From 0b1e0474d74a21a5ac68a9fbb16d558ed07b9815 Mon Sep 17 00:00:00 2001
From: juarez <d.juarez@dkfz-heidelberg.de>
Date: Wed, 12 Apr 2023 09:46:35 +0200
Subject: [PATCH] Add DataSHIELD

---
 ccp/modules/datashield-compose.yml | 73 ++++++++++++++++++++++++++++++
 ccp/modules/datashield-setup.sh    |  7 +++
 ccp/modules/datashield.md          |  0
 3 files changed, 80 insertions(+)
 create mode 100644 ccp/modules/datashield-compose.yml
 create mode 100644 ccp/modules/datashield-setup.sh
 create mode 100644 ccp/modules/datashield.md

diff --git a/ccp/modules/datashield-compose.yml b/ccp/modules/datashield-compose.yml
new file mode 100644
index 0000000..2e6ad00
--- /dev/null
+++ b/ccp/modules/datashield-compose.yml
@@ -0,0 +1,73 @@
+version: "3.7"
+
+services:
+  ############################################ DataSHIELD Client (Rocker R-Studio)
+  bridgehead-rstudio:
+    image: docker.verbis.dkfz.de/ccp/dktk-rstudio:latest
+    #TODO: Connect with Keycloak: https://rocker-project.org/images/versioned/rstudio.html
+    environment:
+      USER: "ruser"
+      PASSWORD: "${RSTUDIO_PASSWORD}"
+    labels:
+      - "traefik.enable=true"
+      - "traefik.http.routers.rstudio_ccp.rule=PathPrefix(`/rstudio`)"
+      - "traefik.http.services.rstudio_ccp.loadbalancer.server.port=8787"
+      - "traefik.http.routers.rstudio_ccp.tls=true"
+      - "traefik.http.middlewares.rstudio_ccp_strip.stripprefix.prefixes=/rstudio"
+      - "traefik.http.routers.rstudio_ccp.middlewares=rstudio_ccp_strip"
+    volumes:
+      - "bridgehead-dev-rstudio-config:/home/rstudio/.config/rstudio"
+      - "bridgehead-dev-rstudio-workspace:/home/rstudio/workspace"
+
+  ############################################ DataSHIELD Server (Opal)
+  bridgehead-opal:
+    image: obiba/opal:4.5
+    labels:
+      - "traefik.enable=true"
+      - "traefik.http.routers.opal_ccp.rule=PathPrefix(`/opal`)"
+      - "traefik.http.services.opal_ccp.loadbalancer.server.port=8443"
+      - "traefik.http.routers.opal_ccp.tls=true"
+      - "traefik.http.middlewares.opal_ccp_strip.stripprefix.prefixes=/opal"
+      - "traefik.http.routers.opal_ccp.middlewares=opal_ccp_strip"
+    links:
+      - bridgehead-opal-rserver
+      - bridgehead-opal-mongo
+      - bridgehead-opal-db
+    environment:
+      JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
+      # OPAL_ADMINISTRATOR_USER: "administrator"
+      OPAL_ADMINISTRATOR_PASSWORD: "${OPAL_ADMINISTRATOR_PASSWORD}"
+      MONGO_HOST: "bridgehead-opal-mongo"
+      MONGO_PORT: "27017"
+      POSTGRESDATA_HOST: "bridgehead-opal-db"
+      POSTGRESDATA_DATABASE: "opal"
+      POSTGRESDATA_USER: "opal"
+      POSTGRESDATA_PASSWORD: "${OPAL_DB_PASSWORD}"
+      ROCK_HOSTS: "bridgehead-opal-rserver:8085"
+    volumes:
+      - "bridgehead-dev-opal:/srv"
+
+  bridgehead-opal-mongo: # IDs
+    image: mongo:4.2 # TODO: Update mongo:6.0.4
+
+  bridgehead-opal-db: # Data
+    image: postgres:15.1-alpine
+    environment:
+      POSTGRES_PASSWORD: "${OPAL_DB_PASSWORD}"
+      POSTGRES_USER: "opal"
+      POSTGRES_DB: "opal"
+    volumes:
+      - "bridgehead-opal-db:/var/lib/postgresql/data"
+
+  bridgehead-opal-rserver:
+    image: datashield/rock-base:6.2-R4.2  # https://datashield.discourse.group/t/ds-aggregate-method-error/416/4
+
+volumes:
+  bridgehead-dev-rstudio-config:
+    name: "bridgehead-dev-rstudio-config"
+  bridgehead-dev-rstudio-workspace:
+    name: "bridgehead-dev-rstudio-workspace"
+  bridgehead-opal-db:
+    name: "bridgehead-opal-db"
+  bridgehead-dev-opal:
+    name: "bridgehead-dev-opal"
diff --git a/ccp/modules/datashield-setup.sh b/ccp/modules/datashield-setup.sh
new file mode 100644
index 0000000..0bafe6b
--- /dev/null
+++ b/ccp/modules/datashield-setup.sh
@@ -0,0 +1,7 @@
+#!/bin/bash
+
+if [ "$ENABLE_DATASHIELD" == true ];then
+  log INFO "DataSHIELD setup detected -- will start DataSHIELD services."
+  OVERRIDE+=" -f ./$PROJECT/modules/datashield-compose.yml"
+fi
+OPAL_DB_PASSWORD="$(echo \"This is a salt string to generate one consistent password for Opal. It is not required to be secret.\" | openssl rsautl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 30)"
diff --git a/ccp/modules/datashield.md b/ccp/modules/datashield.md
new file mode 100644
index 0000000..e69de29