WIP: some starting rumblings of a Django app to replace the current bblab tool.

Author: rhliang

src/django_app/hla_typing/__init__.py

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+from django.contrib import admin
+
+# Register your models here.

src/django_app/hla_typing/admin.py

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+from django.apps import AppConfig
+
+
+class HlaTypingConfig(AppConfig):
+    default_auto_field = 'django.db.models.BigAutoField'
+    name = 'hla_typing'

src/django_app/hla_typing/apps.py

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+from django.contrib.auth.models import User
+from django.db import models
+
+
+class Run(models.Model):
+    """
+    A discrete HLA interpretation run created by a user of the tool.
+
+    This can represent a single HLA interpretation on a single sequence,
+    or a batch job.
+    """
+
+    user = models.ForeignKey(User, on_delete=models.CASCADE)
+
+
+class Interpretation(models.Model):
+    RUNNING: str = "RUNNING"
+    CANCELLED: str = "CANCELLED"
+    PENDING: str = "PENDING"
+    COMPLETE: str = "COMPLETE"
+    FAILED: str = "FAILED"
+    STATUSES: dict[str, str] = {
+        RUNNING: "running",
+        CANCELLED: "cancelled",
+        PENDING: "pending",
+        COMPLETE: "complete",
+        FAILED: "failed",
+    }
+
+    run = models.ForeignKey(Run, on_delete=models.CASCADE)
+    status = models.CharField(choices=STATUSES, default=PENDING)
+
+
+class HLASequence(models.Model):
+    interpretation = models.ForeignKey(Interpretation, on_delete=models.CASCADE)

src/django_app/hla_typing/migrations/__init__.py

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+from django.test import TestCase
+
+# Create your tests here.

src/django_app/hla_typing/models.py

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+from django.shortcuts import render
+
+# Create your views here.

src/django_app/hla_typing/tests.py

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+"""
+ASGI config for hla_typing_site project.
+
+It exposes the ASGI callable as a module-level variable named ``application``.
+
+For more information on this file, see
+https://docs.djangoproject.com/en/5.2/howto/deployment/asgi/
+"""
+
+import os
+
+from django.core.asgi import get_asgi_application
+
+os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'hla_typing_site.settings')
+
+application = get_asgi_application()

src/django_app/hla_typing/views.py

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+"""
+Django settings for hla_typing_site project.
+
+Generated by 'django-admin startproject' using Django 5.2.4.
+
+For more information on this file, see
+https://docs.djangoproject.com/en/5.2/topics/settings/
+
+For the full list of settings and their values, see
+https://docs.djangoproject.com/en/5.2/ref/settings/
+"""
+
+from pathlib import Path
+
+# Build paths inside the project like this: BASE_DIR / 'subdir'.
+BASE_DIR = Path(__file__).resolve().parent.parent
+
+
+# Quick-start development settings - unsuitable for production
+# See https://docs.djangoproject.com/en/5.2/howto/deployment/checklist/
+
+# SECURITY WARNING: keep the secret key used in production secret!
+SECRET_KEY = 'django-insecure-p6ipa)o5%o+^k(!js)38tv^=v=)===h($*k&^*4nkg6b4noosb'
+
+# SECURITY WARNING: don't run with debug turned on in production!
+DEBUG = True
+
+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 = 'hla_typing_site.urls'
+
+TEMPLATES = [
+    {
+        'BACKEND': 'django.template.backends.django.DjangoTemplates',
+        'DIRS': [],
+        'APP_DIRS': True,
+        'OPTIONS': {
+            'context_processors': [
+                'django.template.context_processors.request',
+                'django.contrib.auth.context_processors.auth',
+                'django.contrib.messages.context_processors.messages',
+            ],
+        },
+    },
+]
+
+WSGI_APPLICATION = 'hla_typing_site.wsgi.application'
+
+
+# Database
+# https://docs.djangoproject.com/en/5.2/ref/settings/#databases
+
+DATABASES = {
+    'default': {
+        'ENGINE': 'django.db.backends.sqlite3',
+        'NAME': BASE_DIR / 'db.sqlite3',
+    }
+}
+
+
+# Password validation
+# https://docs.djangoproject.com/en/5.2/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/5.2/topics/i18n/
+
+LANGUAGE_CODE = 'en-us'
+
+TIME_ZONE = 'UTC'
+
+USE_I18N = True
+
+USE_TZ = True
+
+
+# Static files (CSS, JavaScript, Images)
+# https://docs.djangoproject.com/en/5.2/howto/static-files/
+
+STATIC_URL = 'static/'
+
+# Default primary key field type
+# https://docs.djangoproject.com/en/5.2/ref/settings/#default-auto-field
+
+DEFAULT_AUTO_FIELD = 'django.db.models.BigAutoField'