Feat/imputation improvements

[jorgeMFS]

Summary by Sourcery

Prepare v1.2.1 release by enhancing packaging metadata, sanitizing GUI defaults, adding a Streamlit Cloud entrypoint, updating docs, and bumping dependencies

New Features:

• Sanitize default protected columns in GUI multiselect to avoid errors when config contains missing columns
• Introduce a Streamlit entrypoint module for Community Cloud deployments

Enhancements:

• Enrich project metadata in pyproject.toml with authors, classifiers, URLs, and dependencies

Build:

• Bump package version to 1.2.1 and set README content-type for PyPI
• Add devcontainer configuration for development environments

Documentation:

• Update README to specify local and Streamlit Community Cloud launch commands

Chores:

• Add watchdog to requirements.txt

[sourcery-ai]

Reviewer's Guide

This PR enriches project packaging metadata and dependencies, adds a Streamlit Cloud entrypoint with devcontainer support, sanitizes GUI multiselect defaults for protected columns, and updates the version and changelog.

Sequence diagram for Streamlit Cloud entrypoint initialization

sequenceDiagram
    participant User as actor User
    participant StreamlitApp as streamlit_app.py
    participant PhenoQCGUI as phenoqc.gui.main
    User->>StreamlitApp: Launch streamlit_app.py
    StreamlitApp->>StreamlitApp: Adjust sys.path for src/
    StreamlitApp->>PhenoQCGUI: Import and call gui_main()
    PhenoQCGUI->>PhenoQCGUI: Start PhenoQC GUI

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Class diagram for Streamlit Cloud entrypoint and GUI main

classDiagram
    class streamlit_app {
        +main()
    }
    class phenoqc.gui {
        +main()
    }
    streamlit_app --> phenoqc.gui : calls main()

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Class diagram for _render_params protected columns sanitization

classDiagram
    class _render_params {
        +spec: dict
        +initial: dict
        +all_columns
        +protected_defaults
        +safe_protected_defaults
        +protected_selected
    }
    _render_params : safe_protected_defaults = [c for c in protected_defaults if c in all_columns]
    _render_params : protected_selected = st.multiselect(..., default=safe_protected_defaults)

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File-Level Changes

Change	Details	Files
Enrich packaging metadata and dependencies	Bump project version to 1.2.1 Add authors, license, classifiers and URLs sections Expand dependency list and define optional test dependencies Set README content-type for PyPI	pyproject.toml
Add Streamlit Cloud entrypoint and devcontainer support	Create streamlit_app.py to import and run GUI directly Include Streamlit Cloud launch instructions in README Add watchdog to requirements Add .devcontainer configuration file	streamlit_app.py README.md requirements.txt .devcontainer/devcontainer.json
Sanitize GUI protected columns multiselect defaults	Filter protected_columns config to available dataset columns Replace default list in st.multiselect with sanitized values Refactor multiselect call formatting for clarity	src/phenoqc/gui/gui.py
Update version and document changes	Increment version in package init Add 1.2.1 entry in CHANGELOG.md with packaging notes	src/phenoqc/__init__.py CHANGELOG.md

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[sourcery-ai]

Hey there - I've reviewed your changes - here's some feedback:

• Consider aligning dependencies between pyproject.toml and requirements.txt (e.g., watchdog) to avoid drift and ensure a single source of truth for dependencies.
• To improve reproducibility, you might specify version ranges or pinned versions for the newly added dependencies in pyproject.toml.
• The new streamlit_app.py entrypoint replicates CLI startup logic—consider centralizing or reusing the existing CLI main to avoid duplication.

Prompt for AI Agents

Please address the comments from this code review:
## Overall Comments
- Consider aligning dependencies between pyproject.toml and requirements.txt (e.g., watchdog) to avoid drift and ensure a single source of truth for dependencies.
- To improve reproducibility, you might specify version ranges or pinned versions for the newly added dependencies in pyproject.toml.
- The new streamlit_app.py entrypoint replicates CLI startup logic—consider centralizing or reusing the existing CLI main to avoid duplication.

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[codecov-commenter]

⚠️ Please install the to ensure uploads and comments are reliably processed by Codecov.

Codecov Report

❌ Patch coverage is 33.33333% with 2 lines in your changes missing coverage. Please review.

Files with missing lines	Patch %	Lines
src/phenoqc/gui/gui.py	0.00%	2 Missing ⚠️
❗ Your organization needs to install the Codecov GitHub app to enable full functionality.

Files with missing lines	Coverage Δ
src/phenoqc/__init__.py	100.00% <100.00%> (ø)
src/phenoqc/gui/gui.py	0.00% <0.00%> (ø)

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