# Gate C operation guide

## 1. Validate

Validation must report:

```text
controller_version                         0.2.2
controller_provenance_correct              true
deterministic_random_thinning_split        true
gate_b_evidence.gate_b_pass                true
runtime_write_test_pass                    true
validation_pass                            true
```

Registered counts:

```text
LEAVE_ONE_RADIUS_OUT                 782
THINNING_N10_DETERMINISTIC           121
COVERAGE                             242
ML_SENSITIVITY                       302
```

Locked counts:

```text
THINNING_N10_RANDOM                  363
NULL_GAP_ORDER                       605
NULL_UNIFORM_RANGE                   605
```

## 2. Execute the four primary branches

Use one branch run at a time. Completed checkpoints are persistent. Do not create alternate registered runs for the same branch.

Recommended operational order:

```text
T  deterministic n=10 thinning
C  fixed-count coverage
M  M/L sensitivity
L  single-radius deletion
```

The order does not change the registered analysis; this sequence starts with the shortest runs.

## 3. Preserve outputs

Keep each complete branch run package in its canonical folder. The chamber's analysis reads either unpacked result files or the complete ZIP directly.

## 4. Analyze

After all four branches are complete, the chamber builds the mean R1–R5 reference gallery and evaluates:

```text
full standardized rho(kappa) RMS distance
combined [rho, 1-Ak, normalized nu] distance
three-PC rho distance
strict top-1 and top-5 source retrieval
own / nearest-wrong distance ratio
geometry-matched top-1 and top-5 retrieval
nearest-neighbour Jaccard stability
```

The frozen branch pass rule is:

```text
strict top-1 accuracy                  >= 0.75
top-5 accuracy                         >= 0.95
median own/nearest-wrong ratio         <= 0.80
geometry-matched top-1 accuracy        >= 0.60
```

Gate C does not run the random-thinning sensitivity or either null family and does not assign the final project verdict.

---

## v0.3 project interpretation

This document contributes to the galaxy structural-fingerprint programme. Numerical, technical, protocol, or provenance content above is preserved. The canonical interpretation is that the fingerprints are reproducible, organized, and galaxy-specific; sampling, coverage, and baryonic-preparation dependence describe the transformation of fingerprint expression and do not erase the structural finding.

