Merge branch 'release/26.3.2'

* release/26.3.2: (30 commits)
  bump version
  fix regression
  fix automation form
  fix for missing label
  update the Assign Pioreactors to be more clear
  fix for patient button
  new build with less useEffects
  close pio-o4w8
  close pio-7700
  close pio-s80k
  close pio-z32m
  close pio-cl3w
  close pio-ey43
  solve pio-1bth
  solve pio-dpqp
  underline span
  more turbidostat run tets
  test
  test
  test
  ...

Author: CamDavidsonPilon

.gitignore

@@ -1,138 +1,139 @@
+#
+# Project-specific files
+#
 _DOC_CHECKER.md
+.codex
+.envrc
+.pioreactor/
+.tickets/
 experiments/
 jupyter_notebooks/
-.pioreactor/
 plugins_dev
-*.sqlite3
-*.sqlite
+scratch/
+subs/
+
+#
+# Local data and runtime artifacts
+#
+*.csv
 *.log
 *.mosquitto
-.envrc
-.codex
-*.csv
+*.sqlite
+*.sqlite3
 
-# Byte-compiled / optimized / DLL files
+#
+# Python bytecode and extensions
+#
 __pycache__/
 *.py[cod]
 *$py.class
-
-# C extensions
 *.so
 
+#
 # Distribution / packaging
+#
 .Python
+*.egg
+*.egg-info/
+.eggs/
+.installed.cfg
+MANIFEST
 build/
 develop-eggs/
 dist/
 downloads/
 eggs/
-.eggs/
 lib/
 lib64/
 parts/
+pip-wheel-metadata/
 sdist/
+share/python-wheels/
 var/
 wheels/
-pip-wheel-metadata/
-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
+pip-log.txt
 
-# Unit test / coverage reports
-htmlcov/
-.tox/
-.nox/
+#
+# Test, coverage, and caches
+#
+.cache
 .coverage
 .coverage.*
-.cache
-nosetests.xml
-coverage.xml
-*.cover
-*.py,cover
 .hypothesis/
+.nox/
 .pytest_cache/
+.tox/
+*.cover
+*.py,cover
+coverage.xml
+htmlcov/
+nosetests.xml
 
-# Translations
+#
+# Type checkers
+#
+.dmypy.json
+.mypy_cache/
+.pyre/
+dmypy.json
+
+#
+# Translations and docs
+#
 *.mo
 *.pot
-
-
-# Sphinx documentation
 docs/_build/
+site/
 
-# PyBuilder
+#
+# Build tools
+#
 target/
 
-# Jupyter Notebook
+#
+# Notebook / REPL state
+#
 .ipynb_checkpoints
-
-# IPython
-profile_default/
 ipython_config.py
+profile_default/
 
-# pyenv
-.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
-
-# PEP 582; used by e.g. github.com/David-OConnor/pyflow
-__pypackages__/
-
-# Celery stuff
-celerybeat-schedule
-celerybeat.pid
-
-# SageMath parsed files
-*.sage.py
-
-# Environments
+#
+# Python environment managers
+#
 .env
+.python-version
 .venv
-env/
-venv/
 ENV/
+env/
 env.bak/
+venv/
 venv.bak/
 
-# Spyder project settings
-.spyderproject
-.spyproject
+#
+# Packaging alternatives
+#
+__pypackages__/
 
-# Rope project settings
+#
+# Tooling / editors
+#
 .ropeproject
-
-# mkdocs documentation
-/site
-
-# mypy
-.mypy_cache/
-.dmypy.json
-dmypy.json
-
-# Pyre type checker
-.pyre/
-
-# vscode
+.spyderproject
+.spyproject
 .vscode
 
-
-# my dev
-.tickets/
-scratch/
+#
+# Misc
+#
+*.sage.py

.pre-commit-config.yaml

@@ -12,6 +12,7 @@ repos:
     -   id: trailing-whitespace
     -   id: check-added-large-files
         args: ['--maxkb=3500']
+        exclude: ^core/pioreactor/web/static/static/js/
 
 
 -   repo: https://github.com/ambv/black
@@ -34,15 +35,14 @@ repos:
         - "--ignore=E203,E266,E501,W503,E402,E401,E704,E202,E201,E231"
         - "--per-file-ignores=*/__init__.py: F401"
 
--   repo: https://github.com/pre-commit/mirrors-mypy
-    rev: 'v1.18.2'  # Use the sha / tag you want to point at
+-   repo: local
     hooks:
     -   id: mypy
-        args: ["--strict-equality"]
-        additional_dependencies: [
-            msgspec==0.19.0,
-            types-pkg_resources==0.1.3,
-        ]
+        name: mypy
+        entry: .venv/bin/mypy --config-file=mypy.ini core/pioreactor
+        language: system
+        pass_filenames: false
+        files: ^core/pioreactor/
 
 
 -   repo: https://github.com/asottile/reorder_python_imports

AGENTS.md

@@ -12,6 +12,11 @@ This repository contains the **executable code for the Pioreactor project**. It
 
 ---
 
+## Important rules
+
+ * Never run `git add`, `git commit`, `git revert`, `git restore`, or `git checkout` without permission.
+ * Git is read-only: you may inspect logs, diffs, and history.
+
 ## Key components
 
 * **Background Jobs**

CHANGELOG.md

@@ -1,3 +1,11 @@
+### 26.3.2
+
+#### Bug fixes
+
+ - Adjusted the UI's "Assign Pioreactors" dialog so `Select all available` no longer includes workers already assigned to another experiment, reducing accidental bulk reassignments while preserving individual reassignment.
+ - fixed new images now having the `experiment_tags` table
+ - fixed some UI bugs
+
 ### 26.3.1
 
 #### Bug fixes

Makefile

@@ -104,6 +104,7 @@ wheel: venv  ## Build core wheel (stage 1 artifact)
 
 frontend-build:
 	cd $(NODE_DIR) && npm run --silent  build
+	git add core/pioreactor/web/static/
 
 # --- live dev servers ---------------------------------------------------------
 web-dev: venv  ## Run Flask API on 127.0.0.1:5000

core/pioreactor/actions/leader/backup_database.py

@@ -50,7 +50,7 @@ def _local_available_space(path: str) -> int:
 
 def count_writes_occurring() -> int:
     with local_intermittent_storage("mqtt_to_db_streaming") as c:
-        return c.get("inserts_in_last_60s", 0)
+        return int(c.get("inserts_in_last_60s", 0))  # type: ignore[call-overload]
 
 
 def backup_database(output_file: str, force: bool = False, backup_to_workers: int = 0) -> None: