Start architecture for the app with docker-compose

.gitignore

+.env

README.md

-# metagenedb
+# Metagenedb
 
-Django based project to build metagenomics genes catalog
\ No newline at end of file
+Django based project to build metagenomics genes catalog and tools
+to play with it and contact external services.
\ No newline at end of file

docker-compose.yaml

+version: '3.7'
+
+services:
+  web:
+    restart: always
+    build: ./web
+    ports:
+      - "8000:8000"
+    env_file: .env
+    environment:
+      DEBUG: "true"
+    depends_on:
+      - postgres
+    command: python /metagenedb/manage.py runserver 0.0.0.0:8000
+
+  postgres:
+    restart: always
+    image: postgres:latest
+    ports:
+      - "5433:5432"

web/Dockerfile

+FROM python:3.7
+
+ENV PYTHONDONTWRITEBYTECODE 1
+ENV PYTHONUNBUFFERED 1
+
+WORKDIR /metagenedb
+
+COPY requirements.txt /metagenedb/
+RUN pip install -r requirements.txt
+
+# Copy the project
+COPY . /metagenedb/
\ No newline at end of file

web/manage.py

+#!/usr/bin/env python
+"""Django's command-line utility for administrative tasks."""
+import os
+import sys
+
+
+def main():
+    os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'metagenedb.settings')
+    try:
+        from django.core.management import execute_from_command_line
+    except ImportError as exc:
+        raise ImportError(
+            "Couldn't import Django. Are you sure it's installed and "
+            "available on your PYTHONPATH environment variable? Did you "
+            "forget to activate a virtual environment?"
+        ) from exc
+    execute_from_command_line(sys.argv)
+
+
+if __name__ == '__main__':
+    main()

web/metagenedb/settings.py

+"""
+Django settings for metagenedb project.
+
+Generated by 'django-admin startproject' using Django 2.2.2.
+
+For more information on this file, see
+https://docs.djangoproject.com/en/2.2/topics/settings/
+
+For the full list of settings and their values, see
+https://docs.djangoproject.com/en/2.2/ref/settings/
+"""
+
+import os
+
+# Build paths inside the project like this: os.path.join(BASE_DIR, ...)
+BASE_DIR = os.path.dirname(os.path.dirname(os.path.abspath(__file__)))
+
+
+# Quick-start development settings - unsuitable for production
+# See https://docs.djangoproject.com/en/2.2/howto/deployment/checklist/
+
+# SECURITY WARNING: keep the secret key used in production secret!
+SECRET_KEY = '01^q5^z**8vfdd$u4&b0w!2thaj=3b93+i*v$&kwmz6&ix6x8)'
+
+# SECURITY WARNING: don't run with debug turned on in production!
+DEBUG = True
+
+# This can be used to toggle between your local testing db (db.sqlite3) and the PostgreSQL backend:
+DOCKER = True
+
+if DEBUG:
+   # This value is not safe for production usage. Refer to the Django documentation for more information.
+   ALLOWED_HOSTS = ['*']
+
+
+# Application definition
+
+INSTALLED_APPS = [
+    'django.contrib.admin',
+    'django.contrib.auth',
+    'django.contrib.contenttypes',
+    'django.contrib.sessions',
+    'django.contrib.messages',
+    'django.contrib.staticfiles',
+]
+
+MIDDLEWARE = [
+    'django.middleware.security.SecurityMiddleware',
+    'django.contrib.sessions.middleware.SessionMiddleware',
+    'django.middleware.common.CommonMiddleware',
+    'django.middleware.csrf.CsrfViewMiddleware',
+    'django.contrib.auth.middleware.AuthenticationMiddleware',
+    'django.contrib.messages.middleware.MessageMiddleware',
+    'django.middleware.clickjacking.XFrameOptionsMiddleware',
+]
+
+ROOT_URLCONF = 'metagenedb.urls'
+
+TEMPLATES = [
+    {
+        'BACKEND': 'django.template.backends.django.DjangoTemplates',
+        'DIRS': [],
+        'APP_DIRS': True,
+        'OPTIONS': {
+            'context_processors': [
+                'django.template.context_processors.debug',
+                'django.template.context_processors.request',
+                'django.contrib.auth.context_processors.auth',
+                'django.contrib.messages.context_processors.messages',
+            ],
+        },
+    },
+]
+
+WSGI_APPLICATION = 'metagenedb.wsgi.application'
+
+
+# Database
+# https://docs.djangoproject.com/en/2.2/ref/settings/#databases
+
+if DOCKER:
+    DATABASES = {
+        'default': {
+            'ENGINE': 'django.db.backends.postgresql',
+            'NAME': 'postgres',
+            'USER': 'postgres',
+            'HOST': 'postgres',
+            'PORT': 5432,
+        }
+    }
+else:
+    DATABASES = {
+        'default': {
+            'ENGINE': 'django.db.backends.sqlite3',
+            'NAME': os.path.join(BASE_DIR, 'db.sqlite3'),
+        }
+    }
+
+
+# Password validation
+# https://docs.djangoproject.com/en/2.2/ref/settings/#auth-password-validators
+
+AUTH_PASSWORD_VALIDATORS = [
+    {
+        'NAME': 'django.contrib.auth.password_validation.UserAttributeSimilarityValidator',
+    },
+    {
+        'NAME': 'django.contrib.auth.password_validation.MinimumLengthValidator',
+    },
+    {
+        'NAME': 'django.contrib.auth.password_validation.CommonPasswordValidator',
+    },
+    {
+        'NAME': 'django.contrib.auth.password_validation.NumericPasswordValidator',
+    },
+]
+
+
+# Internationalization
+# https://docs.djangoproject.com/en/2.2/topics/i18n/
+
+LANGUAGE_CODE = 'en-us'
+
+TIME_ZONE = 'Europe/Paris'
+
+USE_I18N = True
+
+USE_L10N = True
+
+USE_TZ = True
+
+
+# Static files (CSS, JavaScript, Images)
+# https://docs.djangoproject.com/en/2.2/howto/static-files/
+
+STATIC_URL = '/static/'

web/metagenedb/urls.py

+"""metagenedb URL Configuration
+
+The `urlpatterns` list routes URLs to views. For more information please see:
+    https://docs.djangoproject.com/en/2.2/topics/http/urls/
+Examples:
+Function views
+    1. Add an import:  from my_app import views
+    2. Add a URL to urlpatterns:  path('', views.home, name='home')
+Class-based views
+    1. Add an import:  from other_app.views import Home
+    2. Add a URL to urlpatterns:  path('', Home.as_view(), name='home')
+Including another URLconf
+    1. Import the include() function: from django.urls import include, path
+    2. Add a URL to urlpatterns:  path('blog/', include('blog.urls'))
+"""
+from django.contrib import admin
+from django.urls import path
+
+urlpatterns = [
+    path('admin/', admin.site.urls),
+]

web/metagenedb/wsgi.py

+"""
+WSGI config for metagenedb project.
+
+It exposes the WSGI callable as a module-level variable named ``application``.
+
+For more information on this file, see
+https://docs.djangoproject.com/en/2.2/howto/deployment/wsgi/
+"""
+
+import os
+
+from django.core.wsgi import get_wsgi_application
+
+os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'metagenedb.settings')
+
+application = get_wsgi_application()

web/requirements.txt

+django>=2.1
+psycopg2
\ No newline at end of file