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EOS/.github/workflows/codeql.yml
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NormannGitHubgithub-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
9eb3c7e483 build(deps): refresh dependencies and clean up test warnings (#1243)
Consolidates the currently applicable dependency updates into one PR, including the closed Dependabot backlog such as #1241, plus dependency surfaces that were not covered by the repository's previous pip-only Dependabot configuration.

Cleanup of test warnings.

Most importent:

* GitPython + pypdf security hardening.
* Uvicorn WebSocket close/backpressure/header fixes for server/dashboard reliability.
* FastAPI dependency-memory/OpenAPI improvements for the API process.
* Bokeh WebSocket/resource-leak/prefix fixes for EOSdash and proxied deployments.
* cachebox cancellation/lock cleanup fixes for long-running/concurrent work.
* pandas 3.0.5 avoiding the yanked 3.0.4 datetime/segfault build.
* Ruff security-lint and pydocstyle correctness fixes, plus faster release builds via PGO.
* platformdirs malformed-XDG and duplicate-directory fixes for deployment portability.
* CI action modernization, regenerated uv.lock, and expanded Dependabot coverage.

Runtime dependencies

    cachebox: 6.1.2 → 6.2.2
    fastapi: 0.139.2 → 0.141.1
    python-fasthtml: 0.14.9 → 0.14.11
    MonsterUI: 1.0.46 → 1.0.47
    bokeh: 3.9.1 → 3.9.2
    uvicorn: 0.51.0 → 0.52.4 (build(deps): bump uvicorn from 0.51.0 to 0.52.3 #1241, refreshed to latest patch)
    pandas: 3.0.3 → 3.0.5
    platformdirs: 4.11.0 → 4.11.3

Development/test dependencies

    pandas-stubs: 3.0.3.260530 → 3.0.5.260730
    types-PyYAML: 6.0.12.20260518 → 6.0.12.20260724
    GitPython: 3.1.53 → 3.1.58 (security/fix releases)
    coverage: 7.15.2 → 7.15.4
    pypdf: 6.14.2 → 6.16.1 (includes security fixes)

Pre-commit/tooling

    ruff-pre-commit: v0.15.21 → v0.16.3
    synchronize pandas-stubs, types-docutils, and types-PyYAML pins with pyproject.toml

CI / repository dependencies

    Python 3.13.9 → 3.13.15 in CI, Docker, .env, and local Docker Make targets
    actions/checkout → v7 in pytest, pre-commit, CodeQL, and release workflows
    actions/setup-python → v7 in pytest, pre-commit, and release workflows
    actions/upload-artifact → v7 in pytest workflow
    actions/stale: v9.1.0 → v11.0.0 (SHA-pinned)
    regenerate uv.lock from the final dependency pins so locked/frozen installs match pyproject.toml

Future update coverage

Expand Dependabot from pip-only to also monitor:

    GitHub Actions
    Docker

The existing open docutils 0.23 update (#1085) is intentionally excluded because it has separate compatibility/ignore handling and should remain isolated.

docker-build.yml was audited and is already using the newer action generations, so no changes were needed there.

---------

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
2026-08-21 07:07:34 +02:00

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# For most projects, this workflow file will not need changing; you simply need
# to commit it to your repository.
#
# You may wish to alter this file to override the set of languages analyzed,
# or to provide custom queries or build logic.
#
# ******** NOTE ********
# We have attempted to detect the languages in your repository. Please check
# the `language` matrix defined below to confirm you have the correct set of
# supported CodeQL languages.
#
name: "CodeQL Advanced"
on:
push:
branches: [ "main" ]
pull_request:
branches: [ "main" ]
schedule:
- cron: '20 7 * * 1'
jobs:
analyze:
name: Analyze (${{ matrix.language }})
# Runner size impacts CodeQL analysis time. To learn more, please see:
# - https://gh.io/recommended-hardware-resources-for-running-codeql
# - https://gh.io/supported-runners-and-hardware-resources
# - https://gh.io/using-larger-runners (GitHub.com only)
# Consider using larger runners or machines with greater resources for possible analysis time improvements.
runs-on: ${{ (matrix.language == 'swift' && 'macos-latest') || 'ubuntu-latest' }}
permissions:
# required for all workflows
security-events: write
# required to fetch internal or private CodeQL packs
packages: read
# only required for workflows in private repositories
actions: read
contents: read
strategy:
fail-fast: false
matrix:
include:
- language: actions
build-mode: none
- language: python
build-mode: none
# CodeQL supports the following values keywords for 'language': 'actions', 'c-cpp', 'csharp', 'go', 'java-kotlin', 'javascript-typescript', 'python', 'ruby', 'rust', 'swift'
# Use `c-cpp` to analyze code written in C, C++ or both
# Use 'java-kotlin' to analyze code written in Java, Kotlin or both
# Use 'javascript-typescript' to analyze code written in JavaScript, TypeScript or both
# To learn more about changing the languages that are analyzed or customizing the build mode for your analysis,
# see https://docs.github.com/en/code-security/code-scanning/creating-an-advanced-setup-for-code-scanning/customizing-your-advanced-setup-for-code-scanning.
# If you are analyzing a compiled language, you can modify the 'build-mode' for that language to customize how
# your codebase is analyzed, see https://docs.github.com/en/code-security/code-scanning/creating-an-advanced-setup-for-code-scanning/codeql-code-scanning-for-compiled-languages
steps:
- name: Checkout repository
uses: actions/checkout@v7
# Add any setup steps before running the `github/codeql-action/init` action.
# This includes steps like installing compilers or runtimes (`actions/setup-node`
# or others). This is typically only required for manual builds.
# - name: Setup runtime (example)
# uses: actions/setup-example@v1
# Initializes the CodeQL tools for scanning.
- name: Initialize CodeQL
uses: github/codeql-action/init@v4
with:
languages: ${{ matrix.language }}
build-mode: ${{ matrix.build-mode }}
# If you wish to specify custom queries, you can do so here or in a config file.
# By default, queries listed here will override any specified in a config file.
# Prefix the list here with "+" to use these queries and those in the config file.
# For more details on CodeQL's query packs, refer to: https://docs.github.com/en/code-security/code-scanning/automatically-scanning-your-code-for-vulnerabilities-and-errors/configuring-code-scanning#using-queries-in-ql-packs
# queries: security-extended,security-and-quality
# If the analyze step fails for one of the languages you are analyzing with
# "We were unable to automatically build your code", modify the matrix above
# to set the build mode to "manual" for that language. Then modify this step
# to build your code.
# ️ Command-line programs to run using the OS shell.
# 📚 See https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#jobsjob_idstepsrun
- name: Run manual build steps
if: matrix.build-mode == 'manual'
shell: bash
run: |
echo 'If you are using a "manual" build mode for one or more of the' \
'languages you are analyzing, replace this with the commands to build' \
'your code, for example:'
echo ' make bootstrap'
echo ' make release'
exit 1
- name: Perform CodeQL Analysis
uses: github/codeql-action/analyze@v4
with:
category: "/language:${{matrix.language}}"