From c4f76d9fda59ff1dd20ef21a0cccbc3ee16845d4 Mon Sep 17 00:00:00 2001 From: Cian Hughes Date: Tue, 11 Aug 2026 14:21:17 +0100 Subject: [PATCH] Significant overhaul of tooling --- .gitignore | 225 +++++++ cli/__init__.py | 0 cli/__main__.py | 80 +++ cli/bitwarden.py | 134 ++++ cli/bootstrap.py | 35 + cli/config.py | 67 ++ env/invenio.env => cli/data/env.template | 10 +- cli/data/s3_cors.json | 8 + cli/deploy.py | 261 ++++++++ cli/dev.py | 118 ++++ cli/env.py | 24 + cli/s3.py | 110 ++++ cli/utils.py | 83 +++ devenv.nix | 11 + devenv.yaml | 14 +- env.sh | 20 - env/development/caddy/Caddyfile | 18 - env/invenio_dev.env | 6 - env/invenio_prod.env | 6 - env/production/caddy/Caddyfile | 8 - i-form-data-repository/README.md | 7 +- .../app_data/vocabularies.yaml | 12 +- .../app_data/vocabularies/languages.yaml | 96 +-- .../app_data/vocabularies/names.yaml | 20 +- .../overridableRegistry/mapping.js | 2 +- i-form-data-repository/docker-services.yml | 35 +- .../docker/nginx/.gitignore | 2 + .../docker/pgadmin/servers.json | 20 +- .../patch_js_translations.py | 110 ++-- .../site/i_form_data_repository/views.py | 1 + i-form-data-repository/translations/ga.json | 42 +- index.html | 443 ------------- justfile | 161 ----- pyproject.toml | 48 +- uv.lock | 607 +++++++++++++++++- 35 files changed, 2017 insertions(+), 827 deletions(-) create mode 100644 cli/__init__.py create mode 100644 cli/__main__.py create mode 100644 cli/bitwarden.py create mode 100644 cli/bootstrap.py create mode 100644 cli/config.py rename env/invenio.env => cli/data/env.template (93%) create mode 100644 cli/data/s3_cors.json create mode 100644 cli/deploy.py create mode 100644 cli/dev.py create mode 100644 cli/env.py create mode 100644 cli/s3.py create mode 100644 cli/utils.py delete mode 100755 env.sh delete mode 100644 env/development/caddy/Caddyfile delete mode 100644 env/invenio_dev.env delete mode 100644 env/invenio_prod.env delete mode 100644 env/production/caddy/Caddyfile create mode 100644 i-form-data-repository/docker/nginx/.gitignore delete mode 100644 index.html delete mode 100644 justfile diff --git a/.gitignore b/.gitignore index d606c63..4202238 100644 --- a/.gitignore +++ b/.gitignore @@ -22,6 +22,229 @@ package-lock.json /.pnp .pnp.js +# python +# Byte-compiled / optimized / DLL files +__pycache__/ +*.py[codz] +*$py.class + +# C extensions +*.so + +# Distribution / packaging +.Python +build/ +develop-eggs/ +dist/ +downloads/ +eggs/ +.eggs/ +lib/ +lib64/ +parts/ +sdist/ +var/ +wheels/ +share/python-wheels/ +*.egg-info/ +.installed.cfg +*.egg +MANIFEST + +# PyInstaller +# Usually these files are written by a python script from a template +# before PyInstaller builds the exe, so as to inject date/other infos into it. +*.manifest +*.spec + +# Installer logs +pip-log.txt +pip-delete-this-directory.txt + +# Unit test / coverage reports +htmlcov/ +.tox/ +.nox/ +.coverage +.coverage.* +.cache +nosetests.xml +coverage.xml +*.cover +*.py.cover +*.lcov +.hypothesis/ +.pytest_cache/ +cover/ + +# Translations +*.mo +*.pot + +# Django stuff: +*.log +local_settings.py +db.sqlite3 +db.sqlite3-journal + +# Flask stuff: +instance/ +.webassets-cache + +# Scrapy stuff: +.scrapy + +# Sphinx documentation +docs/_build/ + +# PyBuilder +.pybuilder/ +target/ + +# Jupyter Notebook +.ipynb_checkpoints + +# IPython +profile_default/ +ipython_config.py + +# pyenv +# For a library or package, you might want to ignore these files since the code is +# intended to run in multiple environments; otherwise, check them in: +# .python-version + +# pipenv +# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control. +# However, in case of collaboration, if having platform-specific dependencies or dependencies +# having no cross-platform support, pipenv may install dependencies that don't work, or not +# install all needed dependencies. +# Pipfile.lock + +# UV +# Similar to Pipfile.lock, it is generally recommended to include uv.lock in version control. +# This is especially recommended for binary packages to ensure reproducibility, and is more +# commonly ignored for libraries. +# uv.lock + +# poetry +# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control. +# This is especially recommended for binary packages to ensure reproducibility, and is more +# commonly ignored for libraries. +# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control +# poetry.lock +# poetry.toml + +# pdm +# Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control. +# pdm recommends including project-wide configuration in pdm.toml, but excluding .pdm-python. +# https://pdm-project.org/en/latest/usage/project/#working-with-version-control +# pdm.lock +# pdm.toml +.pdm-python +.pdm-build/ + +# pixi +# Similar to Pipfile.lock, it is generally recommended to include pixi.lock in version control. +# pixi.lock +# Pixi creates a virtual environment in the .pixi directory, just like venv module creates one +# in the .venv directory. It is recommended not to include this directory in version control. +.pixi/* +!.pixi/config.toml + +# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm +__pypackages__/ + +# Celery stuff +celerybeat-schedule* +celerybeat.pid + +# Redis +*.rdb +*.aof +*.pid + +# RabbitMQ +mnesia/ +rabbitmq/ +rabbitmq-data/ + +# ActiveMQ +activemq-data/ + +# SageMath parsed files +*.sage.py + +# Environments +.env +.envrc +.bw_session +.venv +env/ +venv/ +ENV/ +env.bak/ +venv.bak/ + +# Spyder project settings +.spyderproject +.spyproject + +# Rope project settings +.ropeproject + +# mkdocs documentation +/site + +# mypy +.mypy_cache/ +.dmypy.json +dmypy.json + +# Pyre type checker +.pyre/ + +# pytype static type analyzer +.pytype/ + +# Cython debug symbols +cython_debug/ + +# PyCharm +# JetBrains specific template is maintained in a separate JetBrains.gitignore that can +# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore +# and can be added to the global gitignore or merged into this file. For a more nuclear +# option (not recommended) you can uncomment the following to ignore the entire idea folder. +# .idea/ + +# Abstra +# Abstra is an AI-powered process automation framework. +# Ignore directories containing user credentials, local state, and settings. +# Learn more at https://abstra.io/docs +.abstra/ + +# Visual Studio Code +# Visual Studio Code specific template is maintained in a separate VisualStudioCode.gitignore +# that can be found at https://github.com/github/gitignore/blob/main/Global/VisualStudioCode.gitignore +# and can be added to the global gitignore or merged into this file. However, if you prefer, +# you could uncomment the following to ignore the entire vscode folder +# .vscode/ +# Temporary file for partial code execution +tempCodeRunnerFile.py + +# Ruff stuff: +.ruff_cache/ + +# PyPI configuration file +.pypirc + +# Marimo +marimo/_static/ +marimo/_lsp/ +__marimo__/ + +# Streamlit +.streamlit/secrets.toml + # testing /coverage @@ -34,6 +257,7 @@ package-lock.json .env.development.local .env.test.local .env.production.local + # work-in-progress assets /assets @@ -48,3 +272,4 @@ versions secrets.env .env agents +.aws diff --git a/cli/__init__.py b/cli/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/cli/__main__.py b/cli/__main__.py new file mode 100644 index 0000000..fa3fdbc --- /dev/null +++ b/cli/__main__.py @@ -0,0 +1,80 @@ +import typer +from loguru import logger +from plumbum import FG, local +from plumbum.cmd import docker as docker_cmd + +from cli.bitwarden import app as bw_app +from cli.bootstrap import app as bootstrap_app +from cli.config import config +from cli.deploy import app as deploy_app +from cli.dev import app as dev_app +from cli.env import app as env_app +from cli.s3 import app as s3_app +from cli.utils import docker_compose, get_repo_dir + +app = typer.Typer(help="Unified Repository Automation CLI") + +app.add_typer(dev_app, name="dev") +app.add_typer(bw_app, name="bw") +app.add_typer(s3_app, name="s3") +app.add_typer(deploy_app, name="deploy") + +app.add_typer(env_app, name="env") +app.add_typer(bootstrap_app, name="bootstrap") + + +@app.command( + context_settings={"allow_extra_args": True, "ignore_unknown_options": True} +) +def compose(ctx: typer.Context): + """Passthrough to docker-compose inside the repository directory.""" + with local.cwd(get_repo_dir()): + docker_compose(*ctx.args) & FG + + +@app.command( + context_settings={"allow_extra_args": True, "ignore_unknown_options": True} +) +def invenio(ctx: typer.Context): + """Passthrough to invenio inside the running worker container.""" + with local.cwd(get_repo_dir()): + docker_compose("exec", "worker", "invenio", *ctx.args) & FG + + +@app.command( + context_settings={"allow_extra_args": True, "ignore_unknown_options": True} +) +def docker(ctx: typer.Context): + """Passthrough to docker inside the repository directory.""" + with local.cwd(get_repo_dir()): + docker_cmd[*ctx.args] & FG + + +@app.command( + name="invenio-cli", + context_settings={"allow_extra_args": True, "ignore_unknown_options": True}, +) +def invenio_cli_cmd(ctx: typer.Context): + """Passthrough to invenio-cli inside the repository directory.""" + from plumbum.cmd import invenio_cli + + with local.cwd(get_repo_dir()): + invenio_cli[*ctx.args] & FG + + +@app.command( + context_settings={"allow_extra_args": True, "ignore_unknown_options": True} +) +def aws(ctx: typer.Context): + """Passthrough to aws-cli with configured endpoint-url and credentials.""" + try: + from plumbum.cmd import aws as aws_cmd + except ImportError: + logger.error("AWS CLI not found in PATH.") + raise typer.Exit(1) + + aws_cmd["--endpoint-url", str(config.s3_endpoint_url), *ctx.args] & FG + + +if __name__ == "__main__": + app() diff --git a/cli/bitwarden.py b/cli/bitwarden.py new file mode 100644 index 0000000..c76bc3f --- /dev/null +++ b/cli/bitwarden.py @@ -0,0 +1,134 @@ +import json + +import typer +from loguru import logger +from plumbum import FG, ProcessExecutionError, local + +from cli.config import config +from cli.utils import get_project_root + +app = typer.Typer(help="Bitwarden integration workflows.") + +BW_SESSION_FILE = get_project_root() / ".bw_session" +ENV_FILE = get_project_root() / ".env" + + +def _get_bw(): + try: + from plumbum.cmd import bw + + return bw + except ImportError: + logger.error( + "Bitwarden CLI ('bw') not found. Please ensure it is installed or " + "run 'direnv allow' if you just updated devenv.nix." + ) + raise typer.Exit(1) + + +@app.command() +def login() -> bool: + """Log in to Bitwarden and cache the session token. Returns True if a new session was created.""" + bw = _get_bw() + + if config.bitwarden_server_url: + logger.info(f"Configuring Bitwarden server: {config.bitwarden_server_url}") + bw("config", "server", config.bitwarden_server_url) + + logger.info("Checking login status...") + try: + status_json = bw("status") + status = json.loads(status_json) + if status.get("status") == "unlocked": + logger.info("Vault is already unlocked. Using existing session.") + return False + + if status.get("status") == "unauthenticated": + logger.info("Not logged in. Initiating login...") + bw["login"] & FG + elif status.get("status") == "locked": + logger.info("Vault is locked. Initiating unlock...") + except ProcessExecutionError: + logger.warning("Failed to check status. Initiating login...") + bw["login"] & FG + + logger.info("Unlocking vault and saving session...") + try: + # Prompt for master password and output just the raw session key + session_key = bw("unlock", "--raw").strip() + BW_SESSION_FILE.write_text(session_key) + BW_SESSION_FILE.chmod(0o600) + logger.success("Session unlocked and cached securely in .bw_session") + return True + except ProcessExecutionError as e: + logger.error(f"Failed to unlock vault: {e}") + raise typer.Exit(1) + + +@app.command() +def pull(): + """Pull secrets from Bitwarden Secure Note and inject into .env""" + bw = _get_bw() + + if not BW_SESSION_FILE.exists(): + logger.error( + "No active Bitwarden session found. Please run `uv run cli bw login` first." + ) + raise typer.Exit(1) + + session_key = BW_SESSION_FILE.read_text().strip() + with local.env(BW_SESSION=session_key): + logger.info("Syncing vault...") + try: + bw("sync") + except ProcessExecutionError as e: + logger.warning(f"Failed to sync vault (continuing anyway): {e}") + + logger.info(f"Fetching item: {config.bitwarden_item_name}...") + try: + item_json = bw("get", "item", config.bitwarden_item_name) + item = json.loads(item_json) + except ProcessExecutionError as e: + logger.error( + f"Failed to fetch item '{config.bitwarden_item_name}'. Make sure the name is exact." + ) + logger.debug(f"Details: {e}") + raise typer.Exit(1) + + notes = item.get("notes") + if not notes: + logger.error( + f"The item '{config.bitwarden_item_name}' does not contain any notes." + ) + raise typer.Exit(1) + + try: + secrets = json.loads(notes) + except json.JSONDecodeError: + logger.error( + f"The notes in '{config.bitwarden_item_name}' are not valid JSON." + ) + raise typer.Exit(1) + + logger.info(f"Successfully fetched {len(secrets)} secrets from secure note.") + return secrets + + +@app.command() +def lock(): + """Lock the Bitwarden vault and remove the local session token.""" + bw = _get_bw() + + if BW_SESSION_FILE.exists(): + session_key = BW_SESSION_FILE.read_text().strip() + with local.env(BW_SESSION=session_key): + try: + bw("lock") + logger.success("Bitwarden vault locked successfully.") + except ProcessExecutionError as e: + logger.warning(f"Failed to lock vault cleanly: {e}") + + BW_SESSION_FILE.unlink() + logger.success("Local session token removed.") + else: + logger.info("No local session token found.") diff --git a/cli/bootstrap.py b/cli/bootstrap.py new file mode 100644 index 0000000..2bd28f8 --- /dev/null +++ b/cli/bootstrap.py @@ -0,0 +1,35 @@ +import typer +from loguru import logger +from plumbum.cmd import docker + +app = typer.Typer(help="Server Bootstrap Tool") + + +@app.command() +def server(): + """Bootstrap a fresh production server environment.""" + logger.info("Starting fresh server bootstrap process...") + + try: + docker_version = docker["--version"]().strip() + logger.success(f"Found {docker_version}") + except Exception: + logger.error("Docker is not installed or not in PATH!") + raise typer.Exit(1) + + try: + docker("compose", "version") + logger.success("Found docker compose plugin") + except Exception: + logger.error("Docker Compose plugin is not installed!") + raise typer.Exit(1) + + from cli.env import template as env_template + + logger.info("Generating .env template for configuration...") + env_template() + + logger.success("Bootstrap successful!") + logger.warning( + "Please fill out the generated .env.template and rename it to .env before running `uv run cli deploy prod-deploy`." + ) diff --git a/cli/config.py b/cli/config.py new file mode 100644 index 0000000..d1265e7 --- /dev/null +++ b/cli/config.py @@ -0,0 +1,67 @@ +from pydantic import AliasChoices, Field, SecretStr +from pydantic_settings import BaseSettings, SettingsConfigDict + +from cli.utils import get_project_root + + +class Config(BaseSettings): + """Centralized configuration values for the scripts.""" + + model_config = SettingsConfigDict( + env_file=get_project_root() / ".env", env_file_encoding="utf-8", extra="ignore" + ) + + s3_endpoint_url: str = Field( + default="https://eu-west-1.storage.impossibleapi.net", + validation_alias=AliasChoices( + "invenio_s3_endpoint_url", "s3_endpoint_url", "aws_endpoint_url" + ), + ) + s3_access_key_id: str | None = Field( + default=None, + validation_alias=AliasChoices( + "invenio_s3_access_key_id", "s3_access_key_id", "aws_access_key_id" + ), + ) + s3_secret_access_key: SecretStr | None = Field( + default=None, + validation_alias=AliasChoices( + "invenio_s3_secret_access_key", + "s3_secret_access_key", + "aws_secret_access_key", + ), + ) + s3_region: str = Field( + default="eu-west-1", + validation_alias=AliasChoices( + "invenio_s3_region_name", + "invenio_s3_region", + "s3_region", + "aws_default_region", + ), + ) + s3_bucket_name: str = Field( + default="iform-invenio", + validation_alias=AliasChoices( + "invenio_s3_bucket_name", "s3_bucket_name", "aws_s3_bucket" + ), + ) + + # Project Settings + repo_dir_name: str = Field(default="i-form-data-repository") + docker_compose_file: str = Field(default="docker-compose.full.yml") + docker_image_name: str = Field(default="i-form-data-repository:latest") + + # Dev Settings + theme_dir_name: str = Field(default="invenio-theme-iform") + config_dir_name: str = Field(default="invenio-config-iform") + local_wheels_dir: str = Field(default="local_wheels") + ssl_cert_name: str = Field(default="nginx.crt") + ssl_key_name: str = Field(default="nginx.key") + + # Bitwarden Settings + bitwarden_item_name: str = Field(default="I-Form Invenio S3 Keys") + bitwarden_server_url: str | None = Field(default=None) + + +config = Config() diff --git a/env/invenio.env b/cli/data/env.template similarity index 93% rename from env/invenio.env rename to cli/data/env.template index 1c0dbce..0204c9f 100644 --- a/env/invenio.env +++ b/cli/data/env.template @@ -1,3 +1,8 @@ +# Invenio-S3 Storage Backend Credentials +INVENIO_S3_ENDPOINT_URL=https://eu-west-1.storage.impossibleapi.net +INVENIO_S3_REGION_NAME=eu-west-1 +INVENIO_S3_BUCKET_NAME=iform-invenio + # Invenio-Theme INVENIO_THEME_LOGO=custom_assets/I-Form_logo.webp INVENIO_THEME_FRONTPAGE_TITLE="I-Form Invenio Data Repository" @@ -58,11 +63,6 @@ INVENIO_OAISERVER_ID_PREFIX=invenio-rdm # Invenio-Files-REST INVENIO_FILES_REST_STORAGE_FACTORY=invenio_s3.s3fs_storage_factory -# Invenio-S3 -INVENIO_S3_ENDPOINT_URL=https://s3.eu-west-1.amazonaws.com -INVENIO_S3_REGION_NAME=eu-west-1 -INVENIO_S3_BUCKET_NAME=i-form-invenio - # Invenio-Search INVENIO_SEARCH_HOSTS=search:9200 INVENIO_SEARCH_INDEX_PREFIX=invenio-rdm- diff --git a/cli/data/s3_cors.json b/cli/data/s3_cors.json new file mode 100644 index 0000000..d97aac8 --- /dev/null +++ b/cli/data/s3_cors.json @@ -0,0 +1,8 @@ +[ + { + "AllowedHeaders": [], + "AllowedMethods": ["GET"], + "AllowedOrigins": ["*"], + "ExposeHeaders": [] + } +] diff --git a/cli/deploy.py b/cli/deploy.py new file mode 100644 index 0000000..7eedb39 --- /dev/null +++ b/cli/deploy.py @@ -0,0 +1,261 @@ +import typer +from loguru import logger +from plumbum import local +from plumbum.cmd import docker, git, uv + +from cli.utils import docker_compose, get_project_root, get_repo_dir + +app = typer.Typer(help="Deployment Management Tool") + +ROOT_DIR = get_project_root() +REPO_DIR = get_repo_dir() +VERSIONS_DIR = ROOT_DIR / "versions" + + +import time + +import requests + + +def healthcheck(): + """Poll the localhost health endpoint to verify the stack is up.""" + logger.info("Running healthcheck...") + for _ in range(3): + try: + response = requests.get("http://localhost/health", timeout=5) + if response.status_code == 200: + logger.success("Healthcheck passed.") + return + except requests.RequestException: + pass + logger.info("Waiting 5 seconds before retrying...") + time.sleep(5) + + logger.error("Healthcheck failed.") + raise typer.Exit(1) + + +@app.command() +def tag_version(): + """Tag current version using bumpver and save docker images state.""" + VERSIONS_DIR.mkdir(exist_ok=True) + + logger.info("Bumping version with bumpver...") + try: + uv("run", "bumpver", "update") + except Exception as e: + logger.error(f"Bumpver failed: {e}") + + current_tag = git("describe", "--tags", "--abbrev=0").strip() + logger.info(f"Current tag is {current_tag}") + + with local.cwd(REPO_DIR): + images_output = docker_compose("images") + + version_file = VERSIONS_DIR / f"{current_tag}.txt" + + with open(version_file, "w") as f: + for line in images_output.splitlines(): + if "REPOSITORY" not in line: + f.write(line + "\n") + + logger.success(f"Saved image states to {version_file}") + + +@app.command() +def rollback(version: str = typer.Option(None, help="Specific tag to rollback to")): + """Rollback to a specific version or latest.""" + current_branch = git("branch", "--show-current").strip() + + if not version: + tags = git("tag", "--sort=-v:refname").splitlines() + if not tags: + logger.error("No tags found.") + raise typer.Exit(1) + version = tags[0] + + version_file = VERSIONS_DIR / f"{version}.txt" + + if not version_file.exists(): + logger.error(f"No version file found for {version} at {version_file}") + raise typer.Exit(1) + + logger.info(f"Pulling old images for {version}...") + with open(version_file, "r") as f: + for line in f: + parts = line.split() + if len(parts) >= 2: + repo, tag = parts[0], parts[1] + logger.info(f"Pulling {repo}:{tag}") + docker("pull", f"{repo}:{tag}") + + logger.info(f"Rolling back to {version}...") + git("checkout", version) + + try: + with local.cwd(REPO_DIR): + docker_compose("down") + docker_compose("build", "--no-cache") + docker_compose("up", "-d") + finally: + if current_branch: + git("switch", current_branch) + logger.success( + f"Rollback to {version} complete. Returned git to {current_branch}." + ) + else: + logger.success( + f"Rollback to {version} complete. Remained in detached HEAD." + ) + + +@app.command() +def cleanup_versions(): + """Keep only the latest 5 version tags and delete older ones.""" + tags = git("tag", "--sort=-v:refname").splitlines() + tags_to_delete = tags[5:] + + for tag in tags_to_delete: + if not tag: + continue + git("tag", "-d", tag) + version_file = VERSIONS_DIR / f"{tag}.txt" + if version_file.exists(): + version_file.unlink() + logger.info(f"Cleaned up {tag}") + + +@app.command() +def prod_deploy(): + """First-time deployment to production.""" + + logger.info("Deploying to production (first-time)...") + git("switch", "prod") + git("pull", "origin", "prod") + + with local.cwd(REPO_DIR): + docker( + "build", + "-t", + "i-form-data-repository:latest", + "--no-cache", + "--build-arg", + "INSTALL_LOCAL_WHEELS=false", + ".", + ) + docker_compose("up", "-d", "--wait") + + setup_cmd = "invenio db init && invenio db create && invenio alembic upgrade head && invenio collect -v && invenio index init" + docker_compose("exec", "worker", "bash", "-c", setup_cmd) + + logger.success("Production deployment complete!") + + +@app.command() +def prod_update( + auto_rollback: bool = typer.Option( + False, help="Automatically rollback if healthcheck fails" + ), +): + """Update the application stack, with optional auto-rollback.""" + lock_file = ROOT_DIR / "update.lock" + + if lock_file.exists(): + logger.error("Update already in progress (update.lock exists).") + raise typer.Exit(1) + + logger.info("Updating production deployment...") + + try: + lock_file.touch() + + logger.info("Tagging current version for potential rollback...") + tag_version() + + git("switch", "prod") + git("pull", "origin", "prod") + with local.cwd(REPO_DIR): + docker_compose("pull") + docker( + "build", + "-t", + "i-form-data-repository:latest", + "--no-cache", + "--build-arg", + "INSTALL_LOCAL_WHEELS=false", + ".", + ) + docker_compose("up", "-d", "--wait") + + update_cmd = "invenio alembic upgrade head && invenio collect -v" + docker_compose("exec", "worker", "bash", "-c", update_cmd) + + try: + healthcheck() + except typer.Exit: + if auto_rollback: + logger.warning("Healthcheck failed, triggering auto-rollback...") + rollback(None) + else: + logger.error( + "Healthcheck failed. Consider running 'uv run cli deploy rollback' manually." + ) + raise + + cleanup_versions() + logger.success("Production update complete!") + + finally: + if lock_file.exists(): + lock_file.unlink() + + +@app.command() +def merge_and_push_prod(): + """Merge main into prod and push all branches.""" + logger.info("Merging main into prod...") + current = git("branch", "--show-current").strip() + + try: + git("switch", "prod") + git("merge", "main") + git("switch", "main") + logger.info("Pushing all branches...") + git("push", "--all") + logger.success("Merged and pushed to production.") + finally: + if current: + git("switch", current) + + +@app.command() +def prod_clean(): + """Clean all production build artifacts.""" + logger.info("Cleaning production build artifacts...") + from plumbum.cmd import find, rm + + root = get_project_root() + with local.cwd(root): + rm("-rf", ".venv", "build", "dist") + for egg in local.path(".") // "*.egg-info": + rm("-rf", egg) + + try: + find( + ".", + "-type", + "d", + "-name", + "__pycache__", + "-exec", + "rm", + "-r", + "{}", + "+", + ) + except Exception: + pass + + rm("-rf", "static", "node_modules") + + logger.success("Clean complete. Re-create environment before next deploy.") diff --git a/cli/dev.py b/cli/dev.py new file mode 100644 index 0000000..a528c79 --- /dev/null +++ b/cli/dev.py @@ -0,0 +1,118 @@ +import trustme +import typer +from loguru import logger + +from cli.config import config +from cli.utils import docker_compose, get_project_root, get_repo_dir + +app = typer.Typer(help="Tool for generating development SSL certificates.") + + +@app.command() +def generate(): + """Generates a self-signed localhost certificate using trustme.""" + repo_dir = get_repo_dir() + nginx_dir = repo_dir / "docker" / "nginx" + + cert_path = repo_dir / config.ssl_cert_name + key_path = repo_dir / config.ssl_key_name + + if cert_path.exists() and key_path.exists(): + logger.info(f"Certificates already exist at {nginx_dir}. Skipping generation.") + return + + logger.info("Generating self-signed dev certificates using trustme...") + + ca = trustme.CA() + server_cert = ca.issue_cert("localhost", "127.0.0.1", "::1") + + server_cert.private_key_pem.write_to_path(key_path) + server_cert.cert_chain_pems[0].write_to_path(cert_path) + + logger.success(f"Successfully generated {cert_path.name} and {key_path.name}.") + + +@app.command() +def fmt(): + """Format codebase using prettier via npx.""" + logger.info("Running prettier via npx...") + from plumbum.cmd import npx + + try: + npx( + "prettier", + "--write", + "**/*.{js,jsx,ts,tsx,html,css,scss,sass,svelte,yaml,json,markdown}", + ) + logger.success("Formatting complete.") + except Exception as e: + logger.error(f"Formatting failed: {e}") + raise typer.Exit(1) + + +@app.command() +def build_wheels(): + """Build and copy wheels for local packages (theme and config).""" + from plumbum import local + from plumbum.cmd import cp, direnv, rm + + root = get_project_root() + theme_dir = root.parent / config.theme_dir_name + config_dir = root.parent / config.config_dir_name + repo_dir = get_repo_dir() + + logger.info("Building theme wheel...") + with local.cwd(theme_dir): + rm("-rf", "dist") + direnv("exec", ".", "uv", "build", "--package", config.theme_dir_name) + + logger.info("Building config wheel...") + with local.cwd(config_dir): + rm("-rf", "dist") + direnv("exec", ".", "uv", "build", "--package", config.config_dir_name) + + logger.info("Copying wheels to repository...") + wheels_dir = repo_dir / config.local_wheels_dir + wheels_dir.mkdir(exist_ok=True) + rm("-f", local.path(str(wheels_dir)) // "*.whl") + + for whl in local.path(str(theme_dir / "dist")) // "*.whl": + cp(whl, wheels_dir) + for whl in local.path(str(config_dir / "dist")) // "*.whl": + cp(whl, wheels_dir) + + logger.success("Successfully built and copied fresh wheels.") + + +@app.command() +def test_local(): + """Rebuild and restart local docker stack with fresh wheels.""" + from plumbum import local + from plumbum.cmd import curl, docker + + build_wheels() + + logger.info("Rebuilding and restarting local docker stack...") + repo_dir = get_repo_dir() + + with local.cwd(repo_dir): + docker_compose("down") + docker( + "build", + "-t", + config.docker_image_name, + "--no-cache", + "--build-arg", + "INSTALL_LOCAL_WHEELS=true", + ".", + ) + docker_compose("up", "-d", "--wait") + + setup_cmd = "invenio db init || true; invenio db create || true; invenio alembic upgrade || true; invenio index init || true" + docker_compose("exec", "worker", "bash", "-c", setup_cmd) + + try: + curl("-skI", "https://127.0.0.1:8443/") + logger.success("HTTPS verification successful.") + except Exception: + logger.warning("HTTPS verification failed.") diff --git a/cli/env.py b/cli/env.py new file mode 100644 index 0000000..ae54573 --- /dev/null +++ b/cli/env.py @@ -0,0 +1,24 @@ +import typer +from loguru import logger + +from cli.utils import get_project_root + +app = typer.Typer(help="Environment validation and templating.") + +import shutil + + +@app.command() +def template(): + """Generate a .env.template file.""" + logger.info("Generating .env.template...") + + source = get_project_root() / "cli" / "data" / "env.template" + target = get_project_root() / ".env.template" + + if not source.exists(): + logger.error(f"Template file not found at {source}") + raise typer.Exit(1) + + shutil.copy2(source, target) + logger.success(f"Generated {target.name}") diff --git a/cli/s3.py b/cli/s3.py new file mode 100644 index 0000000..c2931d9 --- /dev/null +++ b/cli/s3.py @@ -0,0 +1,110 @@ +import json +from pathlib import Path + +import boto3 +import typer +from botocore.client import Config +from loguru import logger + +from cli.config import config +from cli.utils import get_project_root + +app = typer.Typer(help="Impossible Cloud S3 Management Tool") + + +def get_s3_client(): + if not config.s3_access_key_id or not config.s3_secret_access_key: + logger.warning( + "S3_ACCESS_KEY_ID or S3_SECRET_ACCESS_KEY not found in environment. Boto3 will attempt to use default credential provider chain." + ) + + kwargs = { + "service_name": "s3", + "endpoint_url": str(config.s3_endpoint_url), + "region_name": config.s3_region, + "config": Config(signature_version="s3v4"), + } + + if config.s3_access_key_id and config.s3_secret_access_key: + kwargs["aws_access_key_id"] = config.s3_access_key_id + kwargs["aws_secret_access_key"] = config.s3_secret_access_key.get_secret_value() + else: + logger.info("Using default AWS credential provider chain...") + + return boto3.client(**kwargs) + + +@app.command() +def list_buckets(): + """List all buckets in the S3 account.""" + client = get_s3_client() + response = client.list_buckets() + logger.info("Buckets:") + for bucket in response.get("Buckets", []): + logger.info(f" - {bucket['Name']}") + + +@app.command() +def create_bucket(bucket_name: str): + """Create a new bucket.""" + client = get_s3_client() + try: + if config.s3_region == "us-east-1": + client.create_bucket(Bucket=bucket_name) + else: + client.create_bucket( + Bucket=bucket_name, + CreateBucketConfiguration={"LocationConstraint": config.s3_region}, + ) + logger.success(f"Successfully created bucket: {bucket_name}") + except Exception as e: + logger.error(f"Error creating bucket {bucket_name}: {e}") + raise typer.Exit(1) + + +@app.command() +def upload_file( + file_path: Path = typer.Argument(..., help="Path to local file"), + bucket_name: str = typer.Argument(..., help="Target bucket name"), + object_name: str | None = typer.Option( + None, "--object-name", help="S3 object name (defaults to file name)" + ), +): + """Upload a local file to a bucket.""" + client = get_s3_client() + if object_name is None: + object_name = file_path.name + try: + client.upload_file(str(file_path), bucket_name, object_name) + logger.success(f"Uploaded {file_path} to {bucket_name}/{object_name}") + except Exception as e: + logger.error(f"Error uploading file: {e}") + raise typer.Exit(1) + + +@app.command() +def apply_cors( + bucket_name: str = typer.Argument(config.s3_bucket_name, help="Target bucket name"), + cors_file: Path = typer.Option( + get_project_root() / "cli" / "data" / "s3_cors.json", + help="Path to CORS JSON file", + ), +): + """Apply a CORS configuration from a JSON file to a bucket.""" + client = get_s3_client() + + if not cors_file.exists(): + logger.error(f"CORS file not found: {cors_file}") + raise typer.Exit(1) + + try: + with open(cors_file, "r") as f: + cors_rules = json.load(f) + + client.put_bucket_cors( + Bucket=bucket_name, CORSConfiguration={"CORSRules": cors_rules} + ) + logger.success(f"Successfully applied CORS configuration to {bucket_name}") + except Exception as e: + logger.error(f"Failed to apply CORS config: {e}") + raise typer.Exit(1) diff --git a/cli/utils.py b/cli/utils.py new file mode 100644 index 0000000..086768f --- /dev/null +++ b/cli/utils.py @@ -0,0 +1,83 @@ +import subprocess +from pathlib import Path + +from loguru import logger + + +def get_project_root() -> Path: + """Dynamically determine the project root using git.""" + try: + result = subprocess.run( + ["git", "rev-parse", "--show-toplevel"], + capture_output=True, + text=True, + check=True, + ) + return Path(result.stdout.strip()) + except subprocess.CalledProcessError: + logger.warning( + "Not inside a git repository, falling back to script path resolution." + ) + return Path(__file__).resolve().parent.parent + + +def get_repo_dir() -> Path: + """Return the repository directory path.""" + from cli.config import config + + return get_project_root() / config.repo_dir_name + + +def get_dynamic_s3_credentials() -> dict: + import atexit + + import boto3 + + from cli.bitwarden import lock as bw_lock + from cli.bitwarden import login as bw_login + from cli.bitwarden import pull as bw_pull + + logger.info("Checking for native AWS credentials...") + session = boto3.Session() + creds = session.get_credentials() + if creds and creds.access_key and creds.secret_key: + logger.success("Found existing AWS credentials natively. Skipping Bitwarden.") + return { + "INVENIO_S3_ACCESS_KEY_ID": creds.access_key, + "INVENIO_S3_SECRET_ACCESS_KEY": creds.secret_key, + } + + logger.info("No native AWS credentials found. Falling back to Bitwarden...") + if bw_login(): + atexit.register(bw_lock) + + return bw_pull() + + +_deploy_env_vars = None + + +def docker_compose(*args): + global _deploy_env_vars + import typer + from plumbum import local + from plumbum.cmd import docker + + from cli.config import config + + env_file = get_project_root() / ".env" + + if not env_file.exists(): + logger.error( + "The .env file does not exist! Please run `uv run cli bootstrap server` first to generate and configure it." + ) + raise typer.Exit(1) + + if _deploy_env_vars is None: + _deploy_env_vars = get_dynamic_s3_credentials() + + compose = docker[ + "compose", "-f", config.docker_compose_file, "--env-file", str(env_file) + ] + with local.env(**_deploy_env_vars): + return compose(*args) diff --git a/devenv.nix b/devenv.nix index 71770f4..c4092cd 100644 --- a/devenv.nix +++ b/devenv.nix @@ -7,6 +7,7 @@ }: { packages = with pkgs; [ awscli2 + bitwarden-cli cairo cairomm git @@ -18,6 +19,13 @@ dotenv.enable = true; + enterShell = '' + # Only set the exit trap if we are NOT in a direnv subshell + if [ -z "$DIRENV_DIR" ]; then + trap 'uv run cli bw lock' EXIT + fi + ''; + languages = { python = { enable = true; @@ -36,5 +44,8 @@ cairomm ]); NIX_LD = lib.fileContents "${pkgs.stdenv.cc}/nix-support/dynamic-linker"; + AWS_SHARED_CREDENTIALS_FILE = "${toString ./.}/.aws/credentials"; + AWS_CONFIG_FILE = "${toString ./.}/.aws/config"; + AWS_ENDPOINT_URL = "https://eu-west-1.storage.impossibleapi.net"; }; } diff --git a/devenv.yaml b/devenv.yaml index 184b866..d75e0e0 100644 --- a/devenv.yaml +++ b/devenv.yaml @@ -1,8 +1,8 @@ inputs: - nixpkgs: - url: github:cachix/devenv-nixpkgs/rolling - nixpkgs-python: - url: github:cachix/nixpkgs-python - inputs: - nixpkgs: - follows: nixpkgs + nixpkgs: + url: github:cachix/devenv-nixpkgs/rolling + nixpkgs-python: + url: github:cachix/nixpkgs-python + inputs: + nixpkgs: + follows: nixpkgs diff --git a/env.sh b/env.sh deleted file mode 100755 index ae803a0..0000000 --- a/env.sh +++ /dev/null @@ -1,20 +0,0 @@ -#!/usr/bin/env bash -if [[ "$*" == *--dev* ]]; then - echo "Configuring env in development mode" - ENV_FILE="invenio_dev.env" -else - echo "Configuring env in production mode" - ENV_FILE="invenio_prod.env" -fi - -{ - echo "# Secrets fetched from AWS Secrets Manager" - aws secretsmanager get-secret-value --secret-id Invenio | \ - jq -r '.SecretString | fromjson | to_entries | .[] | .key + "=\"" + .value + "\""' - echo "" -} > secrets.env - -cat secrets.env ./env/invenio.env "./env/$ENV_FILE" > .env -rm secrets.env - -echo "Environment set up using $ENV_FILE" diff --git a/env/development/caddy/Caddyfile b/env/development/caddy/Caddyfile deleted file mode 100644 index bc48e0f..0000000 --- a/env/development/caddy/Caddyfile +++ /dev/null @@ -1,18 +0,0 @@ -{ - debug -} - -localhost { - reverse_proxy invenio-rdm:5000 { - header_down Cache-Control "no-store, no-cache, must-revalidate, proxy-revalidate, max-age=0" - header_down Pragma "no-cache" - header_down Expires "0" - } - - encode gzip - - log { - format console - level DEBUG - } -} diff --git a/env/invenio_dev.env b/env/invenio_dev.env deleted file mode 100644 index 8f06fb1..0000000 --- a/env/invenio_dev.env +++ /dev/null @@ -1,6 +0,0 @@ -# Development environment settings -INVENIO_APP_ALLOWED_HOSTS=invenio.i-form.ie,localhost,localhost:8443,127.0.0.1,127.0.0.1:8443,0.0.0.0,0.0.0.0:8443 -INVENIO_SITE_UI_URL=https://localhost -INVENIO_SITE_API_URL=https://localhost -COMPOSE_PROFILES=development -FLASK_DEBUG=true diff --git a/env/invenio_prod.env b/env/invenio_prod.env deleted file mode 100644 index 41ce9f5..0000000 --- a/env/invenio_prod.env +++ /dev/null @@ -1,6 +0,0 @@ -# Production environment settings -INVENIO_APP_ALLOWED_HOSTS=invenio.i-form.ie -INVENIO_SITE_UI_URL=https://invenio.i-form.ie -INVENIO_SITE_API_URL=https://invenio.i-form.ie/api -COMPOSE_PROFILES=production -FLASK_DEBUG=false diff --git a/env/production/caddy/Caddyfile b/env/production/caddy/Caddyfile deleted file mode 100644 index 1f8c574..0000000 --- a/env/production/caddy/Caddyfile +++ /dev/null @@ -1,8 +0,0 @@ -{ - admin off -} - -invenio.i-form.ie { - reverse_proxy invenio-rdm:5000 - encode gzip -} diff --git a/i-form-data-repository/README.md b/i-form-data-repository/README.md index f177096..eaf937d 100644 --- a/i-form-data-repository/README.md +++ b/i-form-data-repository/README.md @@ -18,8 +18,11 @@ process. Once running, visit https://127.0.0.1 in your browser. -**Note**: The server is using a self-signed SSL certificate, so your browser -will issue a warning that you will have to by-pass. +**Note**: The server uses a self-signed SSL certificate. You must generate it first by running: +```console +just generate-dev-certs +``` +Your browser will issue a warning that you will have to by-pass. ## Overview diff --git a/i-form-data-repository/app_data/vocabularies.yaml b/i-form-data-repository/app_data/vocabularies.yaml index 57d6604..bb064a6 100644 --- a/i-form-data-repository/app_data/vocabularies.yaml +++ b/i-form-data-repository/app_data/vocabularies.yaml @@ -1,10 +1,10 @@ subjects: - pid-type: sub - schemes: - - id: FOS - name: Fields of Science and Technology - uri: "http://www.oecd.org/science/inno/38235147.pdf" - data-file: vocabularies/subjects_oecd_fos.yaml + pid-type: sub + schemes: + - id: FOS + name: Fields of Science and Technology + uri: "http://www.oecd.org/science/inno/38235147.pdf" + data-file: vocabularies/subjects_oecd_fos.yaml # Minimal example vocabularies # can be used for quick testing, or a basis for building your own customized vocabularies. #names: diff --git a/i-form-data-repository/app_data/vocabularies/languages.yaml b/i-form-data-repository/app_data/vocabularies/languages.yaml index c2ec22a..6cdc995 100644 --- a/i-form-data-repository/app_data/vocabularies/languages.yaml +++ b/i-form-data-repository/app_data/vocabularies/languages.yaml @@ -1,96 +1,96 @@ - id: ara props: - alpha_2: ar + alpha_2: ar tags: - - macrolanguage - - living + - macrolanguage + - living title: - en: Arabic + en: Arabic - id: cym props: - alpha_2: cy + alpha_2: cy tags: - - individual - - living + - individual + - living title: - en: Welsh + en: Welsh - id: deu props: - alpha_2: de + alpha_2: de tags: - - individual - - living + - individual + - living title: - en: German + en: German - id: eng props: - alpha_2: en + alpha_2: en tags: - - individual - - living + - individual + - living title: - en: English + en: English - id: fra props: - alpha_2: fr + alpha_2: fr tags: - - individual - - living + - individual + - living title: - en: French + en: French - id: ita props: - alpha_2: it + alpha_2: it tags: - - individual - - living + - individual + - living title: - en: Italian + en: Italian - id: nor props: - alpha_2: 'no' + alpha_2: "no" tags: - - macrolanguage - - living + - macrolanguage + - living title: - en: Norwegian + en: Norwegian - id: roh props: - alpha_2: rm + alpha_2: rm tags: - - individual - - living + - individual + - living title: - en: Romansh + en: Romansh - id: spa props: - alpha_2: es + alpha_2: es tags: - - individual - - living + - individual + - living title: - en: Spanish + en: Spanish - id: tur props: - alpha_2: tr + alpha_2: tr tags: - - individual - - living + - individual + - living title: - en: Turkish + en: Turkish - id: aag props: - alpha_2: '' + alpha_2: "" tags: - - individual - - living + - individual + - living title: - en: Ambrak + en: Ambrak - id: aah props: - alpha_2: '' + alpha_2: "" tags: - - individual - - living + - individual + - living title: - en: Abu' Arapesh + en: Abu' Arapesh diff --git a/i-form-data-repository/app_data/vocabularies/names.yaml b/i-form-data-repository/app_data/vocabularies/names.yaml index d4e3161..96b2020 100644 --- a/i-form-data-repository/app_data/vocabularies/names.yaml +++ b/i-form-data-repository/app_data/vocabularies/names.yaml @@ -1,20 +1,20 @@ - affiliations: - - name: University of Zurich - - name: Humboldt University of Berlin - - name: Kaiser Wilhelm Institute for Physics + - name: University of Zurich + - name: Humboldt University of Berlin + - name: Kaiser Wilhelm Institute for Physics family_name: Einstein given_name: Albert id: gnd:118529579 identifiers: - - identifier: gnd:118529579 - scheme: gnd + - identifier: gnd:118529579 + scheme: gnd - affiliations: - - name: University of Cambridge - - name: California Institute of Technology - - name: University of Oxford + - name: University of Cambridge + - name: California Institute of Technology + - name: University of Oxford family_name: Hawking given_name: Stephen id: 0000-0002-9079-593X identifiers: - - identifier: https://orcid.org/0000-0002-9079-593X - scheme: orcid + - identifier: https://orcid.org/0000-0002-9079-593X + scheme: orcid diff --git a/i-form-data-repository/assets/js/invenio_app_rdm/overridableRegistry/mapping.js b/i-form-data-repository/assets/js/invenio_app_rdm/overridableRegistry/mapping.js index 0d15027..d403dbb 100644 --- a/i-form-data-repository/assets/js/invenio_app_rdm/overridableRegistry/mapping.js +++ b/i-form-data-repository/assets/js/invenio_app_rdm/overridableRegistry/mapping.js @@ -8,4 +8,4 @@ * Add here all the overridden components of your app. */ -export const overriddenComponents = {} \ No newline at end of file +export const overriddenComponents = {}; diff --git a/i-form-data-repository/docker-services.yml b/i-form-data-repository/docker-services.yml index 161707e..038e53d 100644 --- a/i-form-data-repository/docker-services.yml +++ b/i-form-data-repository/docker-services.yml @@ -17,8 +17,15 @@ services: - "INVENIO_SEARCH_HOSTS=['search:9200']" - "INVENIO_SECRET_KEY=CHANGE_ME" - "INVENIO_SQLALCHEMY_DATABASE_URI=postgresql+psycopg2://i-form-data-repository:i-form-data-repository@db/i-form-data-repository" - - "INVENIO_WSGI_PROXIES=2" + - "INVENIO_WSGI_PROXIES=1" - "INVENIO_RATELIMIT_STORAGE_URL=redis://cache:6379/3" + - "INVENIO_S3_ACCESS_KEY_ID=${INVENIO_S3_ACCESS_KEY_ID}" + - "INVENIO_S3_SECRET_ACCESS_KEY=${INVENIO_S3_SECRET_ACCESS_KEY}" + logging: + driver: "json-file" + options: + max-size: "50m" + max-file: "3" frontend: build: context: ./docker/nginx/ @@ -28,6 +35,11 @@ services: ports: - "${DOCKER_SERVICES_IP_BIND:-127.0.0.1}:8080:80" - "${DOCKER_SERVICES_IP_BIND:-127.0.0.1}:8443:443" + logging: + driver: "json-file" + options: + max-size: "50m" + max-file: "3" cache: image: docker.io/library/redis:7 restart: "unless-stopped" @@ -35,14 +47,26 @@ services: ports: - "${DOCKER_SERVICES_IP_BIND:-127.0.0.1}:6379:6379" db: - image: docker.io/library/postgres:14.13 + image: registry.developers.crunchydata.com/crunchydata/crunchy-postgres:ubi8-14.11-0 restart: "unless-stopped" environment: - "POSTGRES_USER=i-form-data-repository" - "POSTGRES_PASSWORD=i-form-data-repository" - "POSTGRES_DB=i-form-data-repository" + - "PGBACKREST_REPO1_TYPE=s3" + - "PGBACKREST_REPO1_S3_BUCKET=${INVENIO_S3_BUCKET_NAME}" + - "PGBACKREST_REPO1_S3_ENDPOINT=${INVENIO_S3_ENDPOINT_URL}" + - "PGBACKREST_REPO1_S3_KEY=${INVENIO_S3_ACCESS_KEY_ID}" + - "PGBACKREST_REPO1_S3_KEY_SECRET=${INVENIO_S3_SECRET_ACCESS_KEY}" + - "PGBACKREST_REPO1_S3_REGION=${INVENIO_S3_REGION_NAME}" + - "PGBACKREST_REPO1_PATH=/backup/meta_db" ports: - "${DOCKER_SERVICES_IP_BIND:-127.0.0.1}:5432:5432" + logging: + driver: "json-file" + options: + max-size: "50m" + max-file: "3" pgadmin: image: docker.io/dpage/pgadmin4:6 restart: "unless-stopped" @@ -66,7 +90,7 @@ services: # settings only for development. DO NOT use in production! - bootstrap.memory_lock=true - "OPENSEARCH_JAVA_OPTS=-Xms512m -Xmx512m" - - "OPENSEARCH_INITIAL_ADMIN_PASSWORD=guekxe3mvqieke1!%&ieIADE" + - "OPENSEARCH_INITIAL_ADMIN_PASSWORD=${OPENSEARCH_PASSWORD:-guekxe3mvqieke1!%&ieIADE}" - "DISABLE_INSTALL_DEMO_CONFIG=true" - "DISABLE_SECURITY_PLUGIN=true" - "discovery.type=single-node" @@ -82,6 +106,11 @@ services: ports: - "${DOCKER_SERVICES_IP_BIND:-127.0.0.1}:9200:9200" - "${DOCKER_SERVICES_IP_BIND:-127.0.0.1}:9600:9600" + logging: + driver: "json-file" + options: + max-size: "50m" + max-file: "3" opensearch-dashboards: image: docker.io/opensearchproject/opensearch-dashboards:2.17.1 ports: diff --git a/i-form-data-repository/docker/nginx/.gitignore b/i-form-data-repository/docker/nginx/.gitignore new file mode 100644 index 0000000..1b01e0e --- /dev/null +++ b/i-form-data-repository/docker/nginx/.gitignore @@ -0,0 +1,2 @@ +test.crt +test.key diff --git a/i-form-data-repository/docker/pgadmin/servers.json b/i-form-data-repository/docker/pgadmin/servers.json index be36484..bebf881 100644 --- a/i-form-data-repository/docker/pgadmin/servers.json +++ b/i-form-data-repository/docker/pgadmin/servers.json @@ -1,13 +1,13 @@ { - "Servers": { - "1": { - "Name": "i-form-data-repository-db", - "Group": "Servers", - "Host": "i-form-data-repository-db-1", - "Port": 5432, - "MaintenanceDB": "postgres", - "Username": "i-form-data-repository", - "SSLMode": "prefer" + "Servers": { + "1": { + "Name": "i-form-data-repository-db", + "Group": "Servers", + "Host": "i-form-data-repository-db-1", + "Port": 5432, + "MaintenanceDB": "postgres", + "Username": "i-form-data-repository", + "SSLMode": "prefer" + } } - } } diff --git a/i-form-data-repository/patch_js_translations.py b/i-form-data-repository/patch_js_translations.py index 4a84061..f9f798c 100644 --- a/i-form-data-repository/patch_js_translations.py +++ b/i-form-data-repository/patch_js_translations.py @@ -1,45 +1,46 @@ import glob +import json import os import shutil -import json + def main(): # 1. Ensure ga directories exist and have translations.json packages = [ - 'invenio_communities', - 'invenio_search_ui', - 'invenio_app_rdm', - 'invenio_requests', - 'invenio_jobs', - 'invenio_rdm_records', - 'invenio_administration' + "invenio_communities", + "invenio_search_ui", + "invenio_app_rdm", + "invenio_requests", + "invenio_jobs", + "invenio_rdm_records", + "invenio_administration", ] bases = [ - '/opt/invenio/src/.venv/lib/python3.12/site-packages', - '/opt/invenio/var/instance/assets/translations' + "/opt/invenio/src/.venv/lib/python3.12/site-packages", + "/opt/invenio/var/instance/assets/translations", ] for pkg in packages: for base in bases: for root, dirs, files_in_dir in os.walk(base): - if root.endswith('messages') and pkg in root: - ga_dir = os.path.join(root, 'ga') + if root.endswith("messages") and pkg in root: + ga_dir = os.path.join(root, "ga") os.makedirs(ga_dir, exist_ok=True) - json_path = os.path.join(ga_dir, 'translations.json') + json_path = os.path.join(ga_dir, "translations.json") if not os.path.exists(json_path) or os.path.getsize(json_path) <= 2: - with open(json_path, 'w') as fp: - fp.write('{}') + with open(json_path, "w") as fp: + fp.write("{}") print(f"Created empty translations.json: {json_path}") # 2. Copy the actual compiled translations if they exist copies = [ ( - '/opt/invenio/src/.venv/lib/python3.12/site-packages/invenio_communities/assets/semantic-ui/translations/invenio_communities/messages/ga/translations.json', - '/opt/invenio/var/instance/assets/translations/invenio_communities/messages/ga/translations.json' + "/opt/invenio/src/.venv/lib/python3.12/site-packages/invenio_communities/assets/semantic-ui/translations/invenio_communities/messages/ga/translations.json", + "/opt/invenio/var/instance/assets/translations/invenio_communities/messages/ga/translations.json", ), ( - '/opt/invenio/src/.venv/lib/python3.12/site-packages/invenio_search_ui/assets/semantic-ui/translations/invenio_search_ui/messages/ga/translations.json', - '/opt/invenio/var/instance/assets/translations/invenio_search_ui/messages/ga/translations.json' - ) + "/opt/invenio/src/.venv/lib/python3.12/site-packages/invenio_search_ui/assets/semantic-ui/translations/invenio_search_ui/messages/ga/translations.json", + "/opt/invenio/var/instance/assets/translations/invenio_search_ui/messages/ga/translations.json", + ), ] for src, dst in copies: if os.path.exists(src): @@ -48,57 +49,68 @@ def main(): print(f"Copied compiled translations: {src} -> {dst}") # 3. Extract app_rdm translations from global ga.json - global_ga = '/opt/invenio/var/instance/translations/ga.json' - app_rdm_dst = '/opt/invenio/var/instance/assets/translations/invenio_app_rdm/messages/ga/translations.json' + global_ga = "/opt/invenio/var/instance/translations/ga.json" + app_rdm_dst = "/opt/invenio/var/instance/assets/translations/invenio_app_rdm/messages/ga/translations.json" if os.path.exists(global_ga): try: - with open(global_ga, 'r') as fp: + with open(global_ga, "r") as fp: ga_data = json.load(fp) - app_rdm_data = ga_data.get('invenio_app_rdm', {}) + app_rdm_data = ga_data.get("invenio_app_rdm", {}) os.makedirs(os.path.dirname(app_rdm_dst), exist_ok=True) - with open(app_rdm_dst, 'w') as fp: + with open(app_rdm_dst, "w") as fp: json.dump(app_rdm_data, fp, indent=2) print(f"Extracted invenio_app_rdm translations to {app_rdm_dst}") - + # Also extract search_ui and communities if they were not copied - search_ui_dst = '/opt/invenio/var/instance/assets/translations/invenio_search_ui/messages/ga/translations.json' - if 'invenio_search_ui' in ga_data: + search_ui_dst = "/opt/invenio/var/instance/assets/translations/invenio_search_ui/messages/ga/translations.json" + if "invenio_search_ui" in ga_data: os.makedirs(os.path.dirname(search_ui_dst), exist_ok=True) - with open(search_ui_dst, 'w') as fp: - json.dump(ga_data['invenio_search_ui'], fp, indent=2) + with open(search_ui_dst, "w") as fp: + json.dump(ga_data["invenio_search_ui"], fp, indent=2) print(f"Extracted invenio_search_ui translations to {search_ui_dst}") - - communities_dst = '/opt/invenio/var/instance/assets/translations/invenio_communities/messages/ga/translations.json' - if 'invenio_communities' in ga_data: + + communities_dst = "/opt/invenio/var/instance/assets/translations/invenio_communities/messages/ga/translations.json" + if "invenio_communities" in ga_data: os.makedirs(os.path.dirname(communities_dst), exist_ok=True) - with open(communities_dst, 'w') as fp: - json.dump(ga_data['invenio_communities'], fp, indent=2) - print(f"Extracted invenio_communities translations to {communities_dst}") + with open(communities_dst, "w") as fp: + json.dump(ga_data["invenio_communities"], fp, indent=2) + print( + f"Extracted invenio_communities translations to {communities_dst}" + ) except Exception as e: print(f"Error extracting translations: {e}") # 4. Patch all _generatedTranslations.js files - files = glob.glob('/opt/invenio/src/.venv/lib/python3.12/site-packages/**/_generatedTranslations.js', recursive=True) + glob.glob('/opt/invenio/var/instance/assets/**/_generatedTranslations.js', recursive=True) + files = glob.glob( + "/opt/invenio/src/.venv/lib/python3.12/site-packages/**/_generatedTranslations.js", + recursive=True, + ) + glob.glob( + "/opt/invenio/var/instance/assets/**/_generatedTranslations.js", recursive=True + ) for f in files: - with open(f, 'r') as fp: + with open(f, "r") as fp: content = fp.read() - if 'TRANSLATE_GA' not in content: - lines = content.split('\n') + if "TRANSLATE_GA" not in content: + lines = content.split("\n") last_import = -1 for i, line in enumerate(lines): - if line.startswith('import '): + if line.startswith("import "): last_import = i if last_import != -1: - lines.insert(last_import + 1, 'import TRANSLATE_GA from "./ga/translations.json";') - content = '\n'.join(lines) - if 'export const translations = {' in content: - content = content.replace( - 'export const translations = {', - 'export const translations = {\n ga: { translation: TRANSLATE_GA },' + lines.insert( + last_import + 1, + 'import TRANSLATE_GA from "./ga/translations.json";', ) - with open(f, 'w') as fp: + content = "\n".join(lines) + if "export const translations = {" in content: + content = content.replace( + "export const translations = {", + "export const translations = {\n ga: { translation: TRANSLATE_GA },", + ) + with open(f, "w") as fp: fp.write(content) print(f"Patched _generatedTranslations.js: {f}") -if __name__ == '__main__': + +if __name__ == "__main__": main() diff --git a/i-form-data-repository/site/i_form_data_repository/views.py b/i-form-data-repository/site/i_form_data_repository/views.py index c355ac8..338992e 100644 --- a/i-form-data-repository/site/i_form_data_repository/views.py +++ b/i-form-data-repository/site/i_form_data_repository/views.py @@ -2,6 +2,7 @@ from flask import Blueprint + # # Registration # diff --git a/i-form-data-repository/translations/ga.json b/i-form-data-repository/translations/ga.json index a6878ba..35b0b4b 100644 --- a/i-form-data-repository/translations/ga.json +++ b/i-form-data-repository/translations/ga.json @@ -1,23 +1,23 @@ { - "invenio_search_ui": { - "invenio_search_ui:Search records...": "Cuardaigh taifid..." - }, - "invenio_communities": { - "invenio_communities:You are not a member of any community.": "Níl tú mar bhall d'aon phobal.", - "invenio_communities:There are no new communities.": "Níl aon phobail nua ann.", - "invenio_communities:My Communities": "Mo Phobail", - "invenio_communities:New Communities": "Pobail Nua", - "invenio_communities:Search communities...": "Cuardaigh pobail...", - "invenio_communities:Organize, curate and share your research. Ideal for research projects, departments or temporary working groups.": "Eagraigh, coimeád agus comhroinn do chuid taighde. Ideal do thionscadail taighde, ranna nó grúpaí oibre sealadacha." - }, - "invenio_app_rdm": { - "invenio_app_rdm:Search records...": "Cuardaigh taifid...", - "invenio_app_rdm:Search in my communities": "Cuardaigh i mo phobail", - "invenio_app_rdm:Search in my communities...": "Cuardaigh i mo phobail...", - "invenio_app_rdm:My communities": "Mo phobail", - "invenio_app_rdm:Search in my uploads...": "Cuardaigh i mo chuid uaslódálacha...", - "invenio_app_rdm:My uploads": "Mo chuid uaslódálacha", - "invenio_app_rdm:Overview": "Foramharc", - "invenio_app_rdm:Uploads": "Uaslódálacha" - } + "invenio_search_ui": { + "invenio_search_ui:Search records...": "Cuardaigh taifid..." + }, + "invenio_communities": { + "invenio_communities:You are not a member of any community.": "Níl tú mar bhall d'aon phobal.", + "invenio_communities:There are no new communities.": "Níl aon phobail nua ann.", + "invenio_communities:My Communities": "Mo Phobail", + "invenio_communities:New Communities": "Pobail Nua", + "invenio_communities:Search communities...": "Cuardaigh pobail...", + "invenio_communities:Organize, curate and share your research. Ideal for research projects, departments or temporary working groups.": "Eagraigh, coimeád agus comhroinn do chuid taighde. Ideal do thionscadail taighde, ranna nó grúpaí oibre sealadacha." + }, + "invenio_app_rdm": { + "invenio_app_rdm:Search records...": "Cuardaigh taifid...", + "invenio_app_rdm:Search in my communities": "Cuardaigh i mo phobail", + "invenio_app_rdm:Search in my communities...": "Cuardaigh i mo phobail...", + "invenio_app_rdm:My communities": "Mo phobail", + "invenio_app_rdm:Search in my uploads...": "Cuardaigh i mo chuid uaslódálacha...", + "invenio_app_rdm:My uploads": "Mo chuid uaslódálacha", + "invenio_app_rdm:Overview": "Foramharc", + "invenio_app_rdm:Uploads": "Uaslódálacha" + } } diff --git a/index.html b/index.html deleted file mode 100644 index a511de8..0000000 --- a/index.html +++ /dev/null @@ -1,443 +0,0 @@ - - - - - - - - - I-Form Data Repository - - - - - - - - - - - -
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Test Instance

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This is the test instance of the I-Form Repository.

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Research Results

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Frontpage: Description for research results
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Publications

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Frontpage: Description for publications
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Educational Resources

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Frontpage: Description for open educational resources
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Recent uploads

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There are no public records to show.

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Need help?

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We can help with:

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  • Uploading your research results, software, preprints, etc.
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  • Increasing upload limit beyond our default policy of 10GB.
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  • Establishing contact with data stewards.
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  • Finding individual solutions.
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Good reasons to use the I-Form Repository

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  • Safe — Your research results are permanently available.
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  • - Trusted — A service from I-Form, based on software developed by - CERN. -
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  • - Citeable — Every upload is assigned a Digital Object Identifier - (DOI). -
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  • - No waiting time — Uploads are made available online as soon as - you hit publish. Your DOI is registered within seconds. -
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  • - Open or closed — You determine the visibility of your uploads. A - restricted access mode is possible. -
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  • - Versioning — Easily update your dataset with the versioning - feature. -
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  • - Usage statistics — All uploads display standards compliant usage - statistics. (More) -
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- - - - - - \ No newline at end of file diff --git a/justfile b/justfile deleted file mode 100644 index cdaee06..0000000 --- a/justfile +++ /dev/null @@ -1,161 +0,0 @@ -update auto-rollback="false": - #!/usr/bin/env bash - if [ ! -f update.lock ]; then - touch update.lock - just tag-version - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env down - git pull - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env pull - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env build - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env up -d --wait - rm update.lock - if [ "{{auto-rollback}}" = "true" ]; then - just healthcheck || just rollback - else - just healthcheck || echo "Healthcheck failed. Consider rolling back by running \"just rollback\" manually if needed." - fi - else - echo "Update already in progress" - fi - -merge-and-push-prod: - #!/usr/bin/env bash - git switch prod - git merge main - git switch main - git push --all - -tag-version: - #!/usr/bin/env bash - git tag backup-$(date +%Y%m%d-%H%M%S) - mkdir -p versions - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env images | grep -v "REPOSITORY" > ../versions/$(date +%Y%m%d-%H%M%S).txt - -healthcheck: - #!/usr/bin/env bash - for i in 1 2 3; do - curl -f http://localhost/health && exit 0 - sleep 5 - done - exit 1 - -rollback version="": - #!/usr/bin/env bash - current_branch=$(git branch --show-current) - if [ -z "{{version}}" ]; then # Get last backup tag if no version specified - version=$(git tag | grep backup | sort -r | head -n1) - else # Or get the specified version - version="backup-{{version}}" - fi - - # Find corresponding version file - version_date=${version#backup-} # Remove 'backup-' prefix - version_file="versions/$version_date.txt" - - if [ ! -f "$version_file" ]; then - echo "No version file found for $version" - exit 1 - fi - - # Read the old image versions and pull them specifically - while read -r repo tag image_id _; do - if [ ! -z "$repo" ]; then - docker pull "$repo:$tag" - fi - done < "$version_file" - - # Then check out the version and update - git checkout $version - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env down - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env build --no-cache - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env up -d - git switch $current_branch # Return to original branch - -cleanup-versions: - #!/usr/bin/env bash - # Keep last 5 backup tags - for tag in $(git tag | grep backup | sort -r | tail -n +6); do - git tag -d $tag - rm -f "versions/${tag#backup-}.txt" - done - -deploy *args: - ./env.sh {{args}} - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env up -d --wait - cd i-form-data-repository && docker compose -f docker-compose.full.yml --env-file ../.env exec worker bash -c "invenio db init || true; invenio db create || true; invenio alembic upgrade || true; invenio index init || true" - -fmt: - bun run prettier --write "**/*.{js,jsx,ts,tsx,html,css,scss,sass,svelte,yaml,json,markdown}" - -[working-directory("../invenio-theme-iform/")] -build-theme-wheel: - rm -rf dist - direnv exec . uv build --package invenio-theme-iform - -[working-directory("../invenio-config-iform/")] -build-config-wheel: - rm -rf dist - direnv exec . uv build --package invenio-config-iform - -build-wheels: build-theme-wheel build-config-wheel - echo "Building fresh wheels for local packages..." - mkdir -p i-form-data-repository/local_wheels - rm -f i-form-data-repository/local_wheels/*.whl - cp ../invenio-theme-iform/dist/*.whl i-form-data-repository/local_wheels/ - cp ../invenio-config-iform/dist/*.whl i-form-data-repository/local_wheels/ - -test-local: build-wheels - #!/usr/bin/env bash - echo "Rebuilding and restarting local docker stack..." - cd i-form-data-repository - docker compose -f docker-compose.full.yml --env-file ../.env down - docker build -t i-form-data-repository:latest --no-cache --build-arg INSTALL_LOCAL_WHEELS=true . - docker compose -f docker-compose.full.yml --env-file ../.env up -d --wait - docker compose -f docker-compose.full.yml --env-file ../.env exec worker bash -c "invenio db init || true; invenio db create || true; invenio alembic upgrade || true; invenio index init || true" - curl -skI https://127.0.0.1:8443/ || echo "HTTPS verification failed" -# Production deployment commands using Docker/Podman - -# Load AWS secrets (adjust path as needed) -load-aws-secrets: - @if [ -f aws_secrets.sh ]; then . ./aws_secrets.sh; else echo "AWS secrets file not found"; exit 1; fi - -# First-time deployment to production -prod-deploy: load-aws-secrets build-wheels - #!/usr/bin/env bash - echo "Deploying to production (first-time)..." - git switch prod - git pull origin prod - # Build and start containers - cd i-form-data-repository - docker build -t i-form-data-repository:latest --no-cache --build-arg INSTALL_LOCAL_WHEELS=true . - docker compose -f docker-compose.full.yml --env-file ../.env up -d --wait - # Run initial database setup, migrations, and collect static assets - docker compose -f docker-compose.full.yml --env-file ../.env exec worker bash -c " \ - invenio db init && \ - invenio db create && \ - invenio alembic upgrade head && \ - invenio collect -v && \ - invenio index init \ - " - -# Update production without full redeploy (pull + migrations + static) -prod-update: load-aws-secrets build-wheels - #!/usr/bin/env bash - echo "Updating production deployment..." - git switch prod - git pull origin prod - cd i-form-data-repository - docker build -t i-form-data-repository:latest --no-cache --build-arg INSTALL_LOCAL_WHEELS=true . - docker compose -f docker-compose.full.yml --env-file ../.env up -d --wait - docker compose -f docker-compose.full.yml --env-file ../.env exec worker bash -c " \ - invenio alembic upgrade head && \ - invenio collect -v \ - " - -# Clean all build artefacts and environment -prod-clean: - @echo "Cleaning production build artefacts..." - rm -rf .venv build dist *.egg-info - find . -type d -name "__pycache__" -exec rm -r {} + || true - rm -rf static node_modules - echo "Clean complete. 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