Dockerize

.env_db

@@ -0,0 +1,4 @@
+POSTGRES_PASSWORD=postgres
+POSTGRES_USER=postgres
+SHINYAPP_SUPERUSER_PASSWORD=adminpass
+SHINYAPP_SUPERUSER_USERNAME=admin

.gitignore

@@ -0,0 +1,188 @@
+# Created by .ignore support plugin (hsz.mobi)
+### R template
+# History files
+.Rhistory
+.Rapp.history
+
+# Session Data files
+.RData
+
+# User-specific files
+.Ruserdata
+
+# Example code in package build process
+*-Ex.R
+
+# Output files from R CMD build
+/*.tar.gz
+
+# Output files from R CMD check
+/*.Rcheck/
+
+# RStudio files
+.Rproj.user/
+
+# produced vignettes
+vignettes/*.html
+vignettes/*.pdf
+
+# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3
+.httr-oauth
+
+# knitr and R markdown default cache directories
+*_cache/
+/cache/
+
+# Temporary files created by R markdown
+*.utf8.md
+*.knit.md
+
+# R Environment Variables
+.Renviron
+
+# pkgdown site
+docs/
+
+# translation temp files
+po/*~
+
+### Python template
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+share/python-wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+MANIFEST
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.nox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+*.py,cover
+.hypothesis/
+.pytest_cache/
+cover/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+db.sqlite3-journal
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+.pybuilder/
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+#   For a library or package, you might want to ignore these files since the code is
+#   intended to run in multiple environments; otherwise, check them in:
+# .python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# PEP 582; used by e.g. github.com/David-OConnor/pyflow
+__pypackages__/
+
+# Celery stuff
+celerybeat-schedule
+celerybeat.pid
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+
+# pytype static type analyzer
+.pytype/
+
+# Cython debug symbols
+cython_debug/
+

Dockerfile-postgis

@@ -0,0 +1,5 @@
+FROM kartoza/postgis:12.0
+
+ADD postgres_setup/* /docker-entrypoint-initdb.d/
+#ADD dev_dumps /dumps
+#ADD sql /docker-entrypoint-sql

Dockerfile_R

@@ -0,0 +1,15 @@
+FROM rocker/shiny-verse
+
+#update all packages
+RUN apt-get update
+
+#upgrade
+RUN apt-get upgrade -y
+
+#install additional packages
+RUN apt install gpg-agent -y unixodbc apt-utils curl
+
+
+
+#copy app to image
+COPY shinyapp/ /srv/shiny-server/shiny_app

docker-compose.yml

@@ -0,0 +1,28 @@
+version: "3.7"
+volumes:
+  pgdata:
+
+services:
+  r_container:
+    container_name: r_container
+    build:
+      context: "."
+      dockerfile: Dockerfile_R
+    ports:
+        - "3838:3838"
+    depends_on:
+      - postgresql
+
+  postgresql:
+    container_name: postgresql
+    build:
+      context: "."
+      dockerfile: "Dockerfile-postgis"
+    env_file:
+      - .env_db
+    ports:
+      - 5432:5432
+    volumes:
+      - pgdata:/var/lib/postgresql/data
+    restart: always
+

postgis_setup/setup_db.sh

@@ -0,0 +1,9 @@
+#!/bin/bash
+#echo -e "\nhost all all all peer\nhost all all 127.0.0.1/32 md5" >> "$PGDATA/pg_hba.conf"
+#echo "===> Done editing pg_hba.conf"
+set -e
+psql -v ON_ERROR_STOP=1 --username "$POSTGRES_USER"  <<-EOSQL
+    CREATE USER $SHINYAPP_SUPERUSER_USERNAME SUPERUSER PASSWORD '$SHINYAPP_SUPERUSER_PASSWORD';
+    CREATE DATABASE shapp WITH OWNER $SHINYAPP_SUPERUSER_USERNAME ENCODING 'utf-8';
+    GRANT ALL PRIVILEGES ON DATABASE shapp to $SHINYAPP_SUPERUSER_USERNAME;
+EOSQL