in a GNU/Linux machine but due to docker it should be possible to reproduce the results in other OS.
cat /etc/os-releaseNAME="Linux Mint" VERSION="20.3 (Una)" ID=linuxmint ID_LIKE=ubuntu PRETTY_NAME="Linux Mint 20.3" VERSION_ID="20.3" HOME_URL="https://www.linuxmint.com/" SUPPORT_URL="https://forums.linuxmint.com/" BUG_REPORT_URL="http://linuxmint-troubleshooting-guide.readthedocs.io/en/latest/" PRIVACY_POLICY_URL="https://www.linuxmint.com/" VERSION_CODENAME=una UBUNTU_CODENAME=focal
Install wget, unzip and docker
sudo apt install wget unzip docker*
and configure docker
sudo usermod -a -G docker $USER ; newgrp docker
Adjust accordingly the environment variables at .env case needed
# Environment variables for paa_paper project # ETL container ETL_USER=rstudio ETL_PASS=paa # RStudio container RSTD_USER=rstudio RSTD_PASS=paa # PostgreSQL container PG_DB=pns PG_HOST=db PG_USER=postgres PG_PASSWORD=12345 PG_PORT=5432 # PGAdmin container PGAD_EMAIL=paa@paa.com PGAD_PASS=paa PGAD_PORT=5050
In the terminal, type
docker-compose up --force-recreate --build
Open the web-browser and access
- http://localhost:8787/ for RStudio or
- http://localhost:5050/ for PGAdmin4
All scripts in the analyses/ folder are shared between the host OS and the RStudio container.
Note further that all GNU R packages needed for the statistical analysis are provided by the RStudio container to ensure reproducibility of results.