{
  "pr": 6160,
  "head_before": "1f7733c00bd7847a46d1c025e89f287e3139cc46",
  "main": "a344758bae648a999bbe316e9b1e2289a958d1bc",
  "head_after": "0c8759ed185713b98d8c8b597699db139e2b01b8",
  "preserved_branch_files": 174,
  "history": "history/projects/MODULE_TAXON_AUDIT/2026-11-08T055641Z-codex-e789f9.yaml",
  "local_files_restored": 0,
  "sparse_checkout": true,
  "validation": "history and project rendering passed; fresh remote CI/review pending",
  "enumeration_definition": "Files changed between merge-base(pre-integration head, incoming main) and pre-integration head, excluding the five shared tracker paths; not the diff against incoming main.",
  "preserved_git_blobs": {
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main-20261107-1215.json": "1ab5e88104df0b4bf85440dc57c1d16e3a6cfc42",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main-20261107-1356-closeout.json": "19e21c96faa418a223a20d3ce52ddee083ce6d87",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main-20261107-1356.json": "af3cfeea1eee5148013c3090965a9ed49692c8dc",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main3-integration.json": "70064a2aa5bd029d0618e357928843def61cfa2d",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main4-integration.json": "c9b80117858e09624fb588eba6aa9ba4d6b7aaf0",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main5-integration.json": "17436b4867d102c71c2e8823a1c2b49d50700a42",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/baseline.yaml": "9b6efb6d98e8840ad11ef97241d90279d509e064",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/coverage-evidence.yaml": "89be9deb51d0ea1fef500d9a811f274431210ca7",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/coverage-results.yaml": "3d22f1f3eed4698519d33cbb03d9ca6ff03b3910",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/family-inventory-check.json": "40046317bd5b661a12ab84e8bb12b0ad3b8bad67",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/family-reference-assessments.yaml": "caf37b87f7028306f23bbf6f78822aa02cd676b2",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/full-validation.json": "767732fe6e5c7dac0802a8da9f4975307b07f4c0",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/literature-leads.md": "25e6e62c22ad25ad8fa9c7fef4938907e3776034",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/main-integration-approved-20261107-0950-proof.json": "1fe92c1a71850a2ff09b5df5c55f8feba4a8e92a",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/main-integration.json": "289498668ae518305a8297935b7b7fe84935c13d",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0003723.json": "9078edebced8c66df6e407e2dbdf40847538c61b",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0004349.json": "ba403e73399d668a62261aa5c478c00cb28533f3",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0004350.json": "f5179b190c46d6103d5cf852c6e55697842022c8",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0005524.json": "d540ab47e738bf1c133d4f7b17e0a7a1389c198f",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0005737.json": "1927eefe16bbe15d70dda7d83073e9c64d12d044",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0005829.json": "8f2738c830fb3c4be95ff8cdc3be1b3d08acfe89",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0042802.json": "019b101f63370b1a5dffb81132af1fa505ea8ed9",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0042803.json": "22f9faec1194979a0496c8fba96df48fec747d89",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/GO_0050661.json": "b8127b7027c35ea531a0952921fddad000030439",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/ontology-provenance.yaml": "12e378b5060dbc4ef66aeb1f5326bc581b2cccc1",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/preservation.yaml": "547b09bcd491388cef9d32db2066c40a1d1a7db9",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/scientific-findings.yaml": "c56cbd155e9d9ccc834fe6192ad378dae57019c0",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/validation.yaml": "1a788c643c29f1ab4e47ac02cab0b4fb81cd55fc",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/verify_preservation.py": "1b744bfe872c56aacf808d99c9a109ed83f51c5f",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/member-review/yeast-baseline.yaml": "8002e1a90f9bdc8e795b542a2f98b78de68e1a03",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/new-member-consultation.json": "8c59d214bc56b77a2a09fdb0034b908d70f5607c",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/new-member-consultation.md": "6bcf790cb95ebf91878289c91cbed0466e5fe8ea",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/new-member-seed-baseline.yaml": "e404209670996cdac236687d6cc455b96e025165",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/before.json": "6ea3866231a433e2847024bccde0bab7a3346453",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/check-results.json": "0318b1df2fa9b26919414b071f51df02b2287916",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/handoff.json": "cbfe2bc85f2ff5b52525d4b8bf3b3325127b8b7d",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/preservation-proof.json": "cae8fed73ae7bf07a210035fac23c615464fb350",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/record-sections.log": "a3b30c9a7fd4dc916221b79cf2b61ae42d1d915a",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/render.log": "96f49f30ce5226b5711f3a8898eae2a75a02a8aa",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/report.md": "f4dd650544e01f5d13b857cd089a5ba0a9af57e9",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/stage-path-hashes.json": "b60460b7cc9d84692838deff4b15f0ac756c447c",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/stage-paths.json": "fb58e1499a1d442c8301b35271e344a923c495e4",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/validate-history.log": "544c61f455d17e037d851eb13283ddf1bad5fcb2",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/validate.log": "1d71a9615aebb0a1e1aa4dff3126411b3fbb36d0",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-localization-followup-20261107/verify_and_seal.py": "8b7ed3eaa7965d2cc9698ec5a614cbc7fddfb486",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-root-ready-20261107.json": "24268bc09792853eb8172ef1920fa1bebd43a070",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/README.md": "ac3ecfad7b242b1c8a3cf1c068626d64749152fa",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/capture.py": "f29d5f3f1c38525893f8e3e818c49f6af437e11a",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/check.py": "d1159fec85fa02968433a9840e9fd07f647e15a8",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/checks.json": "9937ef30791a938b20f3cd5021850839305537ef",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/citation-graph.json": "9c2baf802c829b3203989744fdea00aedcf3d405",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/handoff.json": "e48441e247846645ad663a0c6608546565af4520",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/inputs.json": "c432dba73505a394494deb14a1e3fed1e797b22b",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/prior-and-supersession.json": "20356aa2380b129a7b941a8ce3ed464902449c95",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/prior-publication-manifest.json": "f5ec956288176ff1bad735493fdc0a1c82c6ed0b",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/provider-boundaries.json": "6a4722332a16c0f756dd205205b10ead2d1fbb59",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-source-closure-20261107/publication-access.json": "24a59c93b9ee76b0481a0f2735e3adcb1ec11506",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/provenance-correction-20261107.json": "6461db38db7a63d9f708db18e1fde45e8b06586e",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/root-verification.json": "f0359d9a33955160a393e8e68994d99ac4ac8b01",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-family-change-proof.json": "68b9ab8991c0bbbb02e67c75b36ea45a4962afb8",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-focused-validation.json": "5f84236f6959c2ed79d9ebcf35dc57de9f97f139",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-full-run.json": "82e2d1024e5d24962e8a05a3b11791c26da45be9",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-gene-review/findings.md": "9082965db41909fb03a3a6839514d1f4c153819b",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-gene-review/frozen-inputs.json": "a0f5a05780b7abbe5e77137640e1fd103db47b90",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-gene-review/preservation.json": "15465b357965c6400f05b132d46542ce89b3d8bd",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-gene-review/validation-results.json": "7260f841af7030f59ce87d1e3d688f99345e9308",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-gene-review/verify_preservation.py": "fee8887a1e4b450cc683bbf3927f8f7d3802470a",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-main-integration.json": "8fe83b361b478b8b3bea61863712bbef57ab18a0",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-review-response.md": "95ba2864ccbf10be40d15188fe3e85e960b8ef1f",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-root-receipt.json": "c5eaca4c872ff99e8b27ec430e810fa6a53f5974",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/tracker-currency-20261107.json": "929ab50de1d7af8f5182cbac89bb35b54cd0ba05",
    "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/whitespace-normalization.json": "7a415a128a4ddae5f33842355eb188531b917bf1",
    "genes/BACSU/proA/proA-ai-review.html": "f047691ff38966a7e487a790b10155d153bbeb88",
    "genes/BACSU/proA/proA-ai-review.yaml": "689e25a7accb234d34d6fe6247484620cbf6f961",
    "genes/BACSU/proA/proA-goa.tsv": "c520657d71df5f0e4f6cb77811a8e63e1ff13119",
    "genes/BACSU/proA/proA-notes.md": "37ce2d7fdda7165c7ce8310179782192e3196ace",
    "genes/BACSU/proA/proA-uniprot.txt": "ebd588edb5f354e8eb1c64112938ad907fc7818d",
    "genes/BACSU/proB/proB-ai-review.html": "91c9a014187fd1db3e076b33c43e782d30610268",
    "genes/BACSU/proB/proB-ai-review.yaml": "7ab29c4a043c6095d715e0718740411127ac20aa",
    "genes/BACSU/proB/proB-goa.tsv": "455478b298c5da3d0b96c0c939801c512a1cbc8a",
    "genes/BACSU/proB/proB-notes.md": "85a60b6c96eab097d76bd3b04ba78b00994f90f7",
    "genes/BACSU/proB/proB-uniprot.txt": "a9858061ce70ca672123aa55cb5d2ca0dfc0cf5a",
    "genes/BACSU/proJ/proJ-ai-review.html": "7493f9b8f5b404d7a74d0d5cdaf5e65b14afdb82",
    "genes/BACSU/proJ/proJ-ai-review.yaml": "63af179f2558ceb0716fbb1f3de76f245e5d0d07",
    "genes/BACSU/proJ/proJ-goa.tsv": "fe6b07fd9d2f5092a2500380cd72e532f7b67f5a",
    "genes/BACSU/proJ/proJ-notes.md": "592b29b0d6cfab3fb6b1f1613c4d345abcdb1f90",
    "genes/BACSU/proJ/proJ-uniprot.txt": "3d4a087208b0f4292b85127dcc081f6ddc0c24aa",
    "genes/CORGL/proA/proA-ai-review.html": "7e3ea0aa6ab64b42c73ab5c42cc687caff4a1fcd",
    "genes/CORGL/proA/proA-ai-review.yaml": "01bc7988a7ac075298bedffe13eabd5965e3ccc0",
    "genes/CORGL/proA/proA-goa.tsv": "1d181d24765f680d5c2ae817cce5d10d4bd9e093",
    "genes/CORGL/proA/proA-notes.md": "7cd7f13834961517e3a0316b826b4e7fef29ad3a",
    "genes/CORGL/proA/proA-uniprot.txt": "996e7c807f2e45eb80bf6b9f4997c39c537a955a",
    "genes/CORGL/proB/proB-ai-review.html": "dd04a41b3854cba394d10293d93949bac5a95a97",
    "genes/CORGL/proB/proB-ai-review.yaml": "ff056c4998dbfd9c29f617a6c78d988dd832daeb",
    "genes/CORGL/proB/proB-goa.tsv": "c1ca25d35f2eadd3c1db1da61865cdb8170b5045",
    "genes/CORGL/proB/proB-notes.md": "1925010a4c71f346c05a350b5f7a513e7a6772fe",
    "genes/CORGL/proB/proB-uniprot.txt": "09ae5f007cb40ad78b6349c0b4827eee239a027a",
    "genes/ECOLI/proA/proA-ai-review.html": "d8669373c364edddfb4d2c95112a15c8eeb9530c",
    "genes/ECOLI/proA/proA-ai-review.yaml": "113f5b2adab6a59c27f995b15c1106eb9458b805",
    "genes/ECOLI/proA/proA-notes.md": "ffd077dbd890864fe252359ea89ad9e7025e6714",
    "genes/ECOLI/proB/proB-ai-review.html": "a49be8715059f59861e5ae92408302d48ee2544c",
    "genes/ECOLI/proB/proB-ai-review.yaml": "f399e0c338ceabf6b5187cf91d9731b293d5d003",
    "genes/ECOLI/proB/proB-notes.md": "a85a5b8531e5a2852e885637e0b833508fdab7dc",
    "genes/PSEPK/proA/proA-ai-review.html": "9d765f886dfb5eb3bb8db3952259385fbb426330",
    "genes/PSEPK/proA/proA-ai-review.yaml": "cd5c11f1a48e31a74fff4b35ae6b96e2a170dd30",
    "genes/PSEPK/proA/proA-notes.md": "741297533f3019df7a0441b70223a5307b9b408e",
    "genes/PSEPK/proB/proB-ai-review.html": "e081a646dfe415565d51c31d7b2afca0a5846148",
    "genes/PSEPK/proB/proB-ai-review.yaml": "48d6794b40df3ef7bee697d8ff85a1e388ad0e21",
    "genes/PSEPK/proB/proB-notes.md": "9ebf1757e63232c739be764e60ff225586983087",
    "genes/SCHPO/SPAC17H9.13c/SPAC17H9.13c-ai-review.html": "c9c4ed3390ab7f9cb1ebe5ef82938632e05fe2ec",
    "genes/SCHPO/SPAC17H9.13c/SPAC17H9.13c-ai-review.yaml": "9896b3017f01558dc6b3e28dcb53fcb7b91cfbe7",
    "genes/SCHPO/SPAC17H9.13c/SPAC17H9.13c-notes.md": "3756d99f0be60bda0da9d6f6ae7962528ff610b0",
    "genes/yeast/PRO1/PRO1-ai-review.html": "5107a95f51086ef6938cc600ecf05a8eb826849a",
    "genes/yeast/PRO1/PRO1-ai-review.yaml": "2d47fd2c318773214ec0876f0b8299fcba5ba362",
    "genes/yeast/PRO1/PRO1-notes.md": "c711e3ecb92fe789bbeedf68e5afeecc8007f37f",
    "history/genes/BACSU/proA/2026-11-07T001645Z-codex-be9689.yaml": "55645dc3771f35dc039ad731c91695b3fe7a61d9",
    "history/genes/BACSU/proA/2026-11-07T022357Z-codex-93ad8a.yaml": "f0a151365484eef6a2dbe542db55a684eced433a",
    "history/genes/BACSU/proA/2026-11-07T141916Z-codex-977c55.yaml": "da81a629ba1e37e129199ccb762259b33868a172",
    "history/genes/BACSU/proB/2026-11-07T001647Z-codex-12ad1e.yaml": "891c6524ff0831f83ee8c24b3e9dbd6404910f8b",
    "history/genes/BACSU/proB/2026-11-07T022412Z-codex-559ad6.yaml": "888ac43a8e1efcf2887ecc25b1d520ae1eeb4ad6",
    "history/genes/BACSU/proJ/2026-11-07T001650Z-codex-ae638f.yaml": "aad6f1ec64d7c9185cea7fc962abbb73d9fa183f",
    "history/genes/BACSU/proJ/2026-11-07T022426Z-codex-96f22b.yaml": "32a8acb70068100a59ef5eb5684059e00805fd5b",
    "history/genes/CORGL/proA/2026-11-07T001653Z-codex-8385df.yaml": "39c257a6e1c5938d72962b4f2daea123dc5335a8",
    "history/genes/CORGL/proA/2026-11-07T022438Z-codex-2cb587.yaml": "031c8ae8b64c1bc32c26b83346108b050f38a68b",
    "history/genes/CORGL/proB/2026-11-07T001656Z-codex-65257d.yaml": "23c01adae2dde252c6f03ebdc74fcb429261ff4c",
    "history/genes/CORGL/proB/2026-11-07T022450Z-codex-2fbc20.yaml": "692402af57d73ee98a40b0d8329a04136f97958f",
    "history/genes/ECOLI/proA/2026-11-07T001544Z-codex-7e1e33.yaml": "deb6448147eb7441322318a7ed30209d7c4c657a",
    "history/genes/ECOLI/proB/2026-11-07T001548Z-codex-2c5a63.yaml": "cceaea764119b9e9cbca2b5f2ac287b90b2679e1",
    "history/genes/PSEPK/proA/2026-11-07T001550Z-codex-eba693.yaml": "558fadb13d01f7d03778043aa7d65056bd83c1fa",
    "history/genes/PSEPK/proB/2026-11-07T001552Z-codex-1bfc8d.yaml": "c0c60fee71f2915f496171624603d63cc85e8a84",
    "history/genes/PSEPK/proB/2026-11-07T022345Z-codex-bea2f4.yaml": "727a11397c0389ee975a90f94eb98b7af695fc25",
    "history/genes/SCHPO/SPAC17H9.13c/2026-11-07T001556Z-codex-a39e30.yaml": "d7656d820a18c950f668c29ca3bce7929c5db1a3",
    "history/genes/SCHPO/SPAC17H9.13c/2026-11-07T022519Z-codex-c26873.yaml": "09cf0b26709ef663b282159ddec8e0862b3894b5",
    "history/genes/yeast/PRO1/2026-11-07T001554Z-codex-0a7f37.yaml": "d9e63188775ba3e6c836cc86c1b28b4f55f0a5ca",
    "history/genes/yeast/PRO1/2026-11-07T022503Z-codex-39590a.yaml": "9f8123ed0db96bdbcf1c32534d9e8142da390b67",
    "history/modules/bacterial_glutamate_to_p5c_biosynthesis/2026-11-07T002106Z-codex-0f57f5.yaml": "de1b80800cd9127370d35e35c82a027dd3f43566",
    "history/modules/bacterial_glutamate_to_p5c_biosynthesis/2026-11-07T022951Z-codex-a77772.yaml": "3761d60cab63440572a1d30a51496ed96d8bf4e6",
    "history/other/PTHR43654/2026-11-07T002112Z-codex-ac4c24.yaml": "eebcc389e4f74ccad636c4491ff22fe764bd0975",
    "history/other/PTHR43654/2026-11-07T022949Z-codex-341426.yaml": "cf9f853e16fd7d6905b007b5b908dab394e4c00b",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T003139Z-codex-0e5078.yaml": "3cdc1f118fdd7507da5136e16fe62810c044d102",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T013906Z-codex-9bfb74.yaml": "f488ae3424ab4056f297ea73b9eca3174e0cd1bb",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T013956Z-codex-63e9e1.yaml": "0b43af5943ebbdc4c06c032772b3c3c9c1861408",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T014138Z-codex-014950.yaml": "814d6af1d2852ecb8363b70169d96cb8b53ac898",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T022953Z-codex-1adbbc.yaml": "11d5bf2c82b5756a3a84de4b1ad16d24fe9d676d",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T033910Z-codex-18e78b.yaml": "c6ccaa516439d027f8162d7c70f00227f100906d",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T034111Z-codex-5ecf3e.yaml": "1c55cbb324ce35a6a4bcefcdea3469a8f306de62",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T034324Z-codex-1e580f.yaml": "1458b4fa9907eeded2059c464a03e1a56e88d6ad",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T050318Z-codex-90e734.yaml": "ed6367c4035a6999227ef27b875654000a2cb26e",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T065005Z-codex-aa7c23.yaml": "ae406c78b98a76b293736c199f0f15752f39ea19",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T065138Z-codex-20647d.yaml": "b85a7dbc173551709987d512eade15d5f3f9c763",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T070353Z-codex-cacb85.yaml": "089a98956369ec5aefd014cbb3713acb2e9337bc",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T074809Z-codex-6287d9.yaml": "45b970782d962bac436980c7bc26a0606d63e570",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T074920Z-codex-fd5c12.yaml": "97c34c5a71879f3a45d6fec3262b17d95165d476",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T094922Z-codex-87a66f.yaml": "b289d1312aef26e943266b751ede68be4be36991",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T095101Z-codex-c0023f.yaml": "fc838adedc184154c38123cae51b20b79403bd4d",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T113503Z-codex-0bc0b1.yaml": "10d1b81d7939c99f0fcd837344a668ab84e7f9c3",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T121037Z-codex-83a784.yaml": "ea37de594039e50b99736984c194dc7a3f98e8b1",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T135545Z-codex-9952fa.yaml": "83d214a53583b35151cff362f322ae8c19b36aee",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T135643Z-codex-2804d8.yaml": "b4214cab3d6b0bdedce957b3f71a14ddcc6f7e22",
    "history/projects/MODULE_TAXON_AUDIT/2026-11-07T142242Z-codex-0c27fc.yaml": "54267e7c2568de1a18f1ee9c9e5dc20fd7e6be7e",
    "interpro/panther/PTHR43654/PTHR43654-review.yaml": "373460797e633c848ed141491fcac5b0fc7d87fd",
    "modules/bacterial_glutamate_to_p5c_biosynthesis-notes.md": "0ab54d154c11239f79cd4e41b179f078c6df31c8",
    "modules/bacterial_glutamate_to_p5c_biosynthesis-source-analysis/check_coverage.py": "cee2bddbb58378ed2778dde1151e3f095cfe6371",
    "modules/bacterial_glutamate_to_p5c_biosynthesis-source-analysis/controls/Q8H1F7-uniprot.txt": "e78871bffe6d93930c36c8efe90bf31bbda1575a",
    "modules/bacterial_glutamate_to_p5c_biosynthesis-source-analysis/controls/provenance.json": "81d7666f211f5478616874bfd34d91e6a3ed3429",
    "modules/bacterial_glutamate_to_p5c_biosynthesis.yaml": "d305b27a1e18e8974531e4c2e4e1c8988b00d2fa",
    "pages/modules/bacterial_glutamate_to_p5c_biosynthesis.html": "48de789c8fcfa3f40922df8a0dd3117711619c23",
    "publications/PMID_21784929.md": "d4c7b930c830518ac95fa4c8c83cd0007078b62c",
    "publications/PMID_25367752.md": "dd7b8bc7a4e493022d5b688557f92e30427f8f68",
    "publications/PMID_26443591.md": "96c59c560b43ce08cb07f6256e6b6b0587ee980b",
    "publications/PMID_37511294.md": "ee01c56b1e51fc7cb1ad343bcff9ea6cf62bef5f",
    "publications/PMID_39514317.md": "bc87de156c85e345d686e282029218044257055d",
    "publications/PMID_8083159.md": "15d8c12c193db4ac7f89f5d113a7014538822ad9",
    "publications/PMID_8755867.md": "92d1354d438a463626ab0bf3f41e87f7512bc5af"
  },
  "verified_at_head": "0c8759ed185713b98d8c8b597699db139e2b01b8",
  "ledger_counts": {
    "COMPLETE": 37,
    "NOT_STARTED": 726,
    "IN_PROGRESS": 3,
    "PR_OPEN": 11
  },
  "prior_tracker_row": {
    "module": "bacterial_glutamate_to_p5c_biosynthesis",
    "path": "modules/bacterial_glutamate_to_p5c_biosynthesis.yaml",
    "declared_status": "COMPLETE",
    "audit_status": "PR_OPEN",
    "related_open_prs": [
      6160
    ],
    "annotons": 2,
    "annotons_with_family": 2,
    "annotons_with_direct_evidence": 2,
    "representative_accessions": [
      "UniProtKB:O07509",
      "UniProtKB:P07004",
      "UniProtKB:P0A7B5",
      "UniProtKB:P0C1E0",
      "UniProtKB:P0C1E2",
      "UniProtKB:P39820",
      "UniProtKB:P39821",
      "UniProtKB:Q88DL4",
      "UniProtKB:Q88Q07"
    ],
    "has_root_taxon_context": true,
    "audit_evidence": {
      "base_commit": "0f30fca1c9c7dbe4d545d6fba1c42ab48c14825d",
      "phase": "PR #6160 follow-up refines Bacillus subtilis ProA from cytoplasm to inferred cytosol using target HAMAP/soluble reductase architecture and native-locus E. coli ProA imaging. Cytosol includes protein complexes; transient associations are not a reason to exclude it. This is comparative inference, not a Bacillus localization assay. All seven original ProA annotation payloads are preserved, with no NEW rows. Focused validation, history and rendering pass; 177 prior nonshared files are unchanged and three gene files have explicit successors. The current evidence closure verifies 225 inputs and 189 citation edges. Fresh full validation, publication and review remain pending; auto-merge is held.",
      "completed_gene_reviews": 9,
      "bounded_comparator_edits": 2,
      "module_references": 7,
      "comparative_reviews": 2,
      "mined_findings": 14,
      "coverage_cases_passed": 33,
      "preserved_annotation_rows": 123,
      "added_annotation_rows": 0,
      "proof": "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/root-verification.json",
      "full_validation": {
        "status": "TERMINAL",
        "head": "dea61b999950240d98a37193e419ef8b9c25299f",
        "manifest_files": 162,
        "started_at": "2026-11-07T02:36:22.404140+00:00",
        "log": ".cache/module-audit-logs/glutamate-p5c-20261107/round1/validate-all.log",
        "exit_code": 0,
        "finished_at": "2026-11-07T03:37:37.345827+00:00",
        "log_sha256": "5f50e12d0baaa48b31dfd26efbac57f708778a223e1ae86fa958a6b285005635",
        "review_count": 10740,
        "ontology_label_advisories": 115,
        "reference_advisories": 53,
        "best_practice_warnings": 27613,
        "result": "PASS",
        "blocking_errors": 0,
        "pathway_checks": 54,
        "frozen_inputs_verified": 162,
        "verified_at": "2026-11-07T03:39:10.365801+00:00",
        "limits": "Full gene-corpus validation on the recorded science head. Separate focused module/family/member/history/render checks precede this run. Main integration and subsequent review/CI are separately reported."
      },
      "fullrun_proof": "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/round1-full-run.json",
      "pr": 6160,
      "pr_url": "https://github.com/ai4curation/ai-gene-review/pull/6160",
      "latest_main_integration": "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main-20261107-1356.json",
      "latest_incoming_main": "d7638df804395ce8c81baeea891fd75b60d58d39",
      "progress": "PR #6160 follow-up refines Bacillus subtilis ProA from cytoplasm to inferred cytosol using target HAMAP/soluble reductase architecture and native-locus E. coli ProA imaging. Cytosol includes protein complexes; transient associations are not a reason to exclude it. This is comparative inference, not a Bacillus localization assay. All seven original ProA annotation payloads are preserved, with no NEW rows. Focused validation, history and rendering pass; 177 prior nonshared files are unchanged and three gene files have explicit successors. The current evidence closure verifies 225 inputs and 189 citation edges. Fresh full validation, publication and review remain pending; auto-merge is held.",
      "provenance_correction": "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/provenance-correction-20261107.json",
      "preserved_files_in_correction": 176,
      "latest_main_integration_head": "792737333217fb656bc99c6d93e2d6d22fcf1220",
      "publication_closeout": "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/approved-main-20261107-1356-closeout.json",
      "review_followup": "analysis/module_audits/bacterial_glutamate_to_p5c_biosynthesis/proa-root-ready-20261107.json",
      "current_full_validation": "NOT_RUN_PROA_LOCALIZATION_CORRECTION"
    },
    "progress": "PR #6160 follow-up refines Bacillus subtilis ProA from cytoplasm to inferred cytosol using target HAMAP/soluble reductase architecture and native-locus E. coli ProA imaging. Cytosol includes protein complexes; transient associations are not a reason to exclude it. This is comparative inference, not a Bacillus localization assay. All seven original ProA annotation payloads are preserved, with no NEW rows. Focused validation, history and rendering pass; 177 prior nonshared files are unchanged and three gene files have explicit successors. The current evidence closure verifies 225 inputs and 189 citation edges. Fresh full validation, publication and review remain pending; auto-merge is held.",
    "audit_pr": 6160,
    "audit_note": "PR #6160 follow-up refines Bacillus subtilis ProA from cytoplasm to inferred cytosol using target HAMAP/soluble reductase architecture and native-locus E. coli ProA imaging. Cytosol includes protein complexes; transient associations are not a reason to exclude it. This is comparative inference, not a Bacillus localization assay. All seven original ProA annotation payloads are preserved, with no NEW rows. Focused validation, history and rendering pass; 177 prior nonshared files are unchanged and three gene files have explicit successors. The current evidence closure verifies 225 inputs and 189 citation edges. Fresh full validation, publication and review remain pending; auto-merge is held."
  },
  "limits": [
    "No fresh full-corpus run is claimed by a preservation check.",
    "Later curated changes require their own validation and receipt."
  ]
}
