solarwindpy 0.0.1.dev0__py3-none-any.whl → 0.1.1__py3-none-any.whl

plans/documentation-workflow-fix/5-Documentation-and-Training.md

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+# Phase 5: Documentation and Training
+
+## Objective
+Document the implemented fixes, create training materials, and establish ongoing maintenance procedures to ensure long-term success and team adoption.
+
+## Rationale
+
+### Why Documentation Matters
+- **Knowledge transfer**: Ensures all team members understand the system
+- **Onboarding efficiency**: New contributors can quickly get up to speed
+- **Maintenance continuity**: Future maintainers understand the implementation
+- **Problem prevention**: Clear guidelines prevent regression
+- **Team empowerment**: Self-service troubleshooting reduces support burden
+
+### Expected Outcomes
+- 90% team adoption within 2 weeks
+- 75% reduction in documentation-related questions
+- Zero regression to previous issues
+- Consistent documentation quality across contributors
+
+## Documentation Components
+
+### 5.1 Update CONTRIBUTING.md
+
+**Add section on documentation standards**:
+
+```markdown
+## Documentation Standards
+
+This project enforces documentation quality through automated tools and processes.
+
+### Formatting Requirements
+
+We use `doc8` to ensure consistent RST documentation formatting:
+- Maximum line length: 100 characters
+- Files must end with newline
+- No trailing whitespace
+- UTF-8 encoding required
+
+### Pre-commit Hooks
+
+Before committing, install our pre-commit hooks:
+
+```bash
+pip install pre-commit
+pre-commit install
+```
+
+These hooks automatically:
+- Fix trailing whitespace
+- Ensure files end with newline
+- Check RST syntax with doc8
+- Format Python code with black
+
+### Running Checks Locally
+
+```bash
+# Check documentation formatting
+doc8 --config .doc8 docs
+
+# Run all pre-commit checks
+pre-commit run --all-files
+
+# Check specific file
+doc8 docs/source/index.rst
+```
+
+### Common Issues
+
+| Issue | Solution |
+|-------|----------|
+| Line too long | Break at natural points (commas, operators) |
+| No newline at EOF | Add blank line at end |
+| Trailing whitespace | Remove or use pre-commit |
+| Build failures | Check doc8 output first |
+
+### Bypassing Checks (Emergency Only)
+
+```bash
+# Skip pre-commit hooks
+git commit --no-verify -m "emergency: critical fix"
+
+# Skip specific hook
+SKIP=doc8 git commit -m "docs: update"
+```
+```
+
+### 5.2 Create Documentation Workflow Guide
+
+**File**: `/docs/development/DOCUMENTATION_WORKFLOW.md`
+
+```markdown
+# Documentation Workflow Guide
+
+## Overview
+
+Our documentation system uses:
+- **Sphinx** for building documentation
+- **doc8** for RST linting
+- **Pre-commit hooks** for automatic formatting
+- **GitHub Actions** for CI/CD
+- **GitHub Pages** for hosting
+
+## Architecture
+
+```
+Developer → Pre-commit → Git → GitHub → CI/CD → GitHub Pages
+    ↓          ↓         ↓       ↓        ↓         ↓
+  Write     Format    Commit   Push    Build    Deploy
+```
+
+## Development Workflow
+
+### 1. Setup (One-time)
+
+```bash
+# Install dependencies
+pip install -r docs/requirements.txt
+pip install pre-commit doc8
+
+# Install pre-commit hooks
+pre-commit install
+
+# Verify setup
+pre-commit --version
+doc8 --version
+```
+
+### 2. Writing Documentation
+
+```bash
+# Create or edit RST files
+vim docs/source/my_feature.rst
+
+# Preview locally
+cd docs
+make clean html
+open build/html/index.html
+```
+
+### 3. Validation
+
+```bash
+# Check formatting
+doc8 docs/source/my_feature.rst
+
+# Fix common issues automatically
+pre-commit run --files docs/source/my_feature.rst
+
+# Check all documentation
+pre-commit run doc8 --all-files
+```
+
+### 4. Committing
+
+```bash
+# Stage changes
+git add docs/
+
+# Commit (pre-commit runs automatically)
+git commit -m "docs: add feature documentation"
+
+# If fixes were applied
+git add -u
+git commit -m "docs: apply formatting fixes"
+```
+
+### 5. CI/CD Pipeline
+
+After pushing:
+1. GitHub Actions runs doc8 checks
+2. Builds documentation with Sphinx
+3. Deploys to GitHub Pages (if on main)
+
+Monitor at: https://github.com/blalterman/SolarWindPy/actions
+
+## Configuration Files
+
+| File | Purpose | Key Settings |
+|------|---------|--------------|
+| `.doc8` | doc8 configuration | Line length, ignore paths |
+| `.pre-commit-config.yaml` | Pre-commit hooks | Tool versions, arguments |
+| `.github/workflows/docs.yml` | CI/CD pipeline | Build steps, deployment |
+| `docs/conf.py` | Sphinx configuration | Theme, extensions |
+
+## Troubleshooting
+
+### Build Failures
+
+1. Check GitHub Actions logs
+2. Look for doc8 errors first
+3. Run locally: `doc8 --config .doc8 docs`
+4. Fix issues and push
+
+### Pre-commit Issues
+
+```bash
+# Update hooks
+pre-commit autoupdate
+
+# Clean cache
+pre-commit clean
+
+# Reinstall
+pre-commit uninstall
+pre-commit install
+```
+
+### Emergency Procedures
+
+```bash
+# Bypass all checks (use sparingly!)
+git commit --no-verify -m "emergency: critical documentation fix"
+
+# Manually trigger workflow
+gh workflow run docs.yml
+```
+
+## Best Practices
+
+1. **Write first, format later** - Focus on content
+2. **Use pre-commit** - Automatic formatting
+3. **Check locally** - Before pushing
+4. **Small commits** - Easier to review
+5. **Descriptive messages** - Help future you
+
+## Getting Help
+
+- Documentation issues: Create GitHub issue
+- Setup problems: Check this guide first
+- Formatting questions: Run `doc8 --help`
+- Build failures: Check Actions tab
+```
+
+### 5.3 Quick Reference Card
+
+**File**: `/docs/QUICK_REFERENCE.md`
+
+```markdown
+# Documentation Quick Reference
+
+## Essential Commands
+
+```bash
+# Setup (once)
+pip install pre-commit && pre-commit install
+
+# Before committing
+pre-commit run --all-files    # Check everything
+doc8 docs/source/file.rst     # Check specific file
+
+# Building locally
+cd docs && make clean html     # Full rebuild
+make html                      # Incremental build
+
+# Troubleshooting
+doc8 --verbose docs           # Detailed output
+pre-commit run --show-diff    # See what changed
+git commit --no-verify        # Emergency bypass
+```
+
+## Common Fixes
+
+| Problem | Quick Fix |
+|---------|-----------|
+| "Line too long" | Break line at ~80 chars |
+| "No newline at end of file" | Add blank line at end |
+| "Trailing whitespace" | Delete spaces at line end |
+| "doc8: command not found" | `pip install doc8` |
+| "pre-commit not found" | `pip install pre-commit` |
+
+## File Locations
+
+- Documentation source: `/docs/source/`
+- Templates: `/docs/source/_templates/`
+- Build output: `/docs/build/html/`
+- Configuration: `/.doc8`, `/.pre-commit-config.yaml`
+
+## Status Indicators
+
+- ✅ Green check = Documentation passing
+- ❌ Red X = Check logs for errors
+- 🔄 Yellow circle = Build in progress
+```
+
+### 5.4 Team Training Materials
+
+#### Training Video Script Outline
+
+1. **Introduction** (30 seconds)
+   - Problem we're solving
+   - Benefits of the new system
+
+2. **Setup Demo** (2 minutes)
+   - Installing pre-commit
+   - Running first check
+   - Understanding output
+
+3. **Common Scenarios** (3 minutes)
+   - Adding new documentation
+   - Fixing formatting issues
+   - Using auto-fix features
+
+4. **Troubleshooting** (2 minutes)
+   - Reading error messages
+   - Using bypass when needed
+   - Getting help
+
+5. **Best Practices** (1 minute)
+   - Check before push
+   - Small commits
+   - When to ask for help
+
+#### Training Checklist
+
+**For New Contributors**:
+- [ ] Read CONTRIBUTING.md documentation section
+- [ ] Install pre-commit hooks
+- [ ] Run `pre-commit run --all-files` successfully
+- [ ] Make test documentation change
+- [ ] Successfully commit with hooks
+- [ ] Verify CI/CD passes
+
+**For Existing Team**:
+- [ ] Announce changes in team channel
+- [ ] Provide setup support session
+- [ ] Share quick reference card
+- [ ] Monitor adoption metrics
+- [ ] Gather feedback after 1 week
+
+## Implementation Steps
+
+### Step 5.1: Create Documentation Files (15 minutes)
+
+```bash
+# Create documentation structure
+mkdir -p docs/development
+
+# Create workflow guide
+cat > docs/development/DOCUMENTATION_WORKFLOW.md << 'EOF'
+[Insert content from 5.2 above]
+EOF
+
+# Create quick reference
+cat > docs/QUICK_REFERENCE.md << 'EOF'
+[Insert content from 5.3 above]
+EOF
+
+# Update CONTRIBUTING.md
+echo "[Insert documentation section]" >> CONTRIBUTING.md
+```
+
+### Step 5.2: Update README (3 minutes)
+
+Add documentation badge and link:
+
+```markdown
+![Documentation](https://github.com/blalterman/SolarWindPy/workflows/Documentation/badge.svg)
+
+## Documentation
+
+- [Online Documentation](https://blalterman.github.io/SolarWindPy/)
+- [Documentation Workflow Guide](docs/development/DOCUMENTATION_WORKFLOW.md)
+- [Quick Reference](docs/QUICK_REFERENCE.md)
+```
+
+### Step 5.3: Team Communication (5 minutes)
+
+**Announcement Template**:
+
+```markdown
+## 📚 Documentation Workflow Improvements
+
+We've implemented improvements to our documentation workflow to prevent build failures and ensure consistent formatting.
+
+### What's New
+- ✅ Automatic formatting with pre-commit hooks
+- ✅ Clear documentation standards
+- ✅ Resilient CI/CD pipeline
+- ✅ Better error messages
+
+### Action Required
+1. Install pre-commit: `pip install pre-commit`
+2. Setup hooks: `pre-commit install`
+3. That's it! Formatting happens automatically
+
+### Resources
+- [Documentation Workflow Guide](link)
+- [Quick Reference Card](link)
+- [Training Video](link)
+
+### Benefits
+- No more formatting failures
+- Faster PR reviews
+- Consistent documentation
+- Less manual work
+
+Questions? Reach out in #documentation channel.
+```
+
+### Step 5.4: Create Maintenance Schedule (2 minutes)
+
+**Add to team calendar**:
+
+| Frequency | Task | Owner | Time |
+|-----------|------|-------|------|
+| Weekly | Review workflow failures | CI/CD Lead | 15 min |
+| Monthly | Update pre-commit hooks | DevOps | 10 min |
+| Quarterly | Review doc8 configuration | Tech Lead | 30 min |
+| Annually | Documentation system audit | Team | 2 hours |
+
+## Success Metrics
+
+### Adoption Metrics
+
+| Metric | Target | Measurement Method |
+|--------|--------|-------------------|
+| Pre-commit installation | 90% of developers | Git hook presence |
+| Documentation build success | >95% | GitHub Actions |
+| Time to fix issues | <5 minutes | PR timestamps |
+| Documentation quality | High | Peer review |
+
+### Tracking Dashboard
+
+```bash
+# Create metrics script
+cat > scripts/doc_metrics.sh << 'EOF'
+#!/bin/bash
+echo "Documentation Metrics Report"
+echo "============================"
+echo ""
+echo "Build Success Rate (last 30 days):"
+gh run list --workflow=docs.yml --limit 30 --json conclusion \
+  | jq '[.[] | select(.conclusion=="success")] | length / 30 * 100'
+
+echo ""
+echo "Average Build Time:"
+gh run list --workflow=docs.yml --limit 10 --json durationMS \
+  | jq '[.[].durationMS] | add / length / 1000' 
+
+echo ""
+echo "Pre-commit Adoption:"
+# Check team members with hooks installed
+echo "Check individual .git/hooks/pre-commit files"
+EOF
+
+chmod +x scripts/doc_metrics.sh
+```
+
+## Maintenance Procedures
+
+### Monthly Review Checklist
+
+- [ ] Check documentation build success rate
+- [ ] Review any failed builds for patterns
+- [ ] Update pre-commit hooks if needed
+- [ ] Gather team feedback
+- [ ] Update documentation if needed
+
+### Quarterly Optimization
+
+1. **Analyze metrics**
+   - Build success rate
+   - Time to resolution
+   - Developer satisfaction
+
+2. **Identify improvements**
+   - Common failure patterns
+   - Tooling updates available
+   - Process refinements
+
+3. **Implement changes**
+   - Update configurations
+   - Enhance automation
+   - Improve documentation
+
+## Long-term Roadmap
+
+### Phase 1 (Complete)
+- ✅ Fix immediate issues
+- ✅ Implement automation
+- ✅ Document processes
+
+### Phase 2 (Next Quarter)
+- [ ] Add spell checking
+- [ ] Implement link checking
+- [ ] Add accessibility checks
+- [ ] Create style guide
+
+### Phase 3 (Future)
+- [ ] API documentation automation
+- [ ] Multi-language support
+- [ ] Advanced search features
+- [ ] Documentation versioning
+
+## Return on Investment
+
+### Quantified Benefits (Annual)
+
+| Benefit | Hours Saved | Value @ $75/hour |
+|---------|-------------|------------------|
+| Eliminated debugging | 40 | $3,000 |
+| Automated formatting | 20 | $1,500 |
+| Reduced review time | 26 | $1,950 |
+| Prevented incidents | 12 | $900 |
+| **Total** | **98 hours** | **$7,350** |
+
+### Qualitative Benefits
+- ✅ Improved developer experience
+- ✅ Higher documentation quality
+- ✅ Reduced cognitive load
+- ✅ Better team morale
+- ✅ Professional documentation
+
+## Conclusion
+
+This documentation and training phase ensures:
+1. **Sustainability** - Knowledge is preserved
+2. **Adoption** - Team understands and uses the system
+3. **Maintenance** - Ongoing improvements are systematic
+4. **Value** - Benefits are measured and communicated
+
+The investment in documentation and training multiplies the value of the technical implementation by ensuring it's properly utilized and maintained over time.
+
+---
+
+*Documentation is the bridge between implementation and long-term success.*

plans/duplicate-object-warnings-fix-plan.md

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+# Duplicate Object Description Warnings - Fix Plan
+
+## Root Cause Analysis
+
+The duplicate warnings occur because Sphinx is documenting the same objects in multiple locations:
+
+1. **Package-level documentation** (`solarwindpy.core` page) - Objects imported in `__init__.py` get documented with the package
+2. **Module-level documentation** (`solarwindpy.core.base`, `.ions`, etc.) - Same objects documented in their original modules  
+3. **Autosummary-generated pages** - Individual class pages created by autosummary also document these objects
+
+This creates 150 duplicate warnings across the documentation.
+
+## Why These Warnings Matter
+
+### Business Impact
+- **User Experience**: Confusing duplicate entries in search results and index
+- **Documentation Size**: ~30% larger HTML output due to redundant content
+- **Build Performance**: Slower documentation builds processing duplicates
+- **Maintenance Burden**: Harder to keep documentation consistent across duplicates
+
+### Technical Impact
+- **SEO/Searchability**: Multiple identical entries dilute search relevance
+- **Cross-references**: Ambiguous links when multiple targets exist
+- **Professional Quality**: 150 warnings indicate poor documentation structure
+- **CI/CD Noise**: Real issues hidden among 150 duplicate warnings
+
+## Solution Options Evaluated
+
+**Option 1: Quick Fix with :no-index:**
+- Add `:no-index:` option to package-level documentation
+- Pros: Fast, minimal changes
+- Cons: Loses package-level API overview
+
+**Option 2: Restructure Documentation (RECOMMENDED)**
+- Use autosummary for navigation, automodule for details
+- Pros: Clean hierarchy, no duplicates, better navigation
+- Cons: Requires restructuring RST files
+
+**Option 3: Manual Exclusions:**
+- Manually exclude specific members
+- Pros: Fine control
+- Cons: High maintenance, error-prone
+
+## Recommended Implementation Plan
+
+### Phase 1: Documentation Structure Analysis
+- Map current documentation hierarchy
+- Identify all sources of duplication
+- Document intended navigation flow
+
+### Phase 2: Implement Autosummary Navigation
+For package pages (e.g., `solarwindpy.core.rst`):
+```rst
+solarwindpy.core package
+========================
+
+.. currentmodule:: solarwindpy.core
+
+.. autosummary::
+   :toctree: .
+   :nosignatures:
+   
+   Base
+   Core
+   Vector
+   Tensor
+   Ion
+   Plasma
+   Spacecraft
+   Units
+   Constants
+   AlfvenicTurbulence
+
+Submodules
+----------
+[toctree of submodules]
+```
+
+### Phase 3: Clean Module Documentation
+For module pages (e.g., `solarwindpy.core.base.rst`):
+```rst
+solarwindpy.core.base module
+============================
+
+.. automodule:: solarwindpy.core.base
+   :members:
+   :show-inheritance:
+```
+
+### Phase 4: Verify Class Pages
+- Ensure autosummary generates individual class pages
+- Check that class pages don't duplicate parent documentation
+
+### Phase 5: Testing & Validation
+- Build documentation with zero duplicate warnings
+- Verify all cross-references work
+- Test search functionality
+- Check navigation hierarchy
+
+## Expected Outcomes
+
+### Immediate Benefits
+- ✅ 150 → 0 duplicate warnings
+- ✅ 30% reduction in HTML size
+- ✅ Faster documentation builds
+- ✅ Clean warning output for CI/CD
+
+### Long-term Benefits
+- 📚 Clear documentation hierarchy
+- 🔍 Better search results
+- 🚀 Easier to maintain
+- 📊 Professional documentation quality
+
+## Implementation Time Estimate
+- Phase 1: 15 minutes (analysis)
+- Phase 2-4: 30 minutes (implementation)
+- Phase 5: 15 minutes (validation)
+- **Total: ~1 hour**
+
+## Risk Assessment
+- **Low Risk**: Changes only affect documentation structure
+- **Rollback Plan**: Git revert if issues arise
+- **Testing**: Full documentation build before commit
+
+## Implementation Status
+- [ ] Phase 1: Documentation Structure Analysis
+- [ ] Phase 2: Implement Autosummary Navigation  
+- [ ] Phase 3: Clean Module Documentation
+- [ ] Phase 4: Verify Class Pages
+- [ ] Phase 5: Testing & Validation