chore: initializing repository

.ci/config/nginx/nginx.conf

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+user                  nginx;
+worker_processes      auto;
+
+error_log             /var/log/nginx/error.log notice;
+pid                   /var/run/nginx.pid;
+
+events {
+  worker_connections  1024;
+}
+
+http {
+  include             /etc/nginx/mime.types;
+  default_type        application/octet-stream;
+
+  log_format  main    '$remote_addr - $remote_user [$time_local] "$request" '
+                      '$status $body_bytes_sent "$http_referer" '
+                      '"$http_user_agent" "$http_x_forwarded_for"';
+
+  access_log          /var/log/nginx/access.log main;
+
+  sendfile            on;
+  keepalive_timeout   65;
+
+  gzip                on;
+
+  # The full static data directory is mounted into the container but we only
+  # serve the "nginx" sub directory (with indices in the default
+  # configuration).
+  server {
+    location / {
+      root /data/nginx;
+      autoindex on;
+    }
+  }
+}

.ci/secrets/db-password

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+password

.editorconfig

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+# http://editorconfig.org
+
+root = true
+
+[*]
+charset = utf-8
+end_of_line = lf
+insert_final_newline = true
+trim_trailing_whitespace = true
+
+[*.{py,rst,ini}]
+indent_style = space
+indent_size = 4
+
+[*.conf]
+indent_style = space
+indent_size = 2
+
+[*.py]
+line_length=120
+known_first_party=reev
+multi_line_output=3
+default_section=THIRDPARTY
+
+[*.{html,css,scss,json,yml}]
+indent_style = space
+indent_size = 2
+
+[*.md]
+trim_trailing_whitespace = false
+
+[Makefile]
+indent_style = tab
+
+[nginx.conf]
+indent_style = space
+indent_size = 2

.env.ci

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+# Docker Compose environment file used in CI.
+
+# -- Docker Images -----------------------------------------------------------
+
+# Name of the registry server and org to use for our images.
+# image_base=ghcr.io/bihealth
+
+# Name of the mehari image to use.
+# image_mehari_name=mehari
+
+# Version of the mehari image to use.
+# image_mehari_version=latest
+
+# Name of the viguno image to use.
+# image_viguno_name=viguno
+
+# Version of the viguno image to use.
+# image_viguno_version=latest
+
+# Name of the annonars image to use.
+# image_annonars_name=annonars
+
+# Version of the annonars image to use.
+# image_annonars_version=latest
+
+# Name of the traefik image to use.
+# image_traefik_name=traefik
+
+# Version of the traefik image to use.
+# image_traefik_version=2.10
+
+# Name of the postgres image to use.
+# image_postgres_name=postgres
+
+# Version of the postgres image to use.
+# image_postgres_version=12
+
+# Name of the redis image to use.
+# image_redis_name=redis
+
+# Version of the redis image to use.
+# image_redis_version=6
+
+# Name of the Minio image to use.
+# image_minio_name=quay.io/minio/minio
+
+# Version of the Minio image to use.
+# image_minio_version=latest
+
+# Name of the "mc" (Minio client) image to use.
+# image_mc_name=minio/mc
+
+# Version of the "mc" (Minio client) image to use.
+# image_mc_version=latest
+
+# -- General Container Configuration -----------------------------------------
+
+# Base directory for configuration.
+# config_basedir: ./.dev/config
+## In CI: set to directory with appropriate config.
+config_basedir=./.ci/config
+
+# Base directory for volumes.
+# volumes_basedir: ./volumes
+## In CI: set to a directory with minimal data for spinning up the containers.
+volumes_basedir=./.ci/volumes
+
+# Base directory for secrets.
+# secrets_basedir: ./secrets
+## In CI: set to a directory where the `ci.yml` writes data to.
+secrets_basedir=./.ci/secrets

.gitattributes

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+.ci/volumes/** filter=lfs diff=lfs merge=lfs -text

.github/ISSUE_TEMPLATE/bug_report.md

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+---
+name: Bug report
+about: Create a report to help us improve
+title: ''
+labels: ''
+assignees: ''
+
+---
+
+**Describe the bug**
+A clear and concise description of what the bug is.
+
+**To Reproduce**
+Steps to reproduce the behavior:
+1. Go to '...'
+2. Click on '....'
+3. Scroll down to '....'
+4. See error
+
+**Expected behavior**
+A clear and concise description of what you expected to happen.
+
+**Additional context**
+Add any other context about the problem here.

.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,20 @@
+---
+name: Feature request
+about: Suggest an idea for this project
+title: ''
+labels: ''
+assignees: ''
+
+---
+
+**Is your feature request related to a problem? Please describe.**
+A clear and concise description of what the problem is. Ex. I'm always frustrated when [...]
+
+**Describe the solution you'd like**
+A clear and concise description of what you want to happen.
+
+**Describe alternatives you've considered**
+A clear and concise description of any alternative solutions or features you've considered.
+
+**Additional context**
+Add any other context or screenshots about the feature request here.

.github/workflows/ci.yml

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+name: CI
+
+on:
+  push:
+    branches:
+      - main
+  pull_request:
+    branches:
+      - main
+
+jobs:
+  Lint:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v3
+
+      - name: Run YAML linting
+        uses: ibiqlik/action-yamllint@v3
+        with:
+          file_or_dir: |
+            *.yml
+
+  Up-Down:
+    runs-on: ubuntu-latest
+    needs: Lint
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v3
+
+      - name: Prepare empty volumes
+        run: |
+          mkdir -p .ci/volumes/postgres/data
+          mkdir -p .ci/volumes/redis/data
+          mkdir -p .ci/volumes/minio/data
+          mkdir -p .ci/volumes/varfish-static/data
+
+      - name: Bring up and shut down services
+        uses: isbang/[email protected]
+        with:
+          compose-file: docker-compose.yml
+          compose-flags: |
+            --env-file .env.ci
+        env:
+          DB_PASSWORD: "password"

.github/workflows/conventional-prs.yml

@@ -0,0 +1,18 @@
+name: PR
+on:
+  pull_request_target:
+    types:
+      - opened
+      - reopened
+      - edited
+      - synchronize
+
+jobs:
+  title-format:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: amannn/[email protected]
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        with:
+          validateSingleCommit: true

.github/workflows/release-please.yml

@@ -0,0 +1,17 @@
+on:
+  push:
+    branches:
+      - main
+
+name: release-please
+
+jobs:
+  release-please:
+    if: github.repository_owner == 'bihealth'
+    runs-on: ubuntu-latest
+    steps:
+      - name: Run release-please
+        uses: GoogleCloudPlatform/release-please-action@v2
+        id: release
+        with:
+          release-type: simple

.gitignore

@@ -0,0 +1,19 @@
+## Demo
+/.dev
+
+## CI
+/.ci
+
+## Docker Compose
+# Configuration file.
+.env
+.secrets/
+
+# The Docker Compose "override" YAML file.
+docker-compose.override.yml
+
+## Text Editors
+/.vscode
+*~
+.*.sw?
+.idea/

CHANGELOG.md

@@ -0,0 +1 @@
+# Changelog

LICENSE

@@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2021-2023 Berlin Institute of Health
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.