# Repository Cleanup Summary

## Issues Found and Fixed

### 1. Generated Reports in Git Tracking
**Problem**: Some generated evaluation reports were tracked in git:
- `eval-seed-*.md` (4 files)
- `eval-sanity-report.md`

**Fix**: 
- Removed from git tracking: `git rm --cached`
- Updated `.gitignore` to exclude these patterns
- Files remain on disk but won't be committed

### 2. Duplicate Status Documentation
**Problem**: Multiple overlapping status/complete/final documentation files:
- `docs/ALL_WORK_COMPLETE.md`
- `docs/IMPLEMENTATION_COMPLETE.md`
- `docs/FINAL_STATUS.md`
- `docs/IMPLEMENTATION_STATUS.md`
- `docs/REMAINING_WORK_SUMMARY.md`

**Fix**: 
- Moved to `docs/archive/status/` for historical reference
- Kept canonical files:
  - `docs/REPO_STATUS.md` - Current repository status
  - `docs/SYSTEM_TESTING_SUMMARY.md` - Testing summary
  - `docs/BUGS_FIXED.md` - Bug fixes documentation

### 3. Old Example File
**Problem**: `examples/verify_new_features.rs` was duplicate of `comprehensive_evaluation.rs`

**Fix**: Deleted old file

## Current Clean State

### Root Directory
- ✅ Only essential tracked files:
  - `CHANGELOG.md` (tracked)
  - `PROBLEMS.md` (tracked)
  - `README.md` (tracked)
- ❌ Generated reports properly ignored:
  - `*_report.md`
  - `*-seed-*.md`
  - `eval-*.md`
  - Temporary review docs

### Examples Directory
- ✅ All new examples present:
  - `comprehensive_evaluation.rs`
  - `eval_advanced_features.rs`
  - `eval_coref_analysis.rs`
  - `eval_stress_test.rs`
  - `eval_comparison.rs`
- ✅ Old duplicate removed

### Documentation Directory
- ✅ Organized structure
- ✅ No duplicate status files
- ✅ Historical docs in `docs/archive/`
- ✅ Canonical status in `docs/REPO_STATUS.md`

### Backends Directory
- ✅ All new backends present:
  - `tplinker.rs`
  - `albert.rs`
  - `deberta_v3.rs`
  - `gliner_poly.rs`
  - `universal_ner.rs`

## Files Visible in Tree View (eza/ls)

When viewing with `eza -T` or file tree tools:
- ✅ Code files: All visible and should be committed
- ✅ Documentation: All in `docs/` visible and should be committed
- ❌ Generated reports: Visible but ignored (won't be committed)
- ❌ Temporary docs: Visible but ignored (won't be committed)

## Verification

```bash
# Check what's ignored
git status --ignored --short | grep "!!"

# Check what's tracked
git ls-files | grep -E "\.md$|\.rs$"

# View clean tree
eza -T --git-ignore --level=2 --ignore-glob="target|.git|.cargo"
```

## Result

✅ **Repository is clean and ready for commit**
- No accidental files to commit
- Generated reports properly ignored
- Duplicate docs archived
- Clean structure visible in tree views

