{
  "status": "PASS",
  "module": "analysis/18_full_reanalysis/synthesis",
  "started_at_utc": "2026-08-15T08:39:39.507355+00:00",
  "completed_at_utc": "2026-08-15T08:39:45.027561+00:00",
  "script": {
    "path": "analysis/18_full_reanalysis/synthesis/run_synthesis.py",
    "sha256": "90aef177c043c2c0bef34ab08b746e6e6bcd359f42d3094ff0b8db86f11073ba"
  },
  "config": {
    "path": "analysis/18_full_reanalysis/synthesis/config.json",
    "sha256": "7fc93c1194b957bf55b8d002e9559de712c41c71b3962f3c103235374a995fa2"
  },
  "upstream_hashes": {
    "microbiome_validation": "ce35971c9b39457e30b0b34a4f9335b2bdf9b4e10bd689488d47dd7e1417ba8b",
    "microbiome_manifest": "78db9c320728c60ca77078a4f218ac7f8d355f97d53df1a9d51f8ab7b1ae9586",
    "metabolomics_independent_validation": "46d01cc56b5584bd112632a963ffbf717b443f340301735a097cff7aa58b96a1",
    "metabolomics_posthoc_comparison": "2213f1b306657dd3b76d3ef5eeb0d31d091b3b53a4bd1319ff3dbd2314d2a81e",
    "metabolomics_validation": "cab7d80d49cbd81f4b22c188437acc4b34d5aae1810df8e6ccfce8aea348f5e0",
    "metabolomics_manifest": "467e9a998edb428d804d62e9009b1999085712b6aa9924267518d9ba224e9936",
    "rna_context_validation": "1244984ef025f4a2ba5a115e7afb9880aed7b87f8d6f3c2940bdec0f70122ece",
    "rna_context_manifest": "09a8cc8466663fdc07ee805a92e72dd3edbfcb562dd2f720922ebe0e5f0a06e0",
    "integration_validation": "b0b1563288f15cf3c20e65dffaa011a77b65c80867f496cd3786b32393ed7dc9",
    "integration_manifest": "c1abdce8520f26bd63d86d33c2f4efe8b933dafaca29d3be777e187b1e7a6690",
    "recovery_e0_adjusted_independent_validation": "c03244d2c64e81f83d07f2c01f6943fa7c7b733984dcfb6455889ea8acf82590",
    "recovery_e0_adjusted_validation": "da7789985f4231266c341b5d4dd29140cd64e4ef0ea4fff7ecf62b8208fdd4b9",
    "recovery_e0_adjusted_manifest": "6026398e0f39bba53688fad1134fc05766c72aa1e00a3428281d869914fae993"
  },
  "statistical_inputs": "fresh PASS modules only; no analysis/11-17 statistical outputs",
  "formal_feature_recovery_estimand": "E0_adjusted_Pstar_Qstar_v1",
  "formal_feature_recovery_inputs": [
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/alpha_recovery_e0_adjusted_pqs.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/alpha_recovery_e0_adjusted_r8_minus_r4.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/functional_recovery_e0_adjusted_pqs.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/functional_recovery_e0_adjusted_r8_minus_r4.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/recovery_E0_adjusted_Pstar_S_Qstar_mesor_contrasts.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/recovery_E0_adjusted_Pstar_S_Qstar_rhythm_contrasts.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/recovery_E0_adjusted_R8_vs_R4_direct_contrasts.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/species_recovery_e0_adjusted_pqs.csv.gz",
    "analysis/18_full_reanalysis/recovery_e0_adjusted/outputs/species_recovery_e0_adjusted_r8_minus_r4.csv.gz"
  ],
  "legacy_raw_E8_P_recovery_inputs": "runtime-forbidden",
  "sampling_unit": "randomly collected faecal specimen / population design-cell contrast",
  "paired_or_animal_trajectory": false,
  "rna_scope": "E8 context only; no recovery or mediation inference",
  "integration_inference": "bootstrap CI only; no invented constrained-null P/q",
  "figure_layout_audit": {
    "visible_text_items": 75,
    "outside_canvas": [],
    "same_axes_text_overlaps": []
  },
  "outputs": [
    {
      "path": "analysis/18_full_reanalysis/synthesis/README.md",
      "bytes": 2285,
      "sha256": "c60fbb3951d64df77ddf76a59c3a4f695726209d892c859bf8eb772233b85dd3"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/RESULTS_SUMMARY.md",
      "bytes": 7775,
      "sha256": "898780af5e6a2c64ba11637ad63a0a0d870c8b25f56ccbb8a24e47c8a42a6173"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/candidate_shortlist.csv",
      "bytes": 8138,
      "sha256": "914a1bf25afcbfbeeddafeaf17d7c5c3ac46c24737403ce60a730f7ac28a6311"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/direct_progress_summary.csv",
      "bytes": 600,
      "sha256": "b6de803514e9f5e81125874d84bfb3e959349187d5d4c65a4ca4f7aa5ff1534c"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/context_evidence.json",
      "bytes": 732,
      "sha256": "3ba55f8fedb05ce8d023cda951f354e6f6f8c52bc5498d0fdacac1660e2c3515"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/upstream_gate.csv",
      "bytes": 3334,
      "sha256": "3b9b45877baab292e78bcf98cfd386d026216c0bee9d990cd2d37cdf28f33481"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/figures/figure_fresh_full_synthesis.png",
      "bytes": 688734,
      "sha256": "3081b7df790cc9c5effa9811027a40c1300ff32683d4800dff030ab3412e95e9"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/figures/figure_fresh_full_synthesis.pdf",
      "bytes": 76895,
      "sha256": "0d7edc7439635e96eb8350f4b8aa68b17fada6b6cf58e203a9a9764190d6850a"
    },
    {
      "path": "analysis/18_full_reanalysis/synthesis/figures/figure_fresh_full_synthesis.svg",
      "bytes": 60522,
      "sha256": "07a0a742dd412a37a1f95f546efa7cb46450e213f1c3fe5bd4f29493ff8d0446"
    }
  ]
}
