improve Docker env

Author: ksarink

Dockerfile

@@ -0,0 +1,30 @@
+FROM python:3.6
+
+# update ca-certificates
+RUN apt-get update -y && apt-get install ca-certificates -y
+
+
+ADD requirements.txt requirements.txt
+ADD app /app
+RUN chmod 777 /app/main/static/tmp/
+
+RUN pip install --upgrade pip
+RUN pip install --no-cache-dir --upgrade -r requirements.txt
+RUN pip install gunicorn
+
+# register photonai_neuro since non privileged user cannot write to PHOTONAI registry
+RUN python -c "import photonai_neuro"
+
+RUN useradd --create-home flaskserver
+USER flaskserver
+ 
+ENV STATIC_URL /main/static
+# Absolute path in where the static files wil be
+ENV STATIC_PATH /app/main/static
+
+WORKDIR /
+ENV PYTHONPATH = /
+
+EXPOSE 8080
+
+CMD ["gunicorn", "--conf", "/app/gunicorn_conf.py", "--bind", "0.0.0.0:8080", "app.main"]

app/gunicorn_conf.py

@@ -0,0 +1,10 @@
+# Gunicorn config variables
+loglevel = "info"
+errorlog = "-"  # stderr
+#accesslog = "-"  # stdout
+accesslog = None
+worker_tmp_dir = "/dev/shm"
+graceful_timeout = 120
+timeout = 120
+keepalive = 5
+threads = 3

app/main/wizard_config.py

@@ -4,7 +4,7 @@ class PHOTONWebConfig(object):
     SECRET_KEY = 'do-i-really-need-this'
     # THE MONGODB THAT THE WIZARD ELEMENTS ARE STORED IN, NOT PHOTONAI RESULTS
     # specify your mongodb instance here
-    MONGODB_CS = 'mongodb://localhost:27017'
+    MONGODB_CS = 'mongodb://mongo:27017'
     LOGIN_DISABLED = True
 
     # specify a folder where the PHOTONAI script can be written to

docker-compose.yml

@@ -1,12 +1,9 @@
 version: '2'
 services:
-  mongodb_container:
+  mongo:
     image: mongo:latest
-#    environment:
-#      MONGO_INITDB_ROOT_USERNAME: root
-#      MONGO_INITDB_ROOT_PASSWORD: rootpassword
     ports:
-      - 0.0.0.0:27017:27017
+      - 127.0.0.1:27017:27017
     volumes:
       - mongodb_data_container:/data/db
 
@@ -16,15 +13,11 @@ services:
     restart: always
     build:
        context: .
-       dockerfile: dockerfile_web
-    network_mode: host
+       dockerfile: Dockerfile
     ports:
-      - "0.0.0.0:8004:80"
-    volumes:
-       - ./app:/app
-       - ./photon_wizard:/spm-data/Scratch/photon_wizard/
+      - "127.0.0.1:8081:8080"
     depends_on:
-      - mongodb_container
+      - mongo
 
 volumes:
   mongodb_data_container:

dockerfile_web

@@ -17,8 +17,7 @@ numpy
 scikit-learn
 matplotlib
 requests
-git+https://github.com/wwu-mmll/photonai@develop
+photonai
 git+https://github.com/wwu-mmll/photonai_neuro
 openpyxl
 plotly
-