{
  "status": "completed",
  "model_id": "songlab/gpn-brassicales",
  "model_revision": "eb9c35d0d18571abe84390d22e74f2b21d319ce3",
  "gpn_code_revision": "59bbb86de5520d2c347521c2539a476a502ba661",
  "window_size": 512,
  "batch_size": 4,
  "elapsed_seconds": 80.65301421799995,
  "device": "cpu",
  "python": "3.13.14",
  "platform": "Linux-6.18.35-x86_64-with-glibc2.39",
  "packages": {
    "gpn": "0.9.0",
    "torch": "2.13.0+cpu",
    "transformers": "5.15.0",
    "pandas": "2.3.3",
    "pyarrow": "24.0.0"
  },
  "command": [
    ".venv/bin/gpn",
    "ss",
    "vep",
    "--input-path",
    "data/demo/variants_100.parquet",
    "--genome-path",
    "data/demo/reference_chr5_region.fa",
    "--window-size",
    "512",
    "--model-path",
    "songlab/gpn-brassicales",
    "--model-revision",
    "eb9c35d0d18571abe84390d22e74f2b21d319ce3",
    "--output-path",
    "results/demo_100/gpn_scores_raw.parquet",
    "--per-device-eval-batch-size",
    "4",
    "--output-dir",
    "results/demo_100/trainer",
    "--disable-tqdm"
  ],
  "inputs": {
    "reference": {
      "path": "data/demo/reference_chr5_region.fa",
      "sha256": "624dad7224e04390d4a58672e21b87945df34aec457a19d719a403bf0e1f2df5"
    },
    "variants": {
      "path": "data/demo/variants_100.parquet",
      "sha256": "ce266e1c49c38c80b9338fcdb1691ea9fa2cd66e51655d084e9913531893b062"
    }
  },
  "outputs": {
    "raw_scores_sha256": "698f44c5257e74de407bcc521512ca7060cab7038c0a0ddd11aa7fb31ace62b4",
    "merged_scores_sha256": "3b0ca806678482df4c5cee487eb6afb3ea0d33bdd4dce57d063142395e3772bb"
  },
  "summary": {
    "n_variants": 100,
    "score_definition": "alternate-minus-reference log-likelihood ratio averaged over forward and reverse-complement orientations",
    "minimum": -7.072365760803223,
    "q1": -1.8439339697360992,
    "median": -1.0308830738067627,
    "mean": -1.2467765772342683,
    "q3": -0.06406739354133606,
    "maximum": 2.107316493988037,
    "standard_deviation": 1.791630647691718,
    "proportion_negative": 0.77,
    "median_bootstrap_95pct_ci": [
      -1.4434458017349243,
      -0.7225558616220975
    ],
    "bootstrap_replicates": 2000,
    "bootstrap_seed": 42,
    "interpretation_boundary": "Deterministic engineering fixture; not a population sample and not evidence for selection or constraint."
  }
}