Add duplicate filename diagnostics

.gitignore

@@ -2,7 +2,9 @@ __pycache__/
 *.pyc
 .env
 .venv/
+*.egg-info/
 reports/
+samples/small-library/generated/
 *.sqlite
 *.db
 *.csv
@@ -11,3 +13,6 @@ reports/
 # Never commit personal Serato data
 database V2
 *.crate
+
+# macOS
+.DS_Store

CONTRIBUTING.md

@@ -0,0 +1,19 @@
+# Contributing
+
+## Branching
+
+- `main` is stable.
+- `develop` is the integration branch.
+- Feature branches use: `feature/<name>`.
+
+## Safety Rules
+
+Never commit personal music library files, Serato databases, or crates.
+
+Never write repair code without dry-run mode, backup plan, and rollback log.
+
+## Testing
+
+Install development dependencies with `python3 -m pip install -e '.[dev]'`.
+
+Run `pytest` before committing. Tests and fixtures must use synthetic library data.

README.md

@@ -0,0 +1,37 @@
+# Serato Doctor
+
+Serato Doctor is a read-only-first toolkit for inspecting and eventually repairing
+DJ libraries. Serato is the first supported engine.
+
+## Analyze a Library
+
+```shell
+serato-doctor analyze \
+  --serato ~/Music/_Serato_ \
+  --music ~/Music/Jukebox
+```
+
+Analysis prints a transparent reference-integrity score plus broken references,
+duplicate filenames, unused tracks, and suggested filename matches. It does not
+modify the library or create report files.
+
+If crates contain an older library root, supply it explicitly:
+
+```shell
+serato-doctor analyze --reference-root /Users/old-user/OneDrive/Jukebox
+```
+
+## Generate Detailed Reports
+
+Running without a command preserves the original scanner behavior and writes CSV
+and text reports:
+
+```shell
+serato-doctor --serato ~/Music/_Serato_ --music ~/Music/Jukebox
+```
+
+Use `--verbose` for progress on standard error or `--log-file PATH` for an
+aggregate diagnostic log.
+
+Serato Doctor never repairs files without an explicit future repair workflow,
+preview, backup, and rollback path.

ROADMAP.md

@@ -0,0 +1,52 @@
+# Serato Doctor Roadmap
+
+## v0.1 — Library Inspector
+
+- [x] Project repository
+- [x] Filesystem scanner
+- [x] Serato crate parser
+- [x] Missing reference CSV report
+- [x] Grouped missing reference report
+- [ ] HTML health dashboard
+- [x] Test suite
+- [x] Sample library fixtures
+- [ ] Database V2 read-only parser
+- [x] Configuration
+- [x] Logging
+- [x] Matching engine
+
+## v0.2 — Diagnostics
+
+- [x] `serato-doctor analyze` command
+- [x] Duplicate filename detection
+- [ ] Duplicate audio hash detection
+- [ ] Broken symlink detection
+- [ ] Orphaned audio detection
+- [ ] OneDrive rename detection
+- [x] Crate classification: static vs smart/dynamic
+- [x] Library health score
+
+## v0.3 — Safe Repair
+
+- [ ] Dry-run repair plan
+- [ ] Backup before repair
+- [ ] Compatibility symlink creation
+- [ ] Compatibility copy creation
+- [ ] Rename repair
+- [ ] Rollback log
+
+## v0.4 — Migration Wizard
+
+- [ ] Move library root
+- [ ] Cloud provider migration
+- [ ] External drive migration
+- [ ] Verify moved library
+- [ ] Update application references
+
+## v1.0 — DJ Library Doctor
+
+- [ ] Desktop UI
+- [ ] Serato support
+- [ ] Rekordbox support
+- [ ] VirtualDJ support
+- [ ] Engine DJ support

docs/ARCHITECTURE.md

@@ -0,0 +1,11 @@
+# Architecture
+
+Serato Doctor is designed as a DJ library inspection, repair, and migration platform.
+
+## Design Principles
+
+1. Read-only by default.
+2. Every repair must support preview/dry-run.
+3. Every repair must create a backup or rollback path.
+4. Application-specific logic lives in engines.
+5. Core matching and scanning logic should be application-agnostic.

docs/case-studies/onedrive-mac-migration.md

@@ -0,0 +1,26 @@
+# Case Study: OneDrive Mac Migration
+
+## Scenario
+
+A large Serato DJ library was migrated from an older Mac to a newer Mac using OneDrive.
+
+## Symptoms
+
+- OneDrive client stuck syncing
+- Duplicate OneDrive folders
+- Thousands of files renamed with trailing ` 2`
+- Serato reported many tracks as missing
+- Some files existed on disk but still appeared orange in Serato
+
+## Findings
+
+- OneDrive sync state was rebuilt successfully
+- Thousands of orphaned filename conflicts were repaired
+- Some Serato references were stale database objects, not missing files
+- Smart/dynamic crates should be classified separately from static user crates
+
+## Lessons
+
+- Filesystem health and Serato database health are separate problems
+- Smart crates should not be treated the same as static crates
+- Repair tools must be read-only by default and generate a plan before changing anything

docs/design/analyze-command.md

@@ -0,0 +1,27 @@
+# Analyze Command
+
+## Problem
+
+The health and matching engines are only Python APIs. Users need one safe command
+that summarizes library integrity without first interpreting CSV files.
+
+## Architecture
+
+`serato-doctor analyze` reuses the existing configured crate parser and filesystem
+scanner, then prints the immutable health report. The original no-command mode is
+retained as the report-producing scan workflow.
+
+Analyze mode does not create CSV or text reports. Both modes remain read-only with
+respect to Serato crates, databases, and music files.
+
+## Edge Cases
+
+- A library with no references displays `Not assessed` rather than a false score.
+- Historical roots continue to work through repeatable `--reference-root` flags.
+- Normal output remains separate from optional diagnostic logging.
+- Existing scripts that invoke the CLI without a subcommand remain compatible.
+
+## Verification
+
+Tests prove the legacy five-line output and reports remain unchanged, while analyze
+prints health metrics and does not create output files.

docs/design/configuration.md

@@ -0,0 +1,25 @@
+# Scan Configuration
+
+## Problem
+
+The prototype recognized crate paths by matching one developer's historical
+OneDrive path. That made otherwise valid libraries invisible to the parser.
+
+## Architecture
+
+`ScanConfig` owns the paths for a read-only scan. The CLI accepts repeatable
+`--reference-root` options for roots embedded in crates before a migration. The
+parser uses those roots as record boundaries. Without explicit roots, it recognizes
+generic macOS home and mounted-volume paths without embedding a username.
+
+## Edge Cases
+
+- A library may have references from more than one historical root.
+- Root paths may contain spaces or have leading/trailing separators.
+- Existing `/Users/...` and `/Volumes/...` crates must work without new flags.
+- A record without a recognized terminator remains ignored.
+
+## Verification
+
+Tests cover default root discovery, a custom migrated root, the CLI option, and
+the existing synthetic sample library. The scanner remains read-only.

docs/design/crate-classification.md

@@ -0,0 +1,33 @@
+# Crate Classification
+
+## Problem
+
+Static crates are manually maintained track lists. Smart crates are dynamic views
+generated from rules, so stale-looking entries in them should not be presented as
+broken manual references or given the same health-score weight.
+
+## Architecture
+
+Crates carry a `static`, `smart`, or `unknown` kind. Folder provenance is the
+primary signal: Serato stores regular definitions in `Subcrates` and smart
+definitions in `Smartcrates`. `Compatible by key.crate` is also treated as smart
+when encountered in `Subcrates`, based on the original migration case study.
+
+The library loader reads both folders. Health analysis reports all references but
+scores only non-smart references. Unknown crates remain scoreable so incomplete
+classification cannot silently hide potential problems.
+
+Serato documents the folder distinction in [What is in the _Serato_ folder?](https://support.serato.com/hc/en-us/articles/204022904-What-is-in-the-Serato-folder)
+and explains that smart crates are populated from rules in [Crates in Serato DJ](https://support.serato.com/hc/en-us/articles/227561407-Crates-in-Serato-DJ-Pro-Serato-DJ-Lite).
+
+## Edge Cases
+
+- The known `Compatible by key` dynamic crate in the `Subcrates` folder.
+- Crate fixtures outside a recognized Serato folder.
+- Libraries containing both static and smart references to the same track.
+- Dynamic references whose current materialized paths appear missing.
+
+## Verification
+
+Tests cover all three kinds, both Serato folders, the known dynamic fallback, the
+synthetic five-static/two-smart library, and exclusion from health scoring.

docs/design/duplicate-filenames.md

@@ -0,0 +1,32 @@
+# Duplicate Filename Detection
+
+## Problem
+
+Two files with the same filename may be ordinary copies, while names such as
+`Track.mp3` and `Track 2.mp3` may indicate a OneDrive conflict. These cases need
+review, but neither is sufficient evidence for deletion.
+
+## Architecture
+
+The duplicate detector emits immutable groups of two kinds:
+
+- `exact_name` groups filenames after case and Unicode normalization.
+- `cloud_conflict` groups names after additionally removing a trailing numeric
+  suffix from the stem.
+
+Groups contain every path, a stable comparison key, a display name, and the number
+of files beyond the first. Health analysis reports exact and suspected-conflict
+counts separately. Neither category changes the health score.
+
+## Edge Cases
+
+- Same filename in different folders.
+- Case-only and Unicode representation differences.
+- Multiple conflict suffixes such as `Track 2.mp3` and `Track 3.mp3`.
+- Legitimate numbered titles, which remain explicitly labeled as suspected.
+- A single file, which is never reported as a duplicate.
+
+## Verification
+
+Tests cover exact, normalized, conflict-family, unrelated, and deterministic-order
+behavior, plus integration with health analysis. Detection is read-only.

docs/design/health-engine.md

@@ -0,0 +1,32 @@
+# Library Health Engine
+
+## Problem
+
+Raw missing-reference counts do not provide a compact view of library integrity,
+but an opaque blended score would imply confidence the current data cannot support.
+
+## Architecture
+
+The health engine produces an immutable report from the core `Library`. Its score
+is only the percentage of non-dynamic crate references resolved by exact filename.
+Smart-crate references are counted but excluded because their contents are derived
+from rules. The report also exposes missing references, unique missing filenames,
+duplicate filename groups, extra duplicate files, unused tracks, and missing
+references with matching candidates.
+
+Duplicate, unused, and candidate counts are informational. They do not affect the
+score until the project has a documented and validated weighting policy. An empty
+library has no score rather than a misleading 0% or 100%.
+
+## Edge Cases
+
+- The same missing filename referenced by several crates.
+- Several disk files sharing a filename.
+- Conflict-suffixed files that are unused but may be match candidates.
+- Libraries with no crate references.
+- Tracks referenced by filename from more than one crate.
+
+## Verification
+
+Tests assert every metric, the disclosed score basis, candidate integration, and
+empty-library behavior. Analysis remains entirely read-only.

docs/design/logging.md

@@ -0,0 +1,25 @@
+# Application Logging
+
+## Problem
+
+The CLI reports final counts but provides no diagnostic trail when a scan behaves
+unexpectedly. Troubleshooting should not require adding print statements or expose
+library contents by default.
+
+## Architecture
+
+The project uses an isolated standard-library logger. It has no visible output by
+default. `--verbose` writes progress to standard error, while `--log-file PATH`
+writes an informational audit trail. Normal result lines remain on standard output.
+
+## Edge Cases
+
+- Reconfiguring logging in the same process must not duplicate handlers.
+- Console and file logging may be enabled together.
+- Log messages contain aggregate counts, not track names or crate contents.
+- A default scan must remain quiet except for its established result output.
+
+## Verification
+
+Tests verify quiet defaults, file output, handler replacement, and unchanged CLI
+result lines. The full sample-library scan remains read-only.

docs/design/matching-engine.md

@@ -0,0 +1,29 @@
+# Explainable Matching Engine
+
+## Problem
+
+Missing references need ranked candidate files, but a filename-only yes/no check
+cannot explain ambiguity or cloud-provider conflict names.
+
+## Architecture
+
+The read-only matching engine indexes normalized filenames and scores only related
+candidates. Every score contains evidence for filename, extension, and parent
+folder. Exact filenames earn 60 points, normalized names 55, numeric conflict-name
+matches 50, extensions 10, and parent folders 20.
+
+The displayed percentage is an evidence score, not a statistical probability.
+Metadata, duration, hashes, and fingerprints can add stronger evidence later.
+
+## Edge Cases
+
+- Unicode and case differences.
+- OneDrive-style names such as `Track 2.mp3`.
+- Duplicate candidates in different folders.
+- Legitimate numbered song titles, which remain candidates but are never repaired.
+- Unrelated names, which are not emitted as candidates.
+
+## Verification
+
+Tests cover exact, normalized, conflict-suffix, ambiguous, and unrelated filenames.
+Candidate ordering is deterministic. The engine never changes a track or reference.

docs/design/sample-library.md

@@ -0,0 +1,26 @@
+# Synthetic Sample Library
+
+## Problem
+
+Real Serato libraries contain private paths, listening history, and copyrighted
+music. Contributors still need a repeatable library for tests and demonstrations.
+
+## Architecture
+
+`samples/small-library/manifest.json` describes a compact migration scenario.
+`generate.py` turns that manifest into fake audio files and UTF-16-LE crate files
+inside an ignored `generated` directory. The generated files are disposable and
+contain no real audio or user library data.
+
+## Edge Cases
+
+- Five manually maintained crates and two smart/dynamic crates.
+- Mixed supported audio extensions.
+- One reference whose file is absent.
+- One stale reference whose file has been renamed.
+- References shared by static and smart crates.
+
+## Verification
+
+`pytest` generates the sample in a temporary directory and verifies its crate,
+track, and missing-reference counts through the production parser and scanner.

docs/design/test-foundation.md

@@ -0,0 +1,24 @@
+# Test Foundation
+
+## Problem
+
+The crate parser handles unusual binary text and known extension artifacts. Without
+automated tests, a small refactor could silently change library counts or reports.
+
+## Architecture
+
+Tests cover the read-only pipeline from crate and filesystem inputs through the
+core library model to CSV, text, and CLI output. All test data is synthetic and is
+created in temporary directories.
+
+## Edge Cases
+
+- Known MP3, M4A, WAV, and AIF decode artifacts.
+- Crate records without a recognized stop marker.
+- Supported extensions with mixed case and unsupported files.
+- References that exist by filename and references that remain missing.
+
+## Verification
+
+Run `pytest`. No test reads a real Serato library or writes outside pytest's
+temporary directory.

pyproject.toml

@@ -0,0 +1,22 @@
+[build-system]
+requires = ["setuptools>=61"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "serato-doctor"
+version = "0.1.0"
+description = "Inspect, diagnose, repair, and migrate DJ libraries."
+requires-python = ">=3.9"
+dependencies = []
+
+[project.optional-dependencies]
+dev = ["pytest>=8,<9"]
+
+[project.scripts]
+serato-doctor = "serato_doctor.cli:main"
+
+[tool.pytest.ini_options]
+testpaths = ["tests"]
+
+[tool.setuptools.packages.find]
+include = ["serato_doctor*"]

samples/small-library/README.md

@@ -0,0 +1,25 @@
+# Small Synthetic Library
+
+This fixture models a small Serato migration without containing music or personal
+library data. It has 10 fake audio files, five static crates, two smart crates,
+one absent song, and one renamed song.
+
+Generate it with:
+
+```shell
+python3 samples/small-library/generate.py
+```
+
+Analyze it with:
+
+```shell
+python3 -m serato_doctor.cli \
+  --serato samples/small-library/generated/Serato/_Serato_ \
+  --music samples/small-library/generated/Music \
+  --out samples/small-library/generated/scan.csv \
+  --report samples/small-library/generated/report.txt
+```
+
+Expected CLI counts are 13 crate references, 10 disk tracks, and 2 references
+missing by filename. Everything under `generated/` is disposable and ignored by
+Git.

samples/small-library/generate.py

@@ -0,0 +1,56 @@
+"""Generate a disposable, synthetic Serato library from the sample manifest."""
+
+import argparse
+import json
+from pathlib import Path
+from typing import Optional
+
+
+SAMPLE_ROOT = Path(__file__).parent
+SERATO_PATH_PREFIX = "Users/sample-user/OneDrive/Jukebox/"
+
+
+def load_manifest() -> dict:
+    return json.loads((SAMPLE_ROOT / "manifest.json").read_text(encoding="utf-8"))
+
+
+def build_sample(output: Optional[Path] = None) -> Path:
+    root = output or SAMPLE_ROOT / "generated"
+    manifest = load_manifest()
+    music_root = root / "Music"
+    serato_root = root / "Serato" / "_Serato_"
+
+    for relative_path in manifest["tracks"]:
+        track_path = music_root / relative_path
+        track_path.parent.mkdir(parents=True, exist_ok=True)
+        track_path.write_bytes(
+            f"Synthetic Serato Doctor fixture: {relative_path}\n".encode("utf-8")
+        )
+
+    for crate in manifest["crates"]:
+        folder_name = "Smartcrates" if crate["type"] == "smart" else "Subcrates"
+        crate_root = serato_root / folder_name
+        crate_root.mkdir(parents=True, exist_ok=True)
+        other_folder = "Subcrates" if folder_name == "Smartcrates" else "Smartcrates"
+        stale_path = serato_root / other_folder / crate["name"]
+        if stale_path.exists():
+            stale_path.unlink()
+        records = "".join(
+            f"{SERATO_PATH_PREFIX}{relative_path}otrk"
+            for relative_path in crate["references"]
+        )
+        (crate_root / crate["name"]).write_bytes(records.encode("utf-16-le"))
+
+    return root
+
+
+def main() -> None:
+    parser = argparse.ArgumentParser(description=__doc__)
+    parser.add_argument("--output", type=Path)
+    args = parser.parse_args()
+    root = build_sample(args.output)
+    print(f"Generated synthetic library: {root}")
+
+
+if __name__ == "__main__":
+    main()

samples/small-library/manifest.json

@@ -0,0 +1,56 @@
+{
+  "tracks": [
+    "House/First.mp3",
+    "House/Second.m4a",
+    "Open Format/Third.wav",
+    "Open Format/Fourth.aif",
+    "Classics/Fifth.mp3",
+    "Classics/Sixth.flac",
+    "Warmup/Seventh.mp3",
+    "Warmup/Eighth.mp3",
+    "Renamed/New Name.mp3",
+    "Bonus/Ninth.MP3"
+  ],
+  "crates": [
+    {
+      "name": "House.crate",
+      "type": "static",
+      "references": ["House/First.mp3", "House/Second.m4a", "House/Missing.mp3"]
+    },
+    {
+      "name": "Open Format.crate",
+      "type": "static",
+      "references": ["Open Format/Third.wav", "Open Format/Fourth.aif"]
+    },
+    {
+      "name": "Classics.crate",
+      "type": "static",
+      "references": ["Classics/Fifth.mp3", "Classics/Sixth.flac"]
+    },
+    {
+      "name": "Renamed Tracks.crate",
+      "type": "static",
+      "references": ["Renamed/Old Name.mp3"]
+    },
+    {
+      "name": "Bonus.crate",
+      "type": "static",
+      "references": ["Bonus/Ninth.MP3"]
+    },
+    {
+      "name": "Compatible by key.crate",
+      "type": "smart",
+      "references": ["House/First.mp3", "House/Second.m4a"]
+    },
+    {
+      "name": "Smart Warmup.crate",
+      "type": "smart",
+      "references": ["Warmup/Seventh.mp3", "Warmup/Eighth.mp3"]
+    }
+  ],
+  "expected": {
+    "disk_tracks": 10,
+    "crate_references": 13,
+    "missing_by_filename": ["Missing.mp3", "Old Name.mp3"]
+  }
+}

serato_doctor/cli.py

@@ -1,48 +1,109 @@
 from pathlib import Path
 import argparse
 
-from serato_doctor.crate_parser import parse_crates
+from serato_doctor.config import ScanConfig
+from serato_doctor.crate_parser import load_library_crates
+from serato_doctor.health import analyze_health
+from serato_doctor.logging import configure_logging
+from serato_doctor.models.library import Library
 from serato_doctor.scanner import scan_audio
 from serato_doctor.report import write_csv, write_missing_report
 
 
 def main():
     parser = argparse.ArgumentParser(prog="serato-doctor")
+    parser.add_argument(
+        "command", nargs="?", choices=("scan", "analyze"), default="scan"
+    )
     parser.add_argument("--serato", default=str(Path.home() / "Music/_Serato_"))
-    parser.add_argument("--music", default=str(Path.home() / "Library/CloudStorage/OneDrive-Personal/Jukebox"))
-    parser.add_argument("--out", default=str(Path.home() / "Desktop/serato_doctor_scan.csv"))
-    parser.add_argument("--report", default=str(Path.home() / "Desktop/serato_doctor_missing_report.txt"))
+    parser.add_argument(
+        "--music",
+        default=str(
+            Path.home() / "Library/CloudStorage/OneDrive-Personal/Jukebox"
+        ),
+    )
+    parser.add_argument(
+        "--out", default=str(Path.home() / "Desktop/serato_doctor_scan.csv")
+    )
+    parser.add_argument(
+        "--report",
+        default=str(Path.home() / "Desktop/serato_doctor_missing_report.txt"),
+    )
+    parser.add_argument(
+        "--reference-root",
+        action="append",
+        default=[],
+        help="Old library root stored in crates; may be supplied more than once",
+    )
+    parser.add_argument(
+        "--verbose", action="store_true", help="Write diagnostic progress to stderr"
+    )
+    parser.add_argument("--log-file", help="Write scan progress to a log file")
     args = parser.parse_args()
 
-    serato = Path(args.serato)
-    music = Path(args.music)
-    out = Path(args.out)
-    report = Path(args.report)
+    config = ScanConfig.build(
+        serato=Path(args.serato),
+        music=Path(args.music),
+        out=Path(args.out),
+        report=Path(args.report),
+        reference_roots=(Path(root) for root in args.reference_root),
+        verbose=args.verbose,
+        log_file=Path(args.log_file) if args.log_file else None,
+    )
+    logger = configure_logging(config.verbose, config.log_file)
+    logger.info("Starting read-only library inspection")
+    logger.debug("Serato directory: %s", config.serato)
+    logger.debug("Music directory: %s", config.music)
 
-    refs = parse_crates(serato / "Subcrates")
-    disk = scan_audio(music)
+    crates = load_library_crates(config.serato, config.reference_roots)
+    library = Library.from_crates(
+        crates=crates,
+        tracks=scan_audio(config.music),
+    )
+    results = library.reconcile_by_filename()
+    missing_count = sum(1 for result in results if not result.exists_by_filename)
+    logger.info("Parsed %d crate references", len(library.references))
+    logger.info("Scanned %d disk tracks", len(library.tracks))
+    logger.info("Found %d references missing by filename", missing_count)
 
-    disk_names = {t.filename for t in disk}
-
-    rows = []
-    for ref in refs:
-        rows.append({
-            "crate": str(ref.source),
-            "serato_path": str(ref.path),
-            "filename": ref.filename,
-            "exists_by_filename": ref.filename in disk_names,
-        })
-
-    missing_count = sum(1 for r in rows if not r["exists_by_filename"])
-
-    write_csv(rows, out)
-    write_missing_report(rows, report)
-
-    print(f"Crate references: {len(refs)}")
-    print(f"Disk tracks: {len(disk)}")
-    print(f"Missing by filename: {missing_count}")
-    print(f"CSV: {out}")
-    print(f"Report: {report}")
+    if args.command == "analyze":
+        health = analyze_health(library)
+        score = f"{health.score:.1f}%" if health.score is not None else "Not assessed"
+        logger.info("Calculated library health: %s", score)
+        print(f"Overall Health: {score}")
+        print(f"Score Basis: {health.score_basis}")
+        print(f"Tracks: {health.disk_tracks}")
+        print(f"Crate References: {health.total_references}")
+        print(f"References Scored: {health.scored_references}")
+        print(f"Healthy References: {health.healthy_references}")
+        print(f"Broken References: {health.missing_references}")
+        print(f"Unique Missing Filenames: {health.unique_missing_filenames}")
+        print(f"Duplicate Filename Groups: {health.duplicate_filename_groups}")
+        print(f"Duplicate Files: {health.duplicate_files}")
+        print(
+            "Suspected Cloud Conflict Groups: "
+            f"{health.suspected_cloud_conflict_groups}"
+        )
+        print(
+            "Suspected Cloud Conflict Files: "
+            f"{health.suspected_cloud_conflict_files}"
+        )
+        print(f"Unused Tracks: {health.unused_tracks}")
+        print(f"Suggested Matches: {health.suggested_matches}")
+        print(f"Static Crates: {health.static_crates}")
+        print(f"Smart Crates: {health.smart_crates}")
+        print(
+            f"Dynamic References Excluded: {health.dynamic_references_excluded}"
+        )
+    else:
+        write_csv(results, config.out)
+        write_missing_report(results, config.report)
+        logger.info("Wrote CSV and missing-reference reports")
+        print(f"Crate references: {len(library.references)}")
+        print(f"Disk tracks: {len(library.tracks)}")
+        print(f"Missing by filename: {missing_count}")
+        print(f"CSV: {config.out}")
+        print(f"Report: {config.report}")
 
 
 if __name__ == "__main__":

serato_doctor/config.py

@@ -0,0 +1,37 @@
+from dataclasses import dataclass
+from pathlib import Path
+from typing import Iterable, Optional, Tuple
+
+
+@dataclass(frozen=True)
+class ScanConfig:
+    """Read-only paths used for one library scan."""
+
+    serato: Path
+    music: Path
+    out: Path
+    report: Path
+    reference_roots: Tuple[Path, ...] = ()
+    verbose: bool = False
+    log_file: Optional[Path] = None
+
+    @classmethod
+    def build(
+        cls,
+        serato: Path,
+        music: Path,
+        out: Path,
+        report: Path,
+        reference_roots: Iterable[Path] = (),
+        verbose: bool = False,
+        log_file: Optional[Path] = None,
+    ) -> "ScanConfig":
+        return cls(
+            serato,
+            music,
+            out,
+            report,
+            tuple(reference_roots),
+            verbose,
+            log_file,
+        )

serato_doctor/crate_parser.py

@@ -0,0 +1,111 @@
+from pathlib import Path
+from typing import Iterable, Tuple
+
+from serato_doctor.models.crate import Crate, CrateKind
+from serato_doctor.models.reference import TrackReference
+
+
+def read_crate_text(crate_path: Path) -> str:
+    return crate_path.read_bytes().decode("utf-16-le", errors="ignore").replace("\x00", "")
+
+
+def clean_path(raw: str) -> str:
+    # Common Serato decode artifacts where final extension char gets merged.
+    raw = raw.replace(".mp漳", ".mp3")
+    raw = raw.replace(".MP漳", ".MP3")
+    raw = raw.replace(".m4愠", ".m4a")
+    raw = raw.replace(".M4愠", ".M4A")
+    raw = raw.replace(".wa瘠", ".wav")
+    raw = raw.replace(".WA瘠", ".WAV")
+    raw = raw.replace(".ai映", ".aif")
+    raw = raw.replace(".AI映", ".AIF")
+    return raw.strip()
+
+
+DEFAULT_PATH_MARKERS = ("Users/", "Volumes/")
+
+
+def path_markers(reference_roots: Iterable[Path]) -> Tuple[str, ...]:
+    configured = tuple(
+        root.expanduser().as_posix().strip("/") + "/" for root in reference_roots
+    )
+    return configured or DEFAULT_PATH_MARKERS
+
+
+def classify_crate(crate_path: Path) -> CrateKind:
+    parent_names = {parent.name.casefold() for parent in crate_path.parents}
+    if "smartcrates" in parent_names:
+        return CrateKind.SMART
+    if crate_path.name.casefold() == "compatible by key.crate":
+        return CrateKind.SMART
+    if "subcrates" in parent_names:
+        return CrateKind.STATIC
+    return CrateKind.UNKNOWN
+
+
+def load_crate(crate_path: Path, reference_roots: Iterable[Path] = ()) -> Crate:
+    text = read_crate_text(crate_path)
+    refs = []
+
+    # Serato record markers seen after paths in UTF-16-LE decoded crate data.
+    stop_markers = ["牴k", "otrk", "ptrk", "tvcn", "ovct"]
+
+    for marker in path_markers(reference_roots):
+        for part in text.split(marker)[1:]:
+            candidate = marker + part
+
+            stops = [
+                candidate.find(stop)
+                for stop in stop_markers
+                if candidate.find(stop) != -1
+            ]
+            if not stops:
+                continue
+
+            raw_path = "/" + candidate[: min(stops)]
+            raw_path = clean_path(raw_path)
+
+            path = Path(raw_path)
+            refs.append(
+                TrackReference(
+                    source=crate_path,
+                    path=path,
+                    filename=path.name,
+                )
+            )
+
+    return Crate(
+        path=crate_path,
+        references=tuple(refs),
+        kind=classify_crate(crate_path),
+    )
+
+
+def parse_crate(
+    crate_path: Path, reference_roots: Iterable[Path] = ()
+) -> list[TrackReference]:
+    """Parse references from one crate, preserving the prototype API."""
+
+    return list(load_crate(crate_path, reference_roots).references)
+
+
+def parse_crates(
+    root: Path, reference_roots: Iterable[Path] = ()
+) -> list[TrackReference]:
+    refs = []
+    reference_roots = tuple(reference_roots)
+    for crate in root.rglob("*.crate"):
+        refs.extend(parse_crate(crate, reference_roots))
+    return refs
+
+
+def load_library_crates(
+    serato_root: Path, reference_roots: Iterable[Path] = ()
+) -> Tuple[Crate, ...]:
+    reference_roots = tuple(reference_roots)
+    crates = []
+    for folder_name in ("Subcrates", "Smartcrates"):
+        folder = serato_root / folder_name
+        for crate_path in folder.rglob("*.crate"):
+            crates.append(load_crate(crate_path, reference_roots))
+    return tuple(sorted(crates, key=lambda crate: str(crate.path)))

serato_doctor/duplicates.py

@@ -0,0 +1,41 @@
+from collections import defaultdict
+from typing import DefaultDict, Iterable, List, Tuple
+
+from serato_doctor.matching import cloud_conflict_name, normalize
+from serato_doctor.models.duplicate import DuplicateGroup, DuplicateKind
+from serato_doctor.models.track import DiskTrack
+
+
+def find_duplicate_groups(
+    tracks: Iterable[DiskTrack],
+) -> Tuple[DuplicateGroup, ...]:
+    """Find exact-name duplicates and suspected numeric conflict copies."""
+
+    track_tuple = tuple(tracks)
+    by_name: DefaultDict[str, List[DiskTrack]] = defaultdict(list)
+    by_conflict_name: DefaultDict[str, List[DiskTrack]] = defaultdict(list)
+
+    for track in track_tuple:
+        by_name[normalize(track.filename)].append(track)
+        by_conflict_name[cloud_conflict_name(track.filename)].append(track)
+
+    groups = []
+    for key, matches in by_name.items():
+        if len(matches) > 1:
+            groups.append(_group(DuplicateKind.EXACT_NAME, key, matches))
+
+    for key, matches in by_conflict_name.items():
+        distinct_names = {normalize(track.filename) for track in matches}
+        if len(distinct_names) > 1:
+            groups.append(_group(DuplicateKind.CLOUD_CONFLICT, key, matches))
+
+    return tuple(
+        sorted(groups, key=lambda group: (group.kind.value, group.comparison_key))
+    )
+
+
+def _group(
+    kind: DuplicateKind, key: str, tracks: Iterable[DiskTrack]
+) -> DuplicateGroup:
+    ordered = tuple(sorted(tracks, key=lambda track: str(track.path)))
+    return DuplicateGroup(kind, key, ordered)

serato_doctor/health.py

@@ -0,0 +1,79 @@
+from serato_doctor.duplicates import find_duplicate_groups
+from serato_doctor.matching import MatchingEngine
+from serato_doctor.models.crate import CrateKind
+from serato_doctor.models.duplicate import DuplicateKind
+from serato_doctor.models.health import HealthReport
+from serato_doctor.models.library import Library
+
+
+def analyze_health(library: Library) -> HealthReport:
+    """Calculate defensible health metrics without changing the library."""
+
+    dynamic_sources = {
+        crate.path for crate in library.crates if crate.kind is CrateKind.SMART
+    }
+    results = tuple(
+        result
+        for result in library.reconcile_by_filename()
+        if result.reference.source not in dynamic_sources
+    )
+    missing = [result for result in results if not result.exists_by_filename]
+    healthy_count = len(results) - len(missing)
+    score = (
+        round(healthy_count / len(results) * 100, 1) if results else None
+    )
+
+    duplicate_groups = find_duplicate_groups(library.tracks)
+    exact_duplicates = [
+        group
+        for group in duplicate_groups
+        if group.kind is DuplicateKind.EXACT_NAME
+    ]
+    cloud_conflicts = [
+        group
+        for group in duplicate_groups
+        if group.kind is DuplicateKind.CLOUD_CONFLICT
+    ]
+    referenced_names = {reference.filename for reference in library.references}
+    unused_count = sum(
+        1 for track in library.tracks if track.filename not in referenced_names
+    )
+
+    matcher = MatchingEngine(library.tracks)
+    suggested_count = sum(
+        bool(matcher.candidates_for(result.reference)) for result in missing
+    )
+
+    return HealthReport(
+        score=score,
+        total_references=len(library.references),
+        scored_references=len(results),
+        healthy_references=healthy_count,
+        missing_references=len(missing),
+        unique_missing_filenames=len(
+            {result.reference.filename for result in missing}
+        ),
+        disk_tracks=len(library.tracks),
+        duplicate_filename_groups=len(exact_duplicates),
+        duplicate_files=sum(group.extra_files for group in exact_duplicates),
+        suspected_cloud_conflict_groups=len(cloud_conflicts),
+        suspected_cloud_conflict_files=sum(
+            group.extra_files for group in cloud_conflicts
+        ),
+        unused_tracks=unused_count,
+        suggested_matches=suggested_count,
+        static_crates=sum(
+            crate.kind is CrateKind.STATIC for crate in library.crates
+        ),
+        smart_crates=sum(
+            crate.kind is CrateKind.SMART for crate in library.crates
+        ),
+        unknown_crates=sum(
+            crate.kind is CrateKind.UNKNOWN for crate in library.crates
+        ),
+        dynamic_references_excluded=sum(
+            len(crate.references)
+            for crate in library.crates
+            if crate.kind is CrateKind.SMART
+        ),
+    )

serato_doctor/logging.py

@@ -0,0 +1,40 @@
+import logging
+from pathlib import Path
+from typing import Optional
+
+
+LOGGER_NAME = "serato_doctor"
+LOG_FORMAT = "%(asctime)s %(levelname)s %(message)s"
+
+
+def configure_logging(
+    verbose: bool = False, log_file: Optional[Path] = None
+) -> logging.Logger:
+    """Configure isolated application logging and return the project logger."""
+
+    logger = logging.getLogger(LOGGER_NAME)
+    logger.setLevel(logging.DEBUG)
+    logger.propagate = False
+
+    for handler in logger.handlers[:]:
+        handler.close()
+        logger.removeHandler(handler)
+
+    formatter = logging.Formatter(LOG_FORMAT)
+
+    if verbose:
+        console = logging.StreamHandler()
+        console.setLevel(logging.DEBUG)
+        console.setFormatter(formatter)
+        logger.addHandler(console)
+
+    if log_file is not None:
+        file_handler = logging.FileHandler(log_file, encoding="utf-8")
+        file_handler.setLevel(logging.INFO)
+        file_handler.setFormatter(formatter)
+        logger.addHandler(file_handler)
+
+    if not logger.handlers:
+        logger.addHandler(logging.NullHandler())
+
+    return logger

serato_doctor/matching.py

@@ -0,0 +1,86 @@
+import re
+import unicodedata
+from collections import defaultdict
+from pathlib import Path
+from typing import DefaultDict, Iterable, List, Tuple
+
+from serato_doctor.models.match import MatchEvidence, TrackMatch
+from serato_doctor.models.reference import TrackReference
+from serato_doctor.models.track import DiskTrack
+
+
+def normalize(value: str) -> str:
+    return unicodedata.normalize("NFKC", value).casefold()
+
+
+def cloud_conflict_name(filename: str) -> str:
+    """Remove a trailing numeric cloud-conflict suffix from a filename stem."""
+
+    path = Path(filename)
+    stem = re.sub(r" \d+$", "", path.stem)
+    return normalize(stem + path.suffix)
+
+
+def score_candidate(reference: TrackReference, track: DiskTrack) -> TrackMatch:
+    reference_name = reference.filename
+    track_name = track.filename
+
+    if reference_name == track_name:
+        filename_points = 60
+        filename_reason = "Filename is identical"
+    elif normalize(reference_name) == normalize(track_name):
+        filename_points = 55
+        filename_reason = "Filename matches after case and Unicode normalization"
+    elif cloud_conflict_name(reference_name) == cloud_conflict_name(track_name):
+        filename_points = 50
+        filename_reason = "Filename matches after removing a numeric conflict suffix"
+    else:
+        filename_points = 0
+        filename_reason = "Filename does not match"
+
+    same_extension = normalize(reference.path.suffix) == normalize(track.suffix)
+    same_parent = normalize(reference.path.parent.name) == normalize(
+        track.path.parent.name
+    )
+    evidence = (
+        MatchEvidence(
+            "filename",
+            filename_points > 0,
+            filename_points,
+            60,
+            filename_reason,
+        ),
+        MatchEvidence(
+            "extension",
+            same_extension,
+            10 if same_extension else 0,
+            10,
+            "File extension matches" if same_extension else "File extension differs",
+        ),
+        MatchEvidence(
+            "parent_folder",
+            same_parent,
+            20 if same_parent else 0,
+            20,
+            "Parent folder matches" if same_parent else "Parent folder differs",
+        ),
+    )
+    return TrackMatch(reference, track, evidence)
+
+
+class MatchingEngine:
+    """Find and rank filename-related disk candidates without modifying files."""
+
+    def __init__(self, tracks: Iterable[DiskTrack]):
+        self._by_conflict_name: DefaultDict[str, List[DiskTrack]] = defaultdict(list)
+        for track in tracks:
+            self._by_conflict_name[cloud_conflict_name(track.filename)].append(track)
+
+    def candidates_for(self, reference: TrackReference) -> Tuple[TrackMatch, ...]:
+        candidates = self._by_conflict_name.get(
+            cloud_conflict_name(reference.filename), []
+        )
+        matches = [score_candidate(reference, track) for track in candidates]
+        return tuple(
+            sorted(matches, key=lambda match: (-match.score, str(match.track.path)))
+        )

serato_doctor/models/__init__.py

@@ -0,0 +1,21 @@
+from serato_doctor.models.crate import Crate, CrateKind
+from serato_doctor.models.duplicate import DuplicateGroup, DuplicateKind
+from serato_doctor.models.health import HealthReport
+from serato_doctor.models.library import Library
+from serato_doctor.models.match import MatchEvidence, TrackMatch
+from serato_doctor.models.reference import ReferenceResult, TrackReference
+from serato_doctor.models.track import DiskTrack
+
+__all__ = [
+    "Crate",
+    "CrateKind",
+    "DiskTrack",
+    "DuplicateGroup",
+    "DuplicateKind",
+    "HealthReport",
+    "Library",
+    "MatchEvidence",
+    "ReferenceResult",
+    "TrackMatch",
+    "TrackReference",
+]

serato_doctor/models/crate.py

@@ -0,0 +1,21 @@
+from dataclasses import dataclass
+from enum import Enum
+from pathlib import Path
+from typing import Tuple
+
+from serato_doctor.models.reference import TrackReference
+
+
+class CrateKind(str, Enum):
+    STATIC = "static"
+    SMART = "smart"
+    UNKNOWN = "unknown"
+
+
+@dataclass(frozen=True)
+class Crate:
+    """A Serato crate and the track references parsed from it."""
+
+    path: Path
+    references: Tuple[TrackReference, ...]
+    kind: CrateKind = CrateKind.UNKNOWN

serato_doctor/models/duplicate.py

@@ -0,0 +1,30 @@
+from dataclasses import dataclass
+from enum import Enum
+from typing import Tuple
+
+from serato_doctor.models.track import DiskTrack
+
+
+class DuplicateKind(str, Enum):
+    EXACT_NAME = "exact_name"
+    CLOUD_CONFLICT = "cloud_conflict"
+
+
+@dataclass(frozen=True)
+class DuplicateGroup:
+    """A deterministic group of files that warrants duplicate review."""
+
+    kind: DuplicateKind
+    comparison_key: str
+    tracks: Tuple[DiskTrack, ...]
+
+    @property
+    def extra_files(self) -> int:
+        return max(0, len(self.tracks) - 1)
+
+    @property
+    def display_name(self) -> str:
+        return min(
+            (track.filename for track in self.tracks),
+            key=lambda name: (len(name), name.casefold()),
+        )

serato_doctor/models/health.py

@@ -0,0 +1,29 @@
+from dataclasses import dataclass
+from typing import Optional
+
+
+@dataclass(frozen=True)
+class HealthReport:
+    """Transparent aggregate findings from a read-only library analysis."""
+
+    score: Optional[float]
+    total_references: int
+    scored_references: int
+    healthy_references: int
+    missing_references: int
+    unique_missing_filenames: int
+    disk_tracks: int
+    duplicate_filename_groups: int
+    duplicate_files: int
+    suspected_cloud_conflict_groups: int
+    suspected_cloud_conflict_files: int
+    unused_tracks: int
+    suggested_matches: int
+    static_crates: int
+    smart_crates: int
+    unknown_crates: int
+    dynamic_references_excluded: int
+
+    @property
+    def score_basis(self) -> str:
+        return "Resolved non-dynamic references / non-dynamic references scored"

serato_doctor/models/library.py

@@ -0,0 +1,45 @@
+from dataclasses import dataclass
+from typing import Iterable, Tuple
+
+from serato_doctor.models.crate import Crate
+from serato_doctor.models.reference import ReferenceResult, TrackReference
+from serato_doctor.models.track import DiskTrack
+
+
+@dataclass(frozen=True)
+class Library:
+    """The read-only view of crate references and audio found on disk."""
+
+    references: Tuple[TrackReference, ...]
+    tracks: Tuple[DiskTrack, ...]
+    crates: Tuple[Crate, ...] = ()
+
+    @classmethod
+    def build(
+        cls,
+        references: Iterable[TrackReference],
+        tracks: Iterable[DiskTrack],
+    ) -> "Library":
+        return cls(tuple(references), tuple(tracks))
+
+    @classmethod
+    def from_crates(
+        cls, crates: Iterable[Crate], tracks: Iterable[DiskTrack]
+    ) -> "Library":
+        crate_tuple = tuple(crates)
+        references = tuple(
+            reference
+            for crate in crate_tuple
+            for reference in crate.references
+        )
+        return cls(references, tuple(tracks), crate_tuple)
+
+    def reconcile_by_filename(self) -> Tuple[ReferenceResult, ...]:
+        disk_names = {track.filename for track in self.tracks}
+        return tuple(
+            ReferenceResult(
+                reference=reference,
+                exists_by_filename=reference.filename in disk_names,
+            )
+            for reference in self.references
+        )

serato_doctor/models/match.py

@@ -0,0 +1,39 @@
+from dataclasses import dataclass
+from typing import Tuple
+
+from serato_doctor.models.reference import TrackReference
+from serato_doctor.models.track import DiskTrack
+
+
+@dataclass(frozen=True)
+class MatchEvidence:
+    """One explainable scoring decision for a candidate track."""
+
+    field: str
+    matched: bool
+    points: int
+    max_points: int
+    explanation: str
+
+
+@dataclass(frozen=True)
+class TrackMatch:
+    """A ranked candidate backed by explicit, inspectable evidence."""
+
+    reference: TrackReference
+    track: DiskTrack
+    evidence: Tuple[MatchEvidence, ...]
+
+    @property
+    def score(self) -> int:
+        return sum(item.points for item in self.evidence)
+
+    @property
+    def max_score(self) -> int:
+        return sum(item.max_points for item in self.evidence)
+
+    @property
+    def score_percent(self) -> float:
+        if not self.max_score:
+            return 0.0
+        return round(self.score / self.max_score * 100, 1)

serato_doctor/models/reference.py

@@ -0,0 +1,27 @@
+from dataclasses import dataclass
+from pathlib import Path
+
+
+@dataclass(frozen=True)
+class TrackReference:
+    """A track path referenced by a Serato crate."""
+
+    source: Path
+    path: Path
+    filename: str
+
+
+@dataclass(frozen=True)
+class ReferenceResult:
+    """The filename-level reconciliation result for a crate reference."""
+
+    reference: TrackReference
+    exists_by_filename: bool
+
+    def as_row(self) -> dict:
+        return {
+            "crate": str(self.reference.source),
+            "serato_path": str(self.reference.path),
+            "filename": self.reference.filename,
+            "exists_by_filename": self.exists_by_filename,
+        }

serato_doctor/models/track.py

@@ -0,0 +1,12 @@
+from dataclasses import dataclass
+from pathlib import Path
+
+
+@dataclass(frozen=True)
+class DiskTrack:
+    """An audio file discovered on disk."""
+
+    path: Path
+    filename: str
+    size: int
+    suffix: str

serato_doctor/report.py

@@ -1,9 +1,13 @@
 from collections import Counter, defaultdict
 from pathlib import Path
+from typing import Iterable
 import csv
 
+from serato_doctor.models.reference import ReferenceResult
 
-def write_missing_report(rows: list[dict], out: Path) -> None:
+
+def write_missing_report(results: Iterable[ReferenceResult], out: Path) -> None:
+    rows = [result.as_row() for result in results]
     missing = [r for r in rows if not r["exists_by_filename"]]
 
     crate_counts = Counter(r["crate"] for r in missing)
@@ -32,7 +36,8 @@ def write_missing_report(rows: list[dict], out: Path) -> None:
                 f.write(f"- {name}\n")
 
 
-def write_csv(rows: list[dict], out: Path) -> None:
+def write_csv(results: Iterable[ReferenceResult], out: Path) -> None:
+    rows = [result.as_row() for result in results]
     with out.open("w", newline="", encoding="utf-8") as f:
         writer = csv.DictWriter(
             f,

serato_doctor/scanner.py

@@ -0,0 +1,31 @@
+from pathlib import Path
+
+from serato_doctor.models.track import DiskTrack
+
+AUDIO_SUFFIXES = {".mp3", ".m4a", ".wav", ".aif", ".aiff", ".flac"}
+
+
+def scan_audio(folder: Path) -> list[DiskTrack]:
+    tracks = []
+
+    for path in folder.rglob("*"):
+        if not path.is_file():
+            continue
+        if path.suffix.lower() not in AUDIO_SUFFIXES:
+            continue
+
+        try:
+            stat = path.stat()
+        except OSError:
+            continue
+
+        tracks.append(
+            DiskTrack(
+                path=path,
+                filename=path.name,
+                size=stat.st_size,
+                suffix=path.suffix.lower(),
+            )
+        )
+
+    return tracks

tests/test_cli.py

@@ -0,0 +1,131 @@
+import csv
+import sys
+
+from serato_doctor.cli import main
+
+
+def test_cli_writes_reports_and_prints_counts(tmp_path, monkeypatch, capsys):
+    serato = tmp_path / "serato"
+    subcrates = serato / "Subcrates"
+    music = tmp_path / "music"
+    subcrates.mkdir(parents=True)
+    music.mkdir()
+
+    crate_text = (
+        "Users/sample-user/OneDrive/Jukebox/Found.mp漳牴k"
+        "Users/sample-user/OneDrive/Jukebox/Missing.mp漳牴k"
+    )
+    (subcrates / "Test.crate").write_bytes(crate_text.encode("utf-16-le"))
+    (music / "Found.mp3").write_bytes(b"synthetic audio")
+    csv_path = tmp_path / "scan.csv"
+    report_path = tmp_path / "report.txt"
+    monkeypatch.setattr(
+        sys,
+        "argv",
+        [
+            "serato-doctor",
+            "--serato",
+            str(serato),
+            "--music",
+            str(music),
+            "--out",
+            str(csv_path),
+            "--report",
+            str(report_path),
+        ],
+    )
+
+    main()
+
+    captured = capsys.readouterr()
+    output = captured.out
+    assert captured.err == ""
+    assert "Crate references: 2" in output
+    assert "Disk tracks: 1" in output
+    assert "Missing by filename: 1" in output
+    assert f"CSV: {csv_path}" in output
+    assert f"Report: {report_path}" in output
+    with csv_path.open(newline="", encoding="utf-8") as csv_file:
+        rows = list(csv.DictReader(csv_file))
+    assert [row["exists_by_filename"] for row in rows] == ["True", "False"]
+    assert "Total missing references: 1" in report_path.read_text(encoding="utf-8")
+
+
+def test_cli_accepts_old_reference_root(tmp_path, monkeypatch, capsys):
+    serato = tmp_path / "serato"
+    subcrates = serato / "Subcrates"
+    music = tmp_path / "music"
+    subcrates.mkdir(parents=True)
+    music.mkdir()
+    (subcrates / "Test.crate").write_bytes(
+        "Archive/Jukebox/Found.mp3otrk".encode("utf-16-le")
+    )
+    (music / "Found.mp3").write_bytes(b"synthetic audio")
+    monkeypatch.setattr(
+        sys,
+        "argv",
+        [
+            "serato-doctor",
+            "--serato",
+            str(serato),
+            "--music",
+            str(music),
+            "--out",
+            str(tmp_path / "scan.csv"),
+            "--report",
+            str(tmp_path / "report.txt"),
+            "--reference-root",
+            "/Archive/Jukebox",
+        ],
+    )
+
+    main()
+
+    output = capsys.readouterr().out
+    assert "Crate references: 1" in output
+    assert "Missing by filename: 0" in output
+
+
+def test_analyze_prints_health_without_writing_reports(tmp_path, monkeypatch, capsys):
+    serato = tmp_path / "serato"
+    subcrates = serato / "Subcrates"
+    music = tmp_path / "music"
+    subcrates.mkdir(parents=True)
+    music.mkdir()
+    crate_text = (
+        "Users/sample-user/Jukebox/Found.mp3otrk"
+        "Users/sample-user/Jukebox/Missing.mp3otrk"
+    )
+    (subcrates / "Test.crate").write_bytes(crate_text.encode("utf-16-le"))
+    (music / "Found.mp3").write_bytes(b"synthetic audio")
+    csv_path = tmp_path / "scan.csv"
+    report_path = tmp_path / "report.txt"
+    monkeypatch.setattr(
+        sys,
+        "argv",
+        [
+            "serato-doctor",
+            "analyze",
+            "--serato",
+            str(serato),
+            "--music",
+            str(music),
+            "--out",
+            str(csv_path),
+            "--report",
+            str(report_path),
+        ],
+    )
+
+    main()
+
+    output = capsys.readouterr().out
+    assert "Overall Health: 50.0%" in output
+    assert "Tracks: 1" in output
+    assert "Crate References: 2" in output
+    assert "References Scored: 2" in output
+    assert "Healthy References: 1" in output
+    assert "Broken References: 1" in output
+    assert "Unused Tracks: 0" in output
+    assert not csv_path.exists()
+    assert not report_path.exists()

tests/test_config.py

@@ -0,0 +1,17 @@
+from pathlib import Path
+
+from serato_doctor.config import ScanConfig
+
+
+def test_scan_config_freezes_reference_roots():
+    roots = (Path(root) for root in ["/old/one", "/old/two"])
+
+    config = ScanConfig.build(
+        serato=Path("serato"),
+        music=Path("music"),
+        out=Path("scan.csv"),
+        report=Path("report.txt"),
+        reference_roots=roots,
+    )
+
+    assert config.reference_roots == (Path("/old/one"), Path("/old/two"))

tests/test_crates.py

@@ -0,0 +1,103 @@
+from pathlib import Path
+
+import pytest
+
+from serato_doctor.crate_parser import (
+    classify_crate,
+    clean_path,
+    load_crate,
+    parse_crate,
+    parse_crates,
+    path_markers,
+)
+from serato_doctor.models.crate import CrateKind
+
+
+@pytest.mark.parametrize(
+    ("artifact", "expected"),
+    [
+        ("song.mp漳", "song.mp3"),
+        ("song.m4愠", "song.m4a"),
+        ("song.wa瘠", "song.wav"),
+        ("song.ai映", "song.aif"),
+    ],
+)
+def test_clean_path_repairs_known_extension_artifacts(artifact, expected):
+    assert clean_path(artifact) == expected
+
+
+def test_parse_crate_extracts_references(tmp_path):
+    crate_path = tmp_path / "House.crate"
+    crate_text = (
+        "header"
+        "Users/sample-user/OneDrive/Jukebox/House/First.mp漳牴k"
+        "metadata"
+        "Users/sample-user/OneDrive/Jukebox/House/Second.m4愠otrk"
+    )
+    crate_path.write_bytes(crate_text.encode("utf-16-le"))
+
+    crate = load_crate(crate_path)
+
+    assert crate.path == crate_path
+    assert [reference.filename for reference in crate.references] == [
+        "First.mp3",
+        "Second.m4a",
+    ]
+    assert parse_crate(crate_path) == list(crate.references)
+
+
+def test_parse_crate_ignores_record_without_stop_marker(tmp_path):
+    crate_path = Path(tmp_path) / "Incomplete.crate"
+    crate_path.write_bytes(
+        "Users/sample-user/OneDrive/Jukebox/House/Incomplete.mp3".encode(
+            "utf-16-le"
+        )
+    )
+
+    assert parse_crate(crate_path) == []
+
+
+def test_parse_crate_uses_configured_reference_root(tmp_path):
+    crate_path = tmp_path / "Migrated.crate"
+    crate_path.write_bytes(
+        "Archive/Old Library/House/Track.mp3otrk".encode("utf-16-le")
+    )
+
+    references = parse_crate(crate_path, [Path("/Archive/Old Library")])
+
+    assert references[0].path == Path("/Archive/Old Library/House/Track.mp3")
+
+
+def test_default_path_markers_do_not_contain_a_username():
+    assert path_markers([]) == ("Users/", "Volumes/")
+
+
+def test_parse_crates_reuses_configured_roots_for_every_crate(tmp_path):
+    for name in ("First", "Second"):
+        (tmp_path / f"{name}.crate").write_bytes(
+            f"Archive/Jukebox/{name}.mp3otrk".encode("utf-16-le")
+        )
+
+    references = parse_crates(
+        tmp_path, (root for root in [Path("/Archive/Jukebox")])
+    )
+
+    assert {reference.filename for reference in references} == {
+        "First.mp3",
+        "Second.mp3",
+    }
+
+
+@pytest.mark.parametrize(
+    ("relative_path", "expected"),
+    [
+        ("_Serato_/Subcrates/House.crate", CrateKind.STATIC),
+        ("_Serato_/Smartcrates/Warmup.crate", CrateKind.SMART),
+        ("_Serato_/Subcrates/Compatible by key.crate", CrateKind.SMART),
+        ("fixtures/Unknown.crate", CrateKind.UNKNOWN),
+    ],
+)
+def test_classify_crate_uses_provenance_and_known_dynamic_name(
+    tmp_path, relative_path, expected
+):
+    assert classify_crate(tmp_path / relative_path) is expected

tests/test_duplicates.py

@@ -0,0 +1,57 @@
+from pathlib import Path
+
+from serato_doctor.duplicates import find_duplicate_groups
+from serato_doctor.models.duplicate import DuplicateKind
+from serato_doctor.models.track import DiskTrack
+
+
+def track(path):
+    path = Path(path)
+    return DiskTrack(path, path.name, 100, path.suffix.lower())
+
+
+def test_exact_names_in_different_folders_form_a_group():
+    groups = find_duplicate_groups(
+        [track("/A/Song.mp3"), track("/B/Song.mp3")]
+    )
+
+    assert len(groups) == 1
+    assert groups[0].kind is DuplicateKind.EXACT_NAME
+    assert groups[0].display_name == "Song.mp3"
+    assert groups[0].extra_files == 1
+
+
+def test_case_only_difference_is_an_exact_name_duplicate():
+    groups = find_duplicate_groups(
+        [track("/A/SONG.MP3"), track("/B/song.mp3")]
+    )
+
+    assert groups[0].kind is DuplicateKind.EXACT_NAME
+
+
+def test_numeric_suffixes_form_a_suspected_cloud_conflict_group():
+    groups = find_duplicate_groups(
+        [
+            track("/A/Track.mp3"),
+            track("/B/Track 2.mp3"),
+            track("/C/Track 3.mp3"),
+        ]
+    )
+
+    assert len(groups) == 1
+    assert groups[0].kind is DuplicateKind.CLOUD_CONFLICT
+    assert groups[0].display_name == "Track.mp3"
+    assert groups[0].extra_files == 2
+    assert [item.path for item in groups[0].tracks] == [
+        Path("/A/Track.mp3"),
+        Path("/B/Track 2.mp3"),
+        Path("/C/Track 3.mp3"),
+    ]
+
+
+def test_unrelated_and_single_files_are_not_reported():
+    groups = find_duplicate_groups(
+        [track("/A/First.mp3"), track("/B/Second.mp3")]
+    )
+
+    assert groups == ()

tests/test_health.py

@@ -0,0 +1,106 @@
+from pathlib import Path
+
+from serato_doctor.health import analyze_health
+from serato_doctor.models.crate import Crate, CrateKind
+from serato_doctor.models.library import Library
+from serato_doctor.models.reference import TrackReference
+from serato_doctor.models.track import DiskTrack
+
+
+def reference(filename):
+    return TrackReference(
+        Path("Test.crate"), Path("/old/House") / filename, filename
+    )
+
+
+def track(filename, folder="House"):
+    path = Path("/new") / folder / filename
+    return DiskTrack(path, filename, 100, path.suffix.lower())
+
+
+def test_health_report_exposes_each_metric():
+    library = Library.build(
+        [
+            reference("Found.mp3"),
+            reference("Conflict.mp3"),
+            reference("Absent.mp3"),
+        ],
+        [
+            track("Found.mp3"),
+            track("Conflict 2.mp3"),
+            track("Conflict 2.mp3", "Backup"),
+            track("Unused.mp3"),
+        ],
+    )
+
+    report = analyze_health(library)
+
+    assert report.score == 33.3
+    assert report.score_basis == (
+        "Resolved non-dynamic references / non-dynamic references scored"
+    )
+    assert report.total_references == 3
+    assert report.scored_references == 3
+    assert report.healthy_references == 1
+    assert report.missing_references == 2
+    assert report.unique_missing_filenames == 2
+    assert report.disk_tracks == 4
+    assert report.duplicate_filename_groups == 1
+    assert report.duplicate_files == 1
+    assert report.unused_tracks == 3
+    assert report.suggested_matches == 1
+
+
+def test_empty_library_has_no_health_score():
+    report = analyze_health(Library.build([], []))
+
+    assert report.score is None
+    assert report.total_references == 0
+    assert report.scored_references == 0
+
+
+def test_smart_crate_references_are_reported_but_not_scored():
+    static_reference = reference("Found.mp3")
+    smart_reference = TrackReference(
+        Path("Smartcrates/Dynamic.crate"),
+        Path("/old/House/Dynamic.mp3"),
+        "Dynamic.mp3",
+    )
+    crates = [
+        Crate(Path("Subcrates/Static.crate"), (static_reference,), CrateKind.STATIC),
+        Crate(
+            Path("Smartcrates/Dynamic.crate"),
+            (smart_reference,),
+            CrateKind.SMART,
+        ),
+    ]
+    library = Library.from_crates(crates, [track("Found.mp3")])
+
+    report = analyze_health(library)
+
+    assert report.score == 100.0
+    assert report.total_references == 2
+    assert report.scored_references == 1
+    assert report.missing_references == 0
+    assert report.static_crates == 1
+    assert report.smart_crates == 1
+    assert report.dynamic_references_excluded == 1
+
+
+def test_health_reports_cloud_conflicts_separately_from_exact_duplicates():
+    library = Library.build(
+        [],
+        [
+            track("Track.mp3", "Original"),
+            track("Track 2.mp3", "Conflict"),
+            track("Copy.mp3", "First"),
+            track("Copy.mp3", "Second"),
+        ],
+    )
+
+    report = analyze_health(library)
+
+    assert report.duplicate_filename_groups == 1
+    assert report.duplicate_files == 1
+    assert report.suspected_cloud_conflict_groups == 1
+    assert report.suspected_cloud_conflict_files == 1

tests/test_library.py

@@ -0,0 +1,24 @@
+from pathlib import Path
+
+from serato_doctor.models.library import Library
+from serato_doctor.models.reference import TrackReference
+from serato_doctor.models.track import DiskTrack
+
+
+def test_library_reconciles_references_by_filename():
+    crate = Path("House.crate")
+    references = [
+        TrackReference(crate, Path("/old/Found.mp3"), "Found.mp3"),
+        TrackReference(crate, Path("/old/Missing.mp3"), "Missing.mp3"),
+    ]
+    tracks = [DiskTrack(Path("/new/Found.mp3"), "Found.mp3", 10, ".mp3")]
+
+    results = Library.build(references, tracks).reconcile_by_filename()
+
+    assert [result.exists_by_filename for result in results] == [True, False]
+    assert results[1].as_row() == {
+        "crate": "House.crate",
+        "serato_path": "/old/Missing.mp3",
+        "filename": "Missing.mp3",
+        "exists_by_filename": False,
+    }

tests/test_logging.py

@@ -0,0 +1,34 @@
+import logging
+
+from serato_doctor.logging import LOGGER_NAME, configure_logging
+
+
+def test_logging_is_quiet_by_default(capsys):
+    logger = configure_logging()
+
+    logger.info("not visible")
+
+    assert capsys.readouterr().err == ""
+
+
+def test_logging_writes_aggregate_progress_to_file(tmp_path):
+    log_path = tmp_path / "scan.log"
+    logger = configure_logging(log_file=log_path)
+
+    logger.info("Scanned %d disk tracks", 10)
+
+    contents = log_path.read_text(encoding="utf-8")
+    assert "INFO Scanned 10 disk tracks" in contents
+
+
+def test_reconfiguring_logging_replaces_handlers():
+    configure_logging(verbose=True)
+    logger = configure_logging(verbose=True)
+
+    active_handlers = [
+        handler
+        for handler in logger.handlers
+        if not isinstance(handler, logging.NullHandler)
+    ]
+    assert logger.name == LOGGER_NAME
+    assert len(active_handlers) == 1

tests/test_matcher.py

@@ -0,0 +1,62 @@
+from pathlib import Path
+
+from serato_doctor.matching import MatchingEngine, score_candidate
+from serato_doctor.models.reference import TrackReference
+from serato_doctor.models.track import DiskTrack
+
+
+def reference(filename, folder="House"):
+    return TrackReference(
+        Path("Test.crate"), Path("/old") / folder / filename, filename
+    )
+
+
+def track(filename, folder="House"):
+    path = Path("/new") / folder / filename
+    return DiskTrack(path, filename, 100, path.suffix.lower())
+
+
+def test_exact_candidate_has_full_evidence_score():
+    match = score_candidate(reference("Track.mp3"), track("Track.mp3"))
+
+    assert match.score == 90
+    assert match.max_score == 90
+    assert match.score_percent == 100.0
+    assert all(item.matched for item in match.evidence)
+
+
+def test_cloud_conflict_suffix_is_explained():
+    match = score_candidate(reference("Track.mp3"), track("Track 2.mp3"))
+
+    assert match.score == 80
+    assert match.score_percent == 88.9
+    assert match.evidence[0].explanation == (
+        "Filename matches after removing a numeric conflict suffix"
+    )
+
+
+def test_case_normalized_match_scores_below_exact():
+    match = score_candidate(reference("TRACK.MP3"), track("track.mp3"))
+
+    assert match.score == 85
+    assert match.evidence[0].points == 55
+
+
+def test_engine_omits_unrelated_filenames():
+    engine = MatchingEngine([track("Different.mp3")])
+
+    assert engine.candidates_for(reference("Missing.mp3")) == ()
+
+
+def test_ambiguous_candidates_are_ranked_deterministically():
+    engine = MatchingEngine(
+        [track("Track 2.mp3", "Other"), track("Track 3.mp3", "House")]
+    )
+
+    matches = engine.candidates_for(reference("Track.mp3"))
+
+    assert [match.track.filename for match in matches] == [
+        "Track 3.mp3",
+        "Track 2.mp3",
+    ]
+    assert [match.score for match in matches] == [80, 60]

tests/test_sample_library.py

@@ -0,0 +1,32 @@
+import runpy
+from pathlib import Path
+
+from serato_doctor.crate_parser import load_library_crates
+from serato_doctor.models.crate import CrateKind
+from serato_doctor.models.library import Library
+from serato_doctor.scanner import scan_audio
+
+
+def test_generated_sample_library_has_expected_scenario(tmp_path):
+    generator_path = (
+        Path(__file__).parents[1] / "samples" / "small-library" / "generate.py"
+    )
+    build_sample = runpy.run_path(str(generator_path))["build_sample"]
+    sample_root = build_sample(tmp_path / "sample")
+
+    crates = load_library_crates(sample_root / "Serato" / "_Serato_")
+    tracks = scan_audio(sample_root / "Music")
+    library = Library.from_crates(crates, tracks)
+    results = library.reconcile_by_filename()
+    missing = {
+        result.reference.filename
+        for result in results
+        if not result.exists_by_filename
+    }
+
+    assert len(list((sample_root / "Serato").rglob("*.crate"))) == 7
+    assert len(library.references) == 13
+    assert len(tracks) == 10
+    assert missing == {"Missing.mp3", "Old Name.mp3"}
+    assert sum(crate.kind is CrateKind.STATIC for crate in crates) == 5
+    assert sum(crate.kind is CrateKind.SMART for crate in crates) == 2

tests/test_scanner.py

@@ -0,0 +1,17 @@
+from serato_doctor.scanner import scan_audio
+
+
+def test_scan_audio_finds_supported_files(tmp_path):
+    music = tmp_path / "music"
+    nested = music / "House"
+    nested.mkdir(parents=True)
+    (nested / "First.MP3").write_bytes(b"synthetic audio")
+    (nested / "Second.flac").write_bytes(b"fixture")
+    (nested / "notes.txt").write_text("not audio", encoding="utf-8")
+
+    tracks = scan_audio(music)
+
+    assert {track.filename for track in tracks} == {"First.MP3", "Second.flac"}
+    first = next(track for track in tracks if track.filename == "First.MP3")
+    assert first.suffix == ".mp3"
+    assert first.size == len(b"synthetic audio")