diff --git a/.gitignore b/.gitignore new file mode 100644 index 0000000..e3d5c5b --- /dev/null +++ b/.gitignore @@ -0,0 +1,101 @@ +# Byte-compiled / optimized / DLL files +__pycache__/ +*.py[cod] +*$py.class + +# C extensions +*.so + +# Distribution / packaging +.Python +env/ +build/ +develop-eggs/ +dist/ +downloads/ +eggs/ +.eggs/ +lib/ +lib64/ +parts/ +sdist/ +var/ +wheels/ +*.egg-info/ +.installed.cfg +*.egg + +# 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/ +.coverage +.coverage.* +.cache +nosetests.xml +coverage.xml +*.cover +.hypothesis/ +.pytest_cache/ +junit* +test_reports/ +security_reports/ + +# Translations +*.mo +*.pot + +# Django stuff: +*.log +local_settings.py + +# Flask stuff: +instance/ +.webassets-cache + +# Scrapy stuff: +.scrapy + +# Sphinx documentation +doc/_build/ + +# PyBuilder +target/ + +# Jupyter Notebook +.ipynb_checkpoints + +# celery beat schedule file +celerybeat-schedule + +# SageMath parsed files +*.sage.py + + +# virtualenv +.venv +venv/ +ENV/ + +# IDE project settings +.editorconfig +.spyproject +.idea/ + +# Rope project settings +.ropeproject + +# mkdocs documentation +/site + +# mypy +.mypy_cache/ diff --git a/.mch-ci.yml b/.mch-ci.yml new file mode 100644 index 0000000..ec23222 --- /dev/null +++ b/.mch-ci.yml @@ -0,0 +1,53 @@ +# To test with your local Python environment, run 'mchbuild build test'. +# To use a container image, set for example '-s pythonImageName=3.11'. +default: + - build: + - install: + - pythonInstall: + - docs: + - pythonDocs: + pullAlways: false + - test: + - unit: + - pythonTest: + pullAlways: false + - pythonCoverage: + pullAlways: false + - lint: + - pythonLint: + pullAlways: false + - pythonTypeChecker: + pullAlways: false + - verify: + - securityScan: + - securityReport: + format: [ 'html', 'sbom', 'table', 'print' ] + severity: [ 'CRITICAL', 'HIGH' ] + target: file://poetry.lock + qualityGate: + threshold: 5 + criticalFactor: 5 + highFactor: 1 + - publishSbom: + - securityPublishSbom: + - unitWithoutCoverage: + # Set pythonImageName to run with image of non-default Python version + pythonTest: + cacheDeps: false + withCoverage: false + - deploy: + - docs: + openshiftPublishDocs: + docSrc: doc/_build/ + docType: python + - pypi: + pythonPublishPackage: + setPackageVersion: true + pythonImageName: '3.12' + pullAlways: false + + +variables: + project: 'flex-container-orchestrator' + ocpHostNameForEnv: + prod: api.cp.meteoswiss.ch:6443 diff --git a/.python-version b/.python-version new file mode 100644 index 0000000..e4fba21 --- /dev/null +++ b/.python-version @@ -0,0 +1 @@ +3.12 diff --git a/HISTORY.rst b/HISTORY.rst new file mode 100644 index 0000000..584f226 --- /dev/null +++ b/HISTORY.rst @@ -0,0 +1,8 @@ +======= +History +======= + +0.1.0 (2024-10-25) +------------------ + +* First release on PyPI. diff --git a/Jenkinsfile b/Jenkinsfile new file mode 100644 index 0000000..51e7c23 --- /dev/null +++ b/Jenkinsfile @@ -0,0 +1,153 @@ +class Globals { + // the library version + static String version = 'latest' + + // the tag used when publishing documentation + static String documentationTag = 'latest' +} + +pipeline { + agent {label 'podman'} + + parameters { + booleanParam(name: 'RELEASE_BUILD', defaultValue: false, description: 'Creates and publishes a new release') + booleanParam(name: 'PUBLISH_DOCUMENTATION', defaultValue: false, description: 'Publishes the generated documentation') + } + + environment { + SCANNER_HOME = tool name: 'Sonarqube-certs-PROD', type: 'hudson.plugins.sonar.SonarRunnerInstallation' + + PATH = "$workspace/.venv-mchbuild/bin:$HOME/tools/openshift-client-tools:$HOME/tools/trivy:$PATH" + KUBECONFIG = "$workspace/.kube/config" + HTTP_PROXY = 'http://proxy.meteoswiss.ch:8080' + HTTPS_PROXY = 'http://proxy.meteoswiss.ch:8080' + NO_PROXY = '.meteoswiss.ch,localhost' + } + + options { + gitLabConnection('CollabGitLab') + + // New jobs should wait until older jobs are finished + disableConcurrentBuilds() + // Discard old builds + buildDiscarder(logRotator(artifactDaysToKeepStr: '7', artifactNumToKeepStr: '1', daysToKeepStr: '45', numToKeepStr: '10')) + // Timeout the pipeline build after 1 hour + timeout(time: 1, unit: 'HOURS') + } + + stages { + stage('Init') { + steps { + sh ''' + python -m venv .venv-mchbuild + PIP_INDEX_URL=https://hub.meteoswiss.ch/nexus/repository/python-all/simple \ + .venv-mchbuild/bin/pip install --upgrade mchbuild + ''' + updateGitlabCommitStatus name: 'Build', state: 'running' + } + } + + stage('Test') { + parallel { + stage('python 3.10') { + steps { + sh 'mchbuild -s pythonImageName=\'"3.10"\' -s testReportName=junit-3.10.xml verify.unitWithoutCoverage' + } + } + stage('python 3.11') { + steps { + sh 'mchbuild -s pythonImageName=\'"3.11"\' -s testReportName=junit-3.11.xml verify.unitWithoutCoverage' + } + } + stage('python 3.12') { + steps { + sh 'mchbuild -s pythonImageName=\'"3.12"\' build test' + recordIssues(qualityGates: [[threshold: 10, type: 'TOTAL', unstable: false]], tools: [myPy(pattern: 'test_reports/mypy.log')]) + } + } + } + post { + always { + junit keepLongStdio: true, testResults: 'test_reports/junit*.xml' + } + } + } + + stage('Scan') { + steps { + echo("---- DEPENDENCIES SECURITY SCAN ----") + sh "mchbuild verify.securityScan" + + echo("---- SONARQUBE ANALYSIS ----") + withSonarQubeEnv("Sonarqube-PROD") { + // fix source path in coverage.xml + // (required because coverage is calculated using podman which uses a differing file structure) + // https://stackoverflow.com/questions/57220171/sonarqube-client-fails-to-parse-pytest-coverage-results + sh "sed -i 's/\\/src\\/app-root/.\\//g' test_reports/coverage.xml" + sh "${SCANNER_HOME}/bin/sonar-scanner" + } + + echo("---- SONARQUBE QUALITY GATE ----") + timeout(time: 1, unit: 'HOURS') { + // Parameter indicates whether to set pipeline to UNSTABLE if Quality Gate fails + // true = set pipeline to UNSTABLE, false = don't + waitForQualityGate abortPipeline: true + } + } + } + + stage('Release') { + when { expression { params.RELEASE_BUILD } } + steps { + echo 'Build a wheel and publish' + script { + withCredentials([string(credentialsId: 'python-mch-nexus-secret', variable: 'PYPIPASS')]) { + sh "PYPIUSER=python-mch mchbuild deploy.pypi" + Globals.version = sh(script: 'git describe --tags --abbrev=0', returnStdout: true).trim() + Globals.documentationTag = Globals.version + env.TAG_NAME = Globals.documentationTag + } + + echo("---- PUBLISH DEPENDENCIES TO DEPENDENCY REGISTRY ----") + withCredentials([string(credentialsId: 'dependency-track-token-prod', variable: 'DTRACK_TOKEN')]) { + catchError(buildResult: 'SUCCESS', stageResult: 'FAILURE') { + sh "mchbuild verify.publishSbom -s version=${Globals.version}" + } + } + } + } + } + + stage('Publish Documentation') { + when { expression { params.PUBLISH_DOCUMENTATION } } + steps { + withCredentials([string(credentialsId: 'documentation-main-prod-token', + variable: 'DOC_TOKEN')]) { + sh """ + mchbuild -s pythonImageName=3.12 -s deploymentEnvironment=prod \ + -s docVersion=${Globals.documentationTag} deploy.docs + """ + } + } + } + } + + post { + aborted { + updateGitlabCommitStatus name: 'Build', state: 'canceled' + } + failure { + updateGitlabCommitStatus name: 'Build', state: 'failed' + echo 'Sending email' + emailext(subject: "${currentBuild.fullDisplayName}: ${currentBuild.currentResult}", + attachLog: true, + attachmentsPattern: 'generatedFile.txt', + body: "Job '${env.JOB_NAME} #${env.BUILD_NUMBER}': ${env.BUILD_URL}", + recipientProviders: [requestor(), developers()]) + } + success { + echo 'Build succeeded' + updateGitlabCommitStatus name: 'Build', state: 'success' + } + } +} diff --git a/LICENSE b/LICENSE index ccdb596..1530322 100644 --- a/LICENSE +++ b/LICENSE @@ -1,20 +1,21 @@ BSD 3-Clause License Copyright (c) 2024, MeteoSwiss +Authors: Nina Burgdorfer Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: -1. Redistributions of source code must retain the above copyright notice, this - list of conditions and the following disclaimer. +* Redistributions of source code must retain the above copyright notice, this + list of conditions and the following disclaimer. -2. Redistributions in binary form must reproduce the above copyright notice, - this list of conditions and the following disclaimer in the documentation - and/or other materials provided with the distribution. +* Redistributions in binary form must reproduce the above copyright notice, + this list of conditions and the following disclaimer in the documentation + and/or other materials provided with the distribution. -3. Neither the name of the copyright holder nor the names of its - contributors may be used to endorse or promote products derived from - this software without specific prior written permission. +* Neither the name of the copyright holder nor the names of its + contributors may be used to endorse or promote products derived from + this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE diff --git a/README.md b/README.md deleted file mode 100644 index 7c9b84a..0000000 --- a/README.md +++ /dev/null @@ -1,2 +0,0 @@ -# flex-container-orchestrator -The flex-container-orchestrator manages Aviso notifications and triggers the flexprep and flexpart containers, as well as the file aggregation script for Flexpart. diff --git a/README.rst b/README.rst new file mode 100644 index 0000000..084c048 --- /dev/null +++ b/README.rst @@ -0,0 +1,83 @@ +flex-container-orchestrator +=========================== + +The flex-container-orchestrator manages the event driven workflow Flexpart IFS workflow, based on events from Aviso. The repo coordinates both flexprep (pre-processing of raw IFS data) and flexpart-ifs containers, ensuring all required lead time data is processed before launching Flexpart. + +=============== +Getting started +=============== + +------------------------------------------------ +Install dependencies & start the project locally +------------------------------------------------ + +1. Enter the project folder: + +.. code-block:: console + + $ cd flex-container-orchestrator + +2. Install packages + +.. code-block:: console + + $ poetry install + +3. Run the flex-container-orchestrator + +.. code-block:: console + + $ poetry run python3 flex_container_orchestrator/main.py --date {date} --time {time} --step {step} --location {location} + +------------------------------- +Run the tests and quality tools +------------------------------- + +1. Run tests + +.. code-block:: console + + $ poetry run pytest + +2. Run pylint + +.. code-block:: console + + $ poetry run pylint flex_container_orchestrator + + +3. Run mypy + +.. code-block:: console + + $ poetry run mypy flex_container_orchestrator + +--------------------------------------------------- +Setup dev environment - Meteoswiss environment only +--------------------------------------------------- + +Instead of running the steps below manually, you can install `mchbuild` and then +install, test and run the application: + +.. code-block:: console + + $ pipx install mchbuild + $ cd flex-container-orchestrator + $ mchbuild local.build local.test + $ mchbuild local.run + +Try it out at and stop it with Ctrl-C. More information can be found in :file:`.mch-ci.yml`. + +---------------------- +Generate documentation +---------------------- + +.. code-block:: console + + $ poetry run sphinx-build doc doc/_build + +Then open the index.html file generated in *flex-container-orchestrator/build/sphinx/html* + + +.. HINT:: + All **poetry run** prefixes in the commands can be avoided if running them within the poetry shell diff --git a/doc/conf.py b/doc/conf.py new file mode 100755 index 0000000..3f19620 --- /dev/null +++ b/doc/conf.py @@ -0,0 +1,182 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# flex-container-orchestrator documentation build configuration file, created by +# sphinx-quickstart on Fri Jun 9 13:47:02 2017. +# +# This file is execfile()d with the current directory set to its +# containing dir. +# +# Note that not all possible configuration values are present in this +# autogenerated file. +# +# All configuration values have a default; values that are commented out +# serve to show the default. + +# If extensions (or modules to document with autodoc) are in another +# directory, add these directories to sys.path here. If the directory is +# relative to the documentation root, use os.path.abspath to make it +# absolute, like shown here. +# +import os +import sys +from importlib.metadata import version + +sys.path.insert(0, os.path.abspath("..")) + +# -- General configuration --------------------------------------------- + +# If your documentation needs a minimal Sphinx version, state it here. +# +# needs_sphinx = '1.0' + +# Add any Sphinx extension module names here, as strings. They can be +# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom ones. +extensions = [ + "sphinx.ext.autodoc", + "sphinx.ext.viewcode", + "sphinx.ext.napoleon", + "sphinxcontrib.autodoc_pydantic", +] + +# Add any paths that contain templates here, relative to this directory. +templates_path = ["_templates"] + +# The suffix(es) of source filenames. +# You can specify multiple suffix as a list of string: +# +# source_suffix = ['.rst', '.md'] +source_suffix = ".rst" + +# The master toctree document. +master_doc = "index" + +# General information about the project. +project = "flex-container-orchestrator" +copyright = "2024, MeteoSwiss" +author = "Nina Burgdorfer" + +# The version info for the project you're documenting, acts as replacement +# for |version| and |release|, also used in various other places throughout +# the built documents. +# +# The short X.Y version. +version = version("flex-container-orchestrator") + +# The language for content autogenerated by Sphinx. Refer to documentation +# for a list of supported languages. +# +# This is also used if you do content translation via gettext catalogs. +# Usually you set "language" from the command line for these cases. +language = "en" + +# List of patterns, relative to source directory, that match files and +# directories to ignore when looking for source files. +# This patterns also effect to html_static_path and html_extra_path +exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"] + +# The name of the Pygments (syntax highlighting) style to use. +pygments_style = "sphinx" + +# If true, `todo` and `todoList` produce output, else they produce nothing. +todo_include_todos = False + +# -- Options for HTML output ------------------------------------------- + +# The theme to use for HTML and HTML Help pages. See the documentation for +# a list of builtin themes. +# +html_theme = "pydata_sphinx_theme" + +# Theme options are theme-specific and customize the look and feel of a +# theme further. For a list of options available for each theme, see the +# documentation. +# +# html_theme_options = {} + +# Add any paths that contain custom static files (such as style sheets) here, +# relative to this directory. They are copied after the builtin static files, +# so a file named "default.css" will overwrite the builtin "default.css". +html_static_path = ["_static"] + +# -- Options for HTMLHelp output --------------------------------------- + +# Output file base name for HTML help builder. +htmlhelp_basename = "flex_container_orchestrator/doc" + +# -- Options for LaTeX output ------------------------------------------ + +latex_elements = { + # The paper size ('letterpaper' or 'a4paper'). + # + # 'papersize': 'letterpaper', + # The font size ('10pt', '11pt' or '12pt'). + # + # 'pointsize': '10pt', + # Additional stuff for the LaTeX preamble. + # + # 'preamble': '', + # Latex figure (float) alignment + # + # 'figure_align': 'htbp', +} + +# Grouping the document tree into LaTeX files. List of tuples +# (source start file, target name, title, author, documentclass +# [howto, manual, or own class]). +latex_documents = [ + ( + master_doc, + "flex_container_orchestrator.tex", + "flex-container-orchestrator Documentation", + "Nina Burgdorfer", + "manual", + ), +] + +# -- Options for manual page output ------------------------------------ + +# One entry per manual page. List of tuples +# (source start file, name, description, authors, manual section). +man_pages = [ + ( + master_doc, + "flex_container_orchestrator", + "flex-container-orchestrator Documentation", + [author], + 1, + ) +] + +# -- Options for Texinfo output ---------------------------------------- + +# Grouping the document tree into Texinfo files. List of tuples +# (source start file, target name, title, author, +# dir menu entry, description, category) +texinfo_documents = [ + ( + master_doc, + "flex_container_orchestrator", + "flex-container-orchestrator Documentation", + author, + "flex_container_orchestrator", + "The flex-container-orchestrator manages Aviso notifications and triggers the flexprep and flexpart containers, as well as the file aggregation script for Flexpart.", + "Miscellaneous", + ), +] + +# improve parameters description +napoleon_use_param = False + +# avoid the display of redundant module names +add_module_names = False + +# autoapi module configuration +autoapi_dirs = ["../flex_container_orchestrator"] +autoapi_options = [ + "members", + "undoc-members", + "show-inheritance", + "show-module-summary", + "imported-members", +] diff --git a/doc/history.rst b/doc/history.rst new file mode 100644 index 0000000..2506499 --- /dev/null +++ b/doc/history.rst @@ -0,0 +1 @@ +.. include:: ../HISTORY.rst diff --git a/doc/index.rst b/doc/index.rst new file mode 100644 index 0000000..daee681 --- /dev/null +++ b/doc/index.rst @@ -0,0 +1,17 @@ +Welcome to flex-container-orchestrator +============================================= + +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + readme + installation + usage + history + +Indices and tables +================== +* :ref:`genindex` +* :ref:`modindex` +* :ref:`search` diff --git a/doc/installation.rst b/doc/installation.rst new file mode 100644 index 0000000..edc5a41 --- /dev/null +++ b/doc/installation.rst @@ -0,0 +1,24 @@ +.. highlight:: shell + +============ +Installation +============ + + +Stable release +-------------- + +To install flex-container-orchestrator, run this command in your terminal: + +.. code-block:: console + + $ pip install flex-container-orchestrator + +This is the preferred method to install flex-container-orchestrator, as it +will always install the most recent stable release. + +If you don't have `pip`_ installed, this `Python installation guide`_ can guide +you through the process. + +.. _pip: https://pip.pypa.io +.. _Python installation guide: http://docs.python-guide.org/en/latest/starting/installation/ diff --git a/doc/readme.rst b/doc/readme.rst new file mode 100644 index 0000000..72a3355 --- /dev/null +++ b/doc/readme.rst @@ -0,0 +1 @@ +.. include:: ../README.rst diff --git a/doc/usage.rst b/doc/usage.rst new file mode 100644 index 0000000..e2640a5 --- /dev/null +++ b/doc/usage.rst @@ -0,0 +1,7 @@ +===== +Usage +===== + +To use flex-container-orchestrator in a project:: + + import flex_container_orchestrator diff --git a/flex_container_orchestrator/__init__.py b/flex_container_orchestrator/__init__.py new file mode 100644 index 0000000..3b2edcd --- /dev/null +++ b/flex_container_orchestrator/__init__.py @@ -0,0 +1,20 @@ +""" Initializations """ + +import os + +from dotenv import load_dotenv + +from flex_container_orchestrator.config import logger +from flex_container_orchestrator.config.service_settings import ServiceSettings + +load_dotenv( + os.path.join(os.path.dirname(__file__), "config/.env") +) # Load .env variables + +# mypy: ignore-errors +CONFIG = ServiceSettings( + "settings.yaml", os.path.join(os.path.dirname(__file__), "config") +) + +# Configure logger +logger.apply_logging_settings(CONFIG.logging) diff --git a/flex_container_orchestrator/config/.env b/flex_container_orchestrator/config/.env new file mode 100644 index 0000000..e4c4ae7 --- /dev/null +++ b/flex_container_orchestrator/config/.env @@ -0,0 +1,48 @@ +#------ +# .env +#------ + +#----------- Flexprep (Flexpart pre-processing) + +## Input/output S3 bucket settings +SVC__MAIN__S3_BUCKETS__INPUT__ENDPOINT_URL=https://object-store.os-api.cci1.ecmwf.int +SVC__MAIN__S3_BUCKETS__INPUT__NAME=flexpart-input +SVC__MAIN__S3_BUCKETS__OUTPUT__ENDPOINT_URL=https://object-store.os-api.cci1.ecmwf.int +SVC__MAIN__S3_BUCKETS__OUTPUT__NAME=flexprep-output + +## Time settings +# Interval in hours for forecasts (Europe: 1h, Global: 3h) +SVC__MAIN__TIME_SETTINGS__TINCR=1 +SVC__MAIN__TIME_SETTINGS__TSTART=0 + +## IMAGE +FLEXPREP_TAG=2411.85789914152b732ef17ad65bd7d6e57ecb30ee3d +FLEXPREP_ECR_REPO=493666016161.dkr.ecr.eu-central-2.amazonaws.com/numericalweatherpredictions/dispersionmodelling/flexpart-ifs/flexprep + +## sqlite DB +DB_MOUNT=~/.sqlite/ + +#----------- Flexpart-IFS + +## Input/output S3 bucket settings +# Inherit from Flexprep output +FLEXPART_S3_BUCKETS__INPUT__ENDPOINT_URL=https://object-store.os-api.cci1.ecmwf.int +# Inherit from Flexprep output +FLEXPART_S3_BUCKETS__INPUT__NAME=flexprep-output +FLEXPART_S3_BUCKETS__OUTPUT__ENDPOINT_URL=https://object-store.os-api.cci1.ecmwf.int +FLEXPART_S3_BUCKETS__OUTPUT__NAME=flexpart-output +## EWC buckets access and secret keys +S3_ACCESS_KEY= +S3_SECRET_KEY= + +## IMAGE +FLEXPART_TAG=2411.b41e06a177edb101e546f6b180b342e7e32bff8f +FLEXPART_ECR_REPO=493666016161.dkr.ecr.eu-central-2.amazonaws.com/numericalweatherpredictions/dispersionmodelling/flexpart-ifs/flexpart-containerize + +## Time settings +# Number of timestep(s) to run Flexpart with (temporarily set to 6 timesteps but operational config is 90) +TDELTA=6 +# Frequency of Flexpart runs in hour(s) +TFREQ_F=6 +# Frequency of IFS runs in hour(s) +TFREQ=6 diff --git a/flex_container_orchestrator/config/__init__.py b/flex_container_orchestrator/config/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/flex_container_orchestrator/config/aviso/README.md b/flex_container_orchestrator/config/aviso/README.md new file mode 100644 index 0000000..1894c23 --- /dev/null +++ b/flex_container_orchestrator/config/aviso/README.md @@ -0,0 +1,28 @@ +# Aviso Setup Guide + +## Documentation + +To set up Aviso on the EWC, follow the steps in the documentation: + +1. [Aviso Notification System on EWC (Points 1 and 2)](https://confluence.ecmwf.int/display/EWCLOUDKB/Aviso+Notification+System+on+EWC) +2. [Create a config file (Section 2.2)](https://confluence.ecmwf.int/display/UDOC/Setting+up+Aviso+Notification+System+for+ECMWF%27+events) + +## Configuration + +Once you've created the `~/.marsrc/mars.email` and `~/.marsrc/mars.token` files as described in Section 2.2 of the documentation, save the `config.yaml`, `listener_diss.yaml`, and `run_docker_script.sh` files from the `aviso/` folder of this repository into the `~/.aviso/` directory of your VM. + +## Running Aviso as a Service + +Refer to the [documentation](https://confluence.ecmwf.int/display/EWCLOUDKB/Aviso+Notification+System+on+EWC) for detailed instructions. + +To apply changes made to the `~/.aviso/config.yaml` file, restart the Aviso service: + +```bash +sudo systemctl restart aviso.service +``` +## Replaying Notifications +To replay notifications for a specific time range, use the following command: + +```bash +aviso listen --from 2020-01-20T00:00:00.0Z --to 2020-01-22T00:00:00.0Z +``` diff --git a/flex_container_orchestrator/config/aviso/__init__.py b/flex_container_orchestrator/config/aviso/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/flex_container_orchestrator/config/aviso/config.yaml b/flex_container_orchestrator/config/aviso/config.yaml new file mode 100644 index 0000000..3314133 --- /dev/null +++ b/flex_container_orchestrator/config/aviso/config.yaml @@ -0,0 +1,15 @@ +username_file: ~/.marsrc/mars.email +key_file: ~/.marsrc/mars.token +notification_engine: + type: etcd_rest + host: aviso.ecmwf.int + port: 443 + https: true +configuration_engine: + type: etcd_rest + host: aviso.ecmwf.int + port: 443 + https: true +schema_parser: ecmwf +remote_schema: True +auth_type: ecmwf diff --git a/flex_container_orchestrator/config/aviso/listener_diss.yaml b/flex_container_orchestrator/config/aviso/listener_diss.yaml new file mode 100644 index 0000000..0c7a88d --- /dev/null +++ b/flex_container_orchestrator/config/aviso/listener_diss.yaml @@ -0,0 +1,19 @@ +listeners: + - event: dissemination + request: + destination: S7Y + class: od + expver: 0001 + domain: g + stream: [oper, scda] + triggers: + - type: log + path: avisoLogs/log_aviso_notifications.log + - type: command + working_dir: $HOME/flex-container-orchestrator/ + command: > + $HOME/.local/bin/poetry run python3 flex_container_orchestrator/main.py \ + --step "${request.step}" \ + --date "${request.date}" \ + --time "${request.time}" \ + --location "${location}" >> ../avisoLogs/log_run_${request.date}_${request.time}.log 2>&1 diff --git a/flex_container_orchestrator/config/base_settings.py b/flex_container_orchestrator/config/base_settings.py new file mode 100644 index 0000000..bbea1ab --- /dev/null +++ b/flex_container_orchestrator/config/base_settings.py @@ -0,0 +1,128 @@ +""" +Note: This script is taken from mchpy (MeteoSwiss' Python common library) it is not currently installable outside of the MeteoSwiss network. + +This module introduces two custom classes that leverage Pydantic's capabilities: a custom BaseModel called + SubscriptableBaseModel and a custom BaseSettings class BaseServiceSettings. + +Both these custom classes inherit Pydantic's core functionalities. This includes data validation, parsing, +serialization, error handling, and behavior customization. +""" + +import logging +import os +from typing import Any, Type + +import yaml +from pydantic import BaseModel +from pydantic.fields import FieldInfo +from pydantic.v1.utils import deep_update +from pydantic_settings import (BaseSettings, InitSettingsSource, + PydanticBaseSettingsSource, SettingsConfigDict) + +logger = logging.getLogger(__name__) + + +class SubscriptableBaseModel(BaseModel): + """ + The custom BaseModel is an extension of Pydantic's BaseModel class. It enhances attribute access by overriding the + __getitem__ method, enabling the use of square brackets ([]). This means attributes can be accessed in the same way + as dictionary keys. For instance, model['name'] can be used in place of model.name. + """ + + def __getitem__(self, item: str) -> Any: + return getattr(self, item) + + +class BaseServiceSettings(BaseSettings): + """ + The Custom BaseSettings class is a derivative of Pydantic's BaseSettings class. It introduces the ability to read + settings values from a series of YAML files, providing an additional source for configuration data. + """ + + model_config = SettingsConfigDict(env_nested_delimiter="__", extra="allow") + + def __init__( + self, settings_file_names: str | list[str], settings_dirname: str, **values: Any + ): + """ + Initializes the service settings by loading values from the specified YAML filename(s). + The YAML settings will be loaded in the same order as given in the list (or as a single settings file), + with later files taking precedence. + :param settings_file_names: Names of YAML files containing settings. + :param settings_dirname: Directory where the settings YAML files are located. + :param values: Additional settings values (if provided). Refer to Pydantic's BaseSettings for details. + :raises FileNotFoundError: If none of the specified YAML settings files exist. + """ + + if isinstance(settings_file_names, str): + settings_file_names = [settings_file_names] + + # we want to harmlessly be able to pass files that do not exist in reality + existing_settings_file_names = [] + for fname in settings_file_names: + if os.path.exists(os.path.join(settings_dirname, fname)): + existing_settings_file_names.append(fname) + else: + logger.warning('Given YAML settings file "%s" does not exist.', fname) + + if not existing_settings_file_names: + raise FileNotFoundError( + "Could not find the specified YAML settings file(s)." + ) + + super().__init__( + _settings_filenames=existing_settings_file_names, + _settings_dirname=settings_dirname, + **values + ) + + # pylint: disable=too-many-arguments + @classmethod + def settings_customise_sources( + cls, + settings_cls: Type[BaseSettings], + init_settings: InitSettingsSource, # type: ignore # the init_settings is always a InitSettingsSource + env_settings: PydanticBaseSettingsSource, + dotenv_settings: PydanticBaseSettingsSource, + file_secret_settings: PydanticBaseSettingsSource, + ) -> tuple[ + PydanticBaseSettingsSource, + PydanticBaseSettingsSource, + PydanticBaseSettingsSource, + PydanticBaseSettingsSource, + ]: + load_yaml_config = _YamlConfigSource( + settings_cls=settings_cls, + filenames=init_settings.init_kwargs.pop("_settings_filenames"), + dirname=init_settings.init_kwargs.pop("_settings_dirname"), + ) + + # environment variables have highest precedence, then yaml values etc. + return env_settings, load_yaml_config, init_settings, file_secret_settings + + +class _YamlConfigSource(PydanticBaseSettingsSource): + _yaml_content_dict: dict[str, Any] + + def get_field_value( + self, field: FieldInfo, field_name: str + ) -> tuple[Any, str, bool]: + # this method needs to be implemented but is not used since the whole parsed + # yaml file is returned as dictionary without inspecting the values or fields + raise NotImplementedError() + + def __init__( + self, filenames: list[str], dirname: str, settings_cls: type[BaseSettings] + ): + self._yaml_content_dict = {} + + for filename in filenames: + with open(os.path.join(dirname, filename), encoding="utf-8") as file: + self._yaml_content_dict = deep_update( + self._yaml_content_dict, yaml.safe_load(file) + ) + + super().__init__(settings_cls) + + def __call__(self) -> dict[str, Any]: + return self._yaml_content_dict diff --git a/flex_container_orchestrator/config/http_audit.py b/flex_container_orchestrator/config/http_audit.py new file mode 100644 index 0000000..df1c516 --- /dev/null +++ b/flex_container_orchestrator/config/http_audit.py @@ -0,0 +1,44 @@ +""" +Note: This script is taken from mchpy (MeteoSwiss' Python common library) it is not currently installable outside of the MeteoSwiss network. + +Instrumentation of web applications to include the request_id in all responses +and make it available to other services (e.g. logging) +""" + +# noinspection PyPackageRequirements +import contextvars +import logging +import uuid +from typing import Callable + +X_REQUEST_ID = "X-REQUEST-ID" +request_id = contextvars.ContextVar("request_id", default="") + +logger = logging.getLogger(__name__) + + +def get_request_id() -> str: + """ + Get the request_id valid for the entire request. + """ + return request_id.get() + + +def extract_request_id_from(extract_request_fn: Callable[[str], str | None]) -> str: + """ + Extracts the request id from the incoming request by using the given function + + :param extract_request_fn: request id extract function, accepting as argument the request id name. + Must return the request id string value, or None + """ + rid = extract_request_fn(X_REQUEST_ID) or _generate_request_id() + request_id.set(rid) + + return rid + + +def _generate_request_id() -> str: + rid = str(uuid.uuid4()) + logger.debug("Generated new request_id %s", rid) + + return rid diff --git a/flex_container_orchestrator/config/logger.py b/flex_container_orchestrator/config/logger.py new file mode 100644 index 0000000..5b0b3a6 --- /dev/null +++ b/flex_container_orchestrator/config/logger.py @@ -0,0 +1,277 @@ +""" +Note: This script is taken from mchpy (MeteoSwiss' Python common library) it is not currently installable outside of the MeteoSwiss network. + +Logging configuration including http request auditing +""" + +import logging.config +import time +from enum import Enum +from typing import Any, Sequence + +from pydantic import BaseModel, field_validator +from pydantic_settings import SettingsConfigDict +from pythonjsonlogger import jsonlogger + +from flex_container_orchestrator.config import http_audit + +_logger: dict = { + "version": 1, + # without the following option, using apply_logging_settings too late is dangerous because all loggers which were + # previously known would be silently disabled + "disable_existing_loggers": False, + "filters": { + "standard_request_id": { + "()": "flex_container_orchestrator.config.logger.StandardRequestIdFilter", + }, + "json_request_id": { + "()": "flex_container_orchestrator.config.logger.JsonRequestIdFilter", + }, + }, + "formatters": { + "standard": { + "format": "{asctime} {request_id}{levelname:>8s} {process} --- [{threadName:>15s}] {name_with_func:40}: " + "{message}", + "style": "{", + }, + "json": { + "()": "flex_container_orchestrator.config.logger.LogstashJsonFormatter" + }, + }, + "handlers": { + "console": { + "class": "logging.StreamHandler", + "level": "DEBUG", + "filters": ["standard_request_id"], + "formatter": "standard", + }, + }, + "loggers": {}, + "root": { + "handlers": ["console"], + "level": "DEBUG", + }, +} + + +class LogLevel(str, Enum): + """ + Wrapper class for Python logging levels so that we can make sure that no unknown logging level is taken. + """ + + CRITICAL = "CRITICAL" + ERROR = "ERROR" + WARNING = "WARNING" + INFO = "INFO" + DEBUG = "DEBUG" + NOTSET = "NOTSET" + + +class FormatterType(str, Enum): + """ + Wrapper class for the formatters we provide + """ + + STANDARD = "standard" + JSON = "json" + + +class LoggingSettings(BaseModel): + """ + This class defines the structure for our logging configuration. + + As formatters, both standard and json formatting can be chosen. + The supported logging levels are: CRITICAL, ERROR, WARNING, INFO, DEBUG, NOTSET. These levels can be set for the + root logger or for specific child loggers. + + As a default, the root logging level DEBUG and the standard formatter are taken. + """ + + model_config = SettingsConfigDict(extra="forbid") + + formatter: FormatterType = FormatterType.STANDARD + root_log_level: LogLevel = LogLevel.DEBUG + child_log_levels: dict[str, LogLevel] = {} + + @field_validator("child_log_levels") + def logger_name_does_not_contain_reserved_key( # pylint: disable=no-self-argument + cls, child_log_levels: dict[str, LogLevel] + ) -> dict[str, LogLevel]: + for key in child_log_levels.keys(): + if key in ["formatter", "root", "root_log_level", ""]: + raise ValueError("Using empty or reserved name for child logger.") + return child_log_levels + + +def apply_logging_settings( + logging_settings: LoggingSettings = LoggingSettings(), +) -> None: + """ + Configures the python logger for the current application. + + This sets standard logging formats and attaches a single handler to the root logger. Therefore, by propagating + messages up the logger hierarchy, all loggers automatically use the same format and formatter. + Note: That does not work for any loggers existing before calling this method, if propagation is disabled for them. + + Log levels for the root logger and arbitrary other loggers can be set by calling with appropriate logging settings. + + When no logging settings are given, the default settings are used. + + To allow configuring log levels for individual loggers, and to make the configured log format produce meaningful + messages, your application code should: + + * never log directly to the root logger (like ``logging.debug('message')``) + + * instead create a logger per module and log to that instance: + | ``logger = logging.getLogger(__name__)`` + | ``logger.debug('message')`` + + * not create additional log handlers or disable propagation for any loggers. + + :param logging_settings: the settings according to which logging should be configured + """ + config = { + "logging": { + "formatter": logging_settings.formatter.value, + "root": logging_settings.root_log_level.value, + } + } + for logger_name, log_level in logging_settings.child_log_levels.items(): + config["logging"][logger_name] = log_level.name + + if config and "logging" in config: + logging_config_ = config["logging"] + + _set_formatter(logging_config_) + _set_root_logger(logging_config_) + _set_loggers(logging_config_) + + logging.config.dictConfig(_logger) + # Use a period instead of the comma before the milliseconds part + logging.Formatter.default_msec_format = "%s.%03d" + # Use UTC timestamps + logging.Formatter.converter = time.gmtime + logging.captureWarnings(True) + + +def _set_formatter(logging_config: dict) -> None: + if "formatter" in logging_config: + formatter = logging_config["formatter"] + _logger["handlers"]["console"]["formatter"] = formatter + _logger["handlers"]["console"]["filters"] = [formatter + "_request_id"] + + +def _set_root_logger(logging_config: dict) -> None: + if "root" in logging_config: + _logger["root"]["level"] = logging_config["root"] + + +def _set_loggers(logging_config: dict) -> None: + loggers = [ + (logger, level) + for logger, level in logging_config.items() + if logger not in ["formatter", "root"] + ] + for logger, level in loggers: + if logger in _logger["loggers"]: + _logger["loggers"][logger]["level"] = level + else: + _logger["loggers"][logger] = {"level": level} + + +class StandardRequestIdFilter(logging.Filter): + """ + Class used to include the http request id into the logged record, used with + standard formatter. + """ + + def filter(self, record: logging.LogRecord) -> bool: + request_id = http_audit.get_request_id() + # request_id is only in the log when existing + record.request_id = "[" + request_id + "] " if request_id else "" + # logger and function name concatenated and truncated from the left + record.name_with_func = (record.name + "." + record.funcName)[-40:] + return True + + +class JsonRequestIdFilter(logging.Filter): + """ + Class used to include the http request id into the logged record, used with json formatter. + """ + + def filter(self, record: logging.LogRecord) -> bool: + # request_id is only added when existing + request_id = http_audit.get_request_id() + if request_id: + record.request_id = request_id + record.correlationId = request_id + return True + + +class MessageContainsFilter(logging.Filter): + """Filter log messages which contain a substring.""" + + def __init__(self, substrings: Sequence[str], *args: Any, **kwargs: Any) -> None: + """Constructor. + + :param substrings: messages which contain any of these substrings will + not be logged + """ + super().__init__(*args, **kwargs) + self._substrings = substrings + + def filter(self, record: logging.LogRecord) -> bool: + msg = record.getMessage() + return not any(substring in msg for substring in self._substrings) + + +class LogstashJsonFormatter(jsonlogger.JsonFormatter): + """Format JSON log entries in the same way as logstash-logback-encoder. + https://github.com/logfellow/logstash-logback-encoder + + The JSON records have the following fields: + - message: log message, + - @timestamp: timestamp in ISO format, with milliseconds and time zone + - level: 'DEBUG', 'INFO', 'WARN', 'ERROR', 'CRITICAL' + - level_value: 10000, 20000, 30000, 40000, 50000, useful for filtering + - logger_name: logger + - func_name: this is not available in the logs from Spring + - exc_info: the Spring logs have stack_trace instead + """ + + # 'message' is added by default to record. + # 'exc_info' is transformed later when existing, cannot be easily transformed + # to 'stack_trace'. + _logged_fields = ( + ("asctime", "@timestamp"), + ("threadName", "thread_name"), + ("levelname", "level"), + ("name", "logger_name"), + ("funcName", "func_name"), + ) + _log_levels = ["DEBUG", "INFO", "WARN", "ERROR", "CRITICAL"] + + def add_fields( + self, + log_record: dict[str, Any], + record: logging.LogRecord, + message_dict: dict[str, Any], + ) -> None: + super().add_fields(log_record, record, message_dict) + converter = self.converter(record.created) + log_record["@timestamp"] = ( + time.strftime("%Y-%m-%dT%H:%M:%S.%%03d%z", converter) % record.msecs + ) + for src_field, field in self._logged_fields: + value = record.__dict__.get(src_field) + if value is not None: + if field == "level": + if value == "WARNING": + value = "WARN" + try: + log_record["level_value"] = ( + self._log_levels.index(value) + 1 + ) * 10_000 + except ValueError: + pass + log_record[field] = value diff --git a/flex_container_orchestrator/config/service_settings.py b/flex_container_orchestrator/config/service_settings.py new file mode 100644 index 0000000..b0dacbf --- /dev/null +++ b/flex_container_orchestrator/config/service_settings.py @@ -0,0 +1,26 @@ +from pydantic import BaseModel + +from flex_container_orchestrator.config.base_settings import \ + BaseServiceSettings +from flex_container_orchestrator.config.logger import LoggingSettings + + +class TimeSettings(BaseModel): + # Number of hours between timesteps + tincr: int + # Number of timesteps to run Flexpart with (temporarily set to 6 timesteps but operational config is 90) + tdelta: int + # Frequency of Flexpart runs in hours + tfreq_f: int + # Frequency of IFS runs in hours + tfreq: int + + +class AppSettings(BaseModel): + app_name: str + time_settings: TimeSettings + + +class ServiceSettings(BaseServiceSettings): + logging: LoggingSettings + main: AppSettings diff --git a/flex_container_orchestrator/config/settings.yaml b/flex_container_orchestrator/config/settings.yaml new file mode 100644 index 0000000..fe0652c --- /dev/null +++ b/flex_container_orchestrator/config/settings.yaml @@ -0,0 +1,19 @@ +logging: + root_log_level: INFO + # When running in k8s, use JSON logger via env setting + # formatter: json + formatter: "standard" + child_log_levels: + mchpy: DEBUG + flex_container_orechestrator.config.http_audit: INFO +main: + app_name: flex-container-orchestrator + time_settings: + # Number of hours between timesteps + tincr: 1 + # Number of timesteps to run Flexpart with (temporarily set to 6 timesteps but operational config is 90) + tdelta: 6 + # Frequency of Flexpart runs in hours + tfreq_f: 6 + # Frequency of IFS runs in hours + tfreq: 6 diff --git a/flex_container_orchestrator/domain/__init__.py b/flex_container_orchestrator/domain/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/flex_container_orchestrator/domain/lead_time_aggregator.py b/flex_container_orchestrator/domain/lead_time_aggregator.py new file mode 100644 index 0000000..5e72d3a --- /dev/null +++ b/flex_container_orchestrator/domain/lead_time_aggregator.py @@ -0,0 +1,317 @@ +import datetime +import json +import logging +import sqlite3 +import sys + +from flex_container_orchestrator import CONFIG + +logger = logging.getLogger(__name__) + +def connect_db(db_path: str) -> sqlite3.Connection: + """ + Establish a connection to the SQLite database. + + Args: + db_path (str): Path to the SQLite database. + + Returns: + sqlite3.Connection: SQLite connection object. + """ + try: + conn = sqlite3.connect(db_path) + logger.info("Connected to SQLite database at %s.", db_path) + return conn + except sqlite3.Error as e: + logger.error("SQLite connection error: %s", e) + sys.exit(1) + + +def generate_flexpart_start_times( + frt_dt: datetime.datetime, lead_time: int, tdelta: int, tfreq_f: int +) -> list[datetime.datetime]: + """ + Generates a list of start reference times for running Flexpart simulations. + + The start times will depend on the forecast reference time and lead time that + have been just pre-processed, the desired number of time steps for the Flexpart run, + and the frequency of the flexpart runs. + + Args: + frt_dt (datetime.datetime): Forecast reference datetime. + lead_time (int): Lead time in hours. + tdelta (int): Number of timesteps to run Flexpart with. + tfreq_f (int): Frequency of Flexpart runs in hours. + + Returns: + list of datetime.datetime: List of Flexpart run start times. + """ + lt_dt = frt_dt + datetime.timedelta(hours=lead_time) + lt_tmp = lt_dt - datetime.timedelta(hours=tdelta) + min_start_time = lt_tmp + datetime.timedelta( + hours=tfreq_f - (lt_tmp.hour % tfreq_f) + ) + max_start_time = lt_dt.replace(hour=lt_dt.hour - (lt_dt.hour % tfreq_f)) + + list_start_times = [] + current_start = min_start_time + delta = datetime.timedelta(hours=tfreq_f) + while current_start <= max_start_time: + list_start_times.append(current_start) + current_start += delta + + return list_start_times + + +def generate_forecast_label(lead_time: datetime.datetime, tfreq: int) -> str: + """ + Returns a string in the format "{reference_time}_{step}" based on + the given lead_time (i.e. forecast reference time + step). + + The reference_time corresponds to the latest IFS forecast run for the specified lead time. + If the lead_time aligns with the start of an IFS simulation, it uses the previous forecast + run with the appropriate lead time instead of the forecast at step 0. + + Args: + lead_time (datetime.datetime): Forecasts leadtime + tfreq (int): Frequency of IFS forecast times in hours. + + Returns: + str: Forecast reference time (YYYYMMDDHH) followed by the lead time (HH) + in the format "{reference_time}_{step}" + """ + if lead_time.hour % tfreq != 0: + frt_st = lead_time - datetime.timedelta(hours=lead_time.hour % tfreq) + lt = lead_time.hour % tfreq + else: + frt_st = lead_time - datetime.timedelta(hours=tfreq) + lt = tfreq + return frt_st.strftime("%Y%m%d%H%M") + f"{lt:02}" + + +def fetch_processed_forecasts( + conn: sqlite3.Connection, frt_s: set[datetime.datetime] +) -> set[str]: + """ + Fetch all processed forecasts from the database for a specific reference time. + + Args: + conn (sqlite3.Connection): SQLite connection object. + frt_s (set of str): Set of forecast reference times (stripped of last two characters). + + Returns: + set of str: Set of processed item identifiers. + """ + processed_items = set() + try: + cursor = conn.cursor() + for frt in frt_s: + cursor.execute( + """ + SELECT processed, step FROM uploaded + WHERE forecast_ref_time = ? + """, + (frt,), + ) + items_f = cursor.fetchall() + for processed, step in items_f: + if processed: + frt_str = ( + frt.strftime("%Y%m%d%H%M") + if isinstance(frt, datetime.datetime) + else str(frt) + ) + processed_items.add(frt_str + f"{int(step):02}") + except sqlite3.Error as e: + logger.error("SQLite query error while fetching processed items: %s", e) + sys.exit(1) + return processed_items + + +def define_config(start_time: datetime.datetime, end_time: datetime.datetime) -> dict: + """ + Define input configuration for Flexpart based on provided start and end tims. + + Args: + start_time (datetime.datetime): Start time. + end_time (datetime.datetime): End time. + + Returns: + dict: Configuration dictionary for Flexpart. + """ + logger.debug("Start and end time to configure Flexpart: %s and %s ", start_time, end_time) + + configuration = { + "IBDATE": start_time.strftime("%Y%m%d"), # Start date in YYYYMMDD format + "IBTIME": start_time.strftime("%H"), # Start time in HH format + "IEDATE": end_time.strftime("%Y%m%d"), # End date in YYYYMMDD format + "IETIME": end_time.strftime("%H"), # End time in HH format + } + + logger.debug("Configuration to run Flexpart: %s", json.dumps(configuration)) + + return configuration + + +# mypy: ignore-errors +def get_time_settings(config) -> dict: + """ + Retrieve time settings from config. + + Args: + config: Configuration object. + + Returns: + dict: Dictionary with time settings. + """ + return { + "tincr": config.main.time_settings.tincr, + "tdelta": config.main.time_settings.tdelta, + "tfreq_f": config.main.time_settings.tfreq_f, + "tfreq": config.main.time_settings.tfreq, + } + + +def parse_forecast_datetime(date_str: str, time_str: str) -> datetime.datetime: + """ + Parse forecast date and time strings into a datetime object. + + Args: + date_str (str): Date in YYYYMMDD format. + time_str (str): Time in HH format. + + Returns: + datetime.datetime: Parsed datetime object. + """ + return datetime.datetime.strptime(f"{date_str}{int(time_str):02d}00", "%Y%m%d%H%M") + + +def generate_forecast_times( + start_times: list[datetime.datetime], time_settings: dict +) -> tuple[list[list[str]], list[list[datetime.datetime]], set[str]]: + """ + Generates a list of all required forecasts for Flexpart simulations. + + Args: + start_times (list[datetime]): List of Flexpart run start reference times. + time_settings (dict[str, int]): Configuration containing 'tdelta' (total forecast duration in hours), + 'tincr' (increment step in hours), and 'tfreq' (frequency interval). + Returns: + tuple[list[list[str]], list[list[datetime]], set[str]]: + - all_input_forecasts: A nested list where each sublist contains forecast labels + for each Flexpart run in the format "{reference_time}_{step}". + - all_flexpart_leadtimes: A nested list where each sublist contains datetime objects + representing the leadtimes (reference_time + step) for each Flexpart run. + - all_input_forecasts_set: A set of unique forecasts in the format "{reference_time}_{step}" + required for Flexpart simulations. + """ + time_delta = time_settings['tdelta'] + time_increment = time_settings['tincr'] + run_frequency = time_settings['tfreq'] + + all_input_forecasts_set = set() + all_input_forecasts = [] + all_flexpart_leadtimes = [] + + for start_time in start_times: + lead_times = [start_time + datetime.timedelta(hours=i) for i in range(0, time_delta, time_increment)] + input_forecasts = [generate_forecast_label(lt, run_frequency) for lt in lead_times] + + all_input_forecasts_set.update(input_forecasts) + all_input_forecasts.append(input_forecasts) + all_flexpart_leadtimes.append(lead_times) + + return all_input_forecasts, all_flexpart_leadtimes, all_input_forecasts_set + + + +def strip_lead_time(forecast: str) -> datetime.datetime: + """ + Strip lead time from forecast string. + + Args: + forecast (str): Forecast reference time with lead time. + + Returns: + datetime.datetime: Forecast datetime without lead time. + """ + return datetime.datetime.strptime(forecast[:-2], "%Y%m%d%H%M") + + +def create_flexpart_configs( + all_flexpart_leadtimes: list[list[datetime.datetime]], + all_input_forecasts: list[list[str]], + processed_forecasts: set[str], +) -> list[dict]: + """ + Create Flexpart input configurations based on processed forecasts. + + Args: + - all_input_forecasts: A nested list where each sublist contains forecast labels + for each Flexpart run in the format "{reference_time}_{step}". + - all_flexpart_leadtimes: A nested list where each sublist contains datetime objects + representing the lead times for each Flexpart run. + - processed_forecasts (set of str): Set of forecasts marked as processed and retrieved from the DB for + which have the same reference times as the forecasts needed for the Flexpart simulation + + Returns: + list of dict: List of Flexpart configuration dictionaries. If no valid + configurations can be created, an empty list is returned. + """ + configs = [] + for run_index, input_forecasts_for_run in enumerate(all_input_forecasts): + if all(forecast in processed_forecasts for forecast in input_forecasts_for_run): + config = define_config(all_flexpart_leadtimes[run_index][0], all_flexpart_leadtimes[run_index][-1]) + configs.append(config) + return configs + + +def run_aggregator(date: str, time: str, step: int, db_path: str) -> list[dict]: + """ + Checks if Flexpart can be launched with the processed new lead time and prepares input configurations. + + Args: + date (str): The forecast reference date in YYYYMMDD format. + time (str): The forecast reference time in HH format. + step (int): The lead time in hours. + db_path (str): Path to the SQLite database. + + Returns: + list[dict]: List of configuration dictionaries for Flexpart. + """ + time_settings = get_time_settings(CONFIG) + + # Use a context manager for the database connection to ensure proper resource cleanup + with connect_db(db_path) as conn: + try: + forecast_leadtime = parse_forecast_datetime(date, time) + start_times = generate_flexpart_start_times( + forecast_leadtime, + step, + time_settings["tdelta"], + time_settings["tfreq_f"] + ) + + input_forecasts, flexpart_leadtimes, input_forecasts_set = generate_forecast_times( + start_times, time_settings + ) + + # Retrieve processed forecasts from the database + processed_forecasts = fetch_processed_forecasts( + conn, {strip_lead_time(forecast) for forecast in input_forecasts_set} + ) + + # Create input configurations if processed forecasts are ready + configs = create_flexpart_configs( + flexpart_leadtimes, input_forecasts, processed_forecasts + ) + + if not configs: + logger.info("Not enough pre-processed forecasts to run Flexpart.") + sys.exit(0) + + return configs + + except Exception as e: + logger.error("An error occurred while running the aggregator: %s", e) + raise diff --git a/flex_container_orchestrator/main.py b/flex_container_orchestrator/main.py new file mode 100644 index 0000000..c61aee5 --- /dev/null +++ b/flex_container_orchestrator/main.py @@ -0,0 +1,44 @@ +import argparse +import logging + +from flex_container_orchestrator.services import flexpart_service + +logger = logging.getLogger(__name__) + + +def main() -> None: + parser = argparse.ArgumentParser() + parser.add_argument( + "--date", + type=str, + required=True, + help="Date parameter in format YYYYMMDD" + ) + + parser.add_argument( + "--location", + type=str, + required=True, + help="Location parameter" + ) + + parser.add_argument( + "--time", + type=str, + required=True, + help="Time parameter in format HH" + ) + + parser.add_argument( + "--step", + type=str, + required=True, + help="Step parameter" + ) + args = parser.parse_args() + + flexpart_service.launch_containers(args.date, args.location, args.time, args.step) + + +if __name__ == "__main__": + main() diff --git a/flex_container_orchestrator/services/__init__.py b/flex_container_orchestrator/services/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/flex_container_orchestrator/services/flexpart_service.py b/flex_container_orchestrator/services/flexpart_service.py new file mode 100755 index 0000000..968a48a --- /dev/null +++ b/flex_container_orchestrator/services/flexpart_service.py @@ -0,0 +1,133 @@ +import logging +import os +import subprocess +import sys + +from flex_container_orchestrator.domain.lead_time_aggregator import run_aggregator + +logger = logging.getLogger(__name__) + +def run_command(command: list[str] | str, capture_output: bool = False) -> bytes | None: + """ + Helper function to run shell commands and handle errors. + """ + try: + if capture_output: + return subprocess.check_output(command).strip() + subprocess.check_call(command) + except subprocess.CalledProcessError as e: + logger.error(f"Command '{' '.join(command)}' failed with error: {e}") + sys.exit(1) + + return None + +def login_ecr(region="eu-central-2", repo_url="493666016161.dkr.ecr.eu-central-2.amazonaws.com"): + """ + Log in to AWS ECR by retrieving the login password and passing it to Docker login. + """ + try: + # Step 1: Get the ECR login password + login_command = ["aws", "ecr", "get-login-password", "--region", region] + login_password = run_command(login_command, capture_output=True) + + # Step 2: Log in to Docker using the password + docker_login_command = [ + "docker", + "login", + "--username", + "AWS", + "--password-stdin", + repo_url, + ] + + process = subprocess.Popen(docker_login_command, stdin=subprocess.PIPE) + process.communicate(input=login_password) + + if process.returncode != 0: + logger.error("Docker login failed. Exiting.") + sys.exit(1) + + except subprocess.CalledProcessError as e: + logger.error("Error logging in to Docker: %s", e) + sys.exit(1) + +def launch_containers(date: str, location: str, time: str, step: str) -> None: + # Retrieve ECR login password and log in to Docker + login_ecr() + + # ====== First part: Run pre-processing for Flexpart ====== + db_mount = os.path.expanduser(f"{os.getenv('DB_MOUNT')}") + docker_image = f"{os.getenv('FLEXPREP_ECR_REPO')}:{os.getenv('FLEXPREP_TAG')}" + env_file_path = os.path.expanduser( + "~/flex-container-orchestrator/flex_container_orchestrator/config/.env" + ) + + if not os.path.exists(db_mount): + logger.error("SQLite database directory %s does not exist.", db_mount) + sys.exit(1) + + try: + docker_run_command = [ + "docker", + "run", + "--rm", + "--mount", + f"type=bind,source={db_mount},destination=/src/db/", + "--env-file", + env_file_path, + docker_image, + "--step", + step, + "--date", + date, + "--time", + time, + "--location", + location, + ] + run_command(docker_run_command) # type: ignore + + except subprocess.CalledProcessError: + logger.error("Docker run processing failed.") + sys.exit(1) + + logger.info("Pre-processing container executed successfully.") + + # ====== Second part: Run lead_time_aggregator.py ====== + db_path = os.path.join(db_mount, "sqlite3-db") + + if not os.path.exists(db_path): + logger.error("Database file %s does not exist.", db_path) + sys.exit(1) + + try: + configurations = run_aggregator(date, time, int(step), db_path) + + except Exception as e: + logger.error("Aggregator encountered an error: %s", e) + sys.exit(1) + + logger.info("Aggregator launch script executed successfully.") + + # ====== Third part: Run Flexpart ====== + try: + # Loop through each configuration and execute Flexpart + docker_image = f"{os.getenv('FLEXPART_ECR_REPO')}:{os.getenv('FLEXPART_TAG')}" + for config in configurations: + env_vars = [["-e", f"{key.strip()}={value}"] for key, value in config.items()] + + 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"^0.15.2" +pylint = "^3.0.2" +pytest = "^8.2.1" +pytest-cov = "^5.0.0" +sphinx = "^8.0.2" +sphinx-autoapi = "^3.1.0" +yapf = "^0.40.2" +autodoc-pydantic = "^2.2.0" + +[tool.yapf] +based_on_style = "pep8" +column_limit = "120" + +[tool.pylint.master] +disable = [ + 'C0114', # missing-module-docstring + 'C0115', # missing-class-docstring + 'C0116', # missing-function-docstring + 'W0511', # fix me or to-do comments are already covered by SonarQube +] + +[tool.pylint.format] +# Maximum number of lines in a module. +max-line-length = 120 + +[tool.pylint.design] +# Minimum number of public methods for a class (see R0903). +min-public-methods = 0 + +[tool.mypy] +ignore_missing_imports = true +disallow_untyped_defs = true + +[tool.coverage.run] +omit = ["test/**", "doc/**"] + +[build-system] +requires = ["poetry-core>=1.0.0"] +build-backend = "poetry.core.masonry.api" diff --git a/sonar-project.properties b/sonar-project.properties new file mode 100644 index 0000000..4feb982 --- /dev/null +++ b/sonar-project.properties @@ -0,0 +1,9 @@ +sonar.projectVersion=1.0 +sonar.projectName=flex-container-orchestrator +sonar.projectKey=flex-container-orchestrator_HHdkxpsLGpPi +sonar.python.version=3.12 +sonar.python.xunit.reportPath=test_reports/junit.xml +sonar.python.coverage.reportPaths=test_reports/coverage.xml +sonar.python.pylint.reportPath=test_reports/pylint.log +sonar.coverage.exclusions=test/**,flex_container_orchestrator/** +sonar.exclusions=doc/**,security_reports/**,test_reports/** diff --git a/test/__init__.py b/test/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/test/conftest.py b/test/conftest.py new file mode 100644 index 0000000..5871ed8 --- /dev/null +++ b/test/conftest.py @@ -0,0 +1 @@ +import pytest diff --git a/test/domain/test_lead_time_aggregator.py b/test/domain/test_lead_time_aggregator.py new file mode 100644 index 0000000..2979d53 --- /dev/null +++ b/test/domain/test_lead_time_aggregator.py @@ -0,0 +1,78 @@ +import datetime +from unittest.mock import MagicMock, patch + +import pytest + +from flex_container_orchestrator.domain.lead_time_aggregator import ( + generate_forecast_label, define_config, fetch_processed_forecasts, + generate_flexpart_start_times) + + +@pytest.mark.parametrize( + "frt_dt, lead_time, tdelta, tfreq_f, expected", + [ + ( + datetime.datetime(2023, 10, 22, 6, 0), + 12, + 24, + 6, + [ + datetime.datetime(2023, 10, 22, 0, 0), + datetime.datetime(2023, 10, 22, 6, 0), + datetime.datetime(2023, 10, 22, 12, 0), + datetime.datetime(2023, 10, 22, 18, 0), + ], + ), + ( + datetime.datetime(2023, 10, 22, 6, 0), + 6, + 12, + 3, + [ + datetime.datetime(2023, 10, 22, 3, 0), + datetime.datetime(2023, 10, 22, 6, 0), + datetime.datetime(2023, 10, 22, 9, 0), + datetime.datetime(2023, 10, 22, 12, 0), + ], + ), + ], +) +def test_generate_flexpart_start_times(frt_dt, lead_time, tdelta, tfreq_f, expected): + result = generate_flexpart_start_times(frt_dt, lead_time, tdelta, tfreq_f) + assert result == expected + + +@pytest.mark.parametrize( + "time, tfreq, expected", + [ + (datetime.datetime(2023, 10, 22, 10, 0), 6, "20231022060004"), + (datetime.datetime(2023, 10, 22, 12, 0), 6, "20231022060006"), + ], +) +def test_generate_forecast_label(time, tfreq, expected): + result = generate_forecast_label(time, tfreq) + assert result == expected + + +@patch("sqlite3.connect") +def test_fetch_processed_forecasts(mock_connect): + mock_conn = MagicMock() + mock_cursor = MagicMock() + mock_conn.cursor.return_value = mock_cursor + mock_cursor.fetchall.return_value = [(True, "12"), (False, "24")] + frt_s = {datetime.datetime(2023, 10, 22, 6, 0)} + result = fetch_processed_forecasts(mock_conn, frt_s) + assert result == {"20231022060012"} + + +def test_define_config(): + st = datetime.datetime(2023, 10, 22, 6, 0) + et = datetime.datetime(2023, 10, 22, 18, 0) + result = define_config(st, et) + expected_config = { + "IBDATE": "20231022", + "IBTIME": "06", + "IEDATE": "20231022", + "IETIME": "18", + } + assert result == expected_config diff --git a/test/services/test_flexpart_service.py b/test/services/test_flexpart_service.py new file mode 100644 index 0000000..6ddec56 --- /dev/null +++ b/test/services/test_flexpart_service.py @@ -0,0 +1,24 @@ +import logging + +import pytest + +from flex_container_orchestrator.services.flexpart_service import run_command + + +# Mock logging +@pytest.fixture(autouse=True) +def mock_logging(caplog): + with caplog.at_level(logging.INFO): + yield caplog + + +def test_run_command_success(): + command = ["echo", "Hello"] + result = run_command(command, capture_output=True) + assert result == b"Hello" + + +def test_run_command_failure(): + command = ["false"] # This command will fail + with pytest.raises(SystemExit): + run_command(command)