| { |
| "updated_utc": "2026-10-14T13:03:54+00:00", |
| "target": 1000000, |
| "release_complete": true, |
| "inventory": { |
| "stage": "author_inventory_complete", |
| "training_ready": false, |
| "counts": { |
| "swissprot_author_rows": 269003, |
| "afesm_author_rows": 2036414, |
| "targets": 2305417, |
| "clusters": 2036414, |
| "memberships": 8616595, |
| "afesm_representatives_unmapped": 0, |
| "members_with_multiple_clusters": 0 |
| }, |
| "sources": [ |
| { |
| "url": "https://ml-site.cdn-apple.com/models/simplefold/swissprot_list.csv", |
| "sha256": "2daaf33deed592c07c6e5a6debdd20e257643de3ab0a2b1d92bd209f9027c2f6", |
| "bytes": 6187069, |
| "etag": "\"64b045b2dce57309cd634fe95680fd43\"", |
| "last_modified": "Mon, 25 Aug 2025 16:24:05 GMT", |
| "retrieved_unix": 1791914063.4732544, |
| "elapsed_seconds": 0.2080385684967041 |
| }, |
| { |
| "url": "https://ml-site.cdn-apple.com/models/simplefold/afesm_list.csv", |
| "sha256": "5e0551bb6aa53b9c6bdc4c0563db5a284e33b4c2c3dab5a10d3bb10f9cc614ad", |
| "bytes": 45355126, |
| "etag": "\"7aab96dcb7f311b8e865076823d969fb-3\"", |
| "last_modified": "Mon, 25 Aug 2025 16:24:04 GMT", |
| "retrieved_unix": 1791914063.6839595, |
| "elapsed_seconds": 2.505657434463501 |
| }, |
| { |
| "url": "https://ml-site.cdn-apple.com/models/simplefold/afesme_dict.json", |
| "sha256": "b9d0dfc1c89a6b03e6164e41540906e0747bde201dae30a9732c9b393766654f", |
| "bytes": 284342111, |
| "etag": "\"79e417ba36a1876f0f8f6355ba3e429b-17\"", |
| "last_modified": "Mon, 25 Aug 2025 16:24:04 GMT", |
| "retrieved_unix": 1791914066.1934402, |
| "elapsed_seconds": 19.25245428085327 |
| } |
| ], |
| "selection": "No eligible training selection has been made.", |
| "order": "Sort SHA256(SimpleFoldData:cluster-order:v1:seed17: + author cluster ID), then cluster ID.", |
| "caveats": [ |
| "IDs and clusters are author-listed; sequences and coordinates are not yet qualified.", |
| "No homology exclusions or benchmark-reservation closure has been applied." |
| ] |
| }, |
| "swissprot": { |
| "stage": "complete", |
| "counts": { |
| "coordinate_qualified": 263278, |
| "confidence_rejected": 5698, |
| "absent_from_available_archive": 27 |
| }, |
| "elapsed_seconds": 254.6901876926422, |
| "training_selection_complete": false |
| }, |
| "afesm": { |
| "stage": "superseded", |
| "counts": { |
| "coordinate_qualified": 4477, |
| "source_unavailable": 403, |
| "confidence_rejected": 46, |
| "validation_rejected": 2 |
| }, |
| "attempted": 4928, |
| "elapsed_seconds": 1851.2159233093262, |
| "processed_this_job": 4800, |
| "candidate_limit": 850000, |
| "workers": 4 |
| }, |
| "afdb_bulk": { |
| "stage": "complete", |
| "counts": { |
| "coordinate_qualified": 1214204, |
| "validation_rejected": 464863 |
| }, |
| "shards_complete": 1000, |
| "shards_total": 1000, |
| "rows_processed": 1679067, |
| "bytes_complete": 71689983734, |
| "total_bytes": 71689983734, |
| "elapsed_seconds": 2484.246591683477, |
| "shards_this_job": 1000, |
| "source_repository": "timodonnell/afdb-1.6M", |
| "source_revision": "a7ededeb7caeaef3892f40f2e4df3bb9236b02f8", |
| "workers": 4 |
| }, |
| "pdb": { |
| "stage": "batch_complete", |
| "counts": { |
| "entry_processed": 163197, |
| "coordinate_qualified": 457015, |
| "validation_rejected": 22 |
| }, |
| "candidate_entry_limit": 163219, |
| "elapsed_seconds": 32543.90879225731 |
| }, |
| "primary_sources": [ |
| "afdb_bulk", |
| "pdb" |
| ], |
| "curation": { |
| "stage": "complete", |
| "updated_unix": 1791951857.4729214, |
| "source_records_indexed": 1671219, |
| "selected_unique_sequences": 1000000, |
| "eligible_unique_sequences": 1316099, |
| "target_met": true, |
| "release_complete": true, |
| "coordinate_containers_packed": 1084, |
| "coordinate_verified_sequences": 1000000, |
| "coordinate_containers_uploaded": 1084, |
| "coordinate_containers_total": 1084, |
| "structure_release_complete": true, |
| "embedding_release_complete": false, |
| "structures_uploaded": 1000000 |
| }, |
| "upload": { |
| "stage": "swissprot_candidates_uploaded", |
| "structures_uploaded": 263278, |
| "files": { |
| "swissprot/structures/swissprot-00000.tar": { |
| "sha256": "21198a33f0b14294d81abdacadd63e983ae7d750fdbb97320a7f786cca6a4fbc", |
| "bytes": 546170880, |
| "structures": 12156 |
| }, |
| "swissprot/structures/swissprot-00001.tar": { |
| "sha256": "ef0881952784407d54cc7a0d6507ee4d8639ad88345c7df935494ce2365d3eb9", |
| "bytes": 546324480, |
| "structures": 12349 |
| }, |
| "swissprot/structures/swissprot-00002.tar": { |
| "sha256": "241b55fcbc32c05ebaacf40fe51286d01bc5ccd7ebfc8664a3857e28bbc1815e", |
| "bytes": 546232320, |
| "structures": 12229 |
| }, |
| "swissprot/structures/swissprot-00003.tar": { |
| "sha256": "dda013db5386785cd803a5bb979851a307206740541a653f7856f97d78262996", |
| "bytes": 546611200, |
| "structures": 12657 |
| }, |
| "swissprot/structures/swissprot-00004.tar": { |
| "sha256": "363aa30d527ed29a9b51df6e126ca3899fb66a1d0770071e62e0876ca9f25e1b", |
| "bytes": 545894400, |
| "structures": 11754 |
| }, |
| "swissprot/structures/swissprot-00005.tar": { |
| "sha256": "6f1492053135515dbf3aa54761a03c06d79c7372fd21b7ba55420face675ada6", |
| "bytes": 546641920, |
| "structures": 12718 |
| }, |
| "swissprot/structures/swissprot-00006.tar": { |
| "sha256": "1cd8a10f9a5e1f138f75f7367e627de7ad42ac8d5c00a5336e47f20386dffee0", |
| "bytes": 545802240, |
| "structures": 11592 |
| }, |
| "swissprot/structures/swissprot-00007.tar": { |
| "sha256": "aa3f98c558635e06a44a8a317da5720b30a8fe7209ed0191ae5b7264dfa0d521", |
| "bytes": 546938880, |
| "structures": 13133 |
| }, |
| "swissprot/structures/swissprot-00008.tar": { |
| "sha256": "68e297d35228703b3e2200358a9d370bd9419f387aad859330377670ca41e79b", |
| "bytes": 546027520, |
| "structures": 11945 |
| }, |
| "swissprot/structures/swissprot-00009.tar": { |
| "sha256": "ed63c843d341b4474ae5d0bc4d608f0a159769c82b8a00c5a8eb79b3ddf30292", |
| "bytes": 545812480, |
| "structures": 11723 |
| }, |
| "swissprot/structures/swissprot-00010.tar": { |
| "sha256": "73aba2f72cb613553545bf55fd12f06e468f14c49037c17e368f3ff4bc56f8e7", |
| "bytes": 545996800, |
| "structures": 11915 |
| }, |
| "swissprot/structures/swissprot-00011.tar": { |
| "sha256": "d61bd9ec546a36d102d1d2ed5d0fac4ceca1bb015cbd4b805662ec16bc0bef39", |
| "bytes": 546027520, |
| "structures": 11956 |
| }, |
| "swissprot/structures/swissprot-00012.tar": { |
| "sha256": "6437f029e69929ce14c68c6ad87fb625ad9f816ecc3d1c22367844b4065fc1a1", |
| "bytes": 546037760, |
| "structures": 11946 |
| }, |
| "swissprot/structures/swissprot-00013.tar": { |
| "sha256": "f49255da2480d7d2707c16615e0566ee918db4edcf28701ba11c43214c7ef8b8", |
| "bytes": 545720320, |
| "structures": 11514 |
| }, |
| "swissprot/structures/swissprot-00014.tar": { |
| "sha256": "17c03c19c6e66541af21b986dc8b47d56d3c175a945ab71cdd86c336d37f7bd8", |
| "bytes": 545628160, |
| "structures": 11476 |
| }, |
| "swissprot/structures/swissprot-00015.tar": { |
| "sha256": "7d97c707fe94ec945bd4476c688728304027321380215edfddb880e292d52b66", |
| "bytes": 545556480, |
| "structures": 11349 |
| }, |
| "swissprot/structures/swissprot-00016.tar": { |
| "sha256": "aec084474d610de3d879d830724291d5b816d49438583ae33db8b8636a75ec1e", |
| "bytes": 545832960, |
| "structures": 11636 |
| }, |
| "swissprot/structures/swissprot-00017.tar": { |
| "sha256": "103bb40774e8cfe2693d20177ea53e43b834d21a8247a130c5d2e48b9fc2a28f", |
| "bytes": 545832960, |
| "structures": 11684 |
| }, |
| "swissprot/structures/swissprot-00018.tar": { |
| "sha256": "a4e0be3d92e514a030a8b506e139467674a24bc6fc3fee0a8f66b0854468d529", |
| "bytes": 545310720, |
| "structures": 11019 |
| }, |
| "swissprot/structures/swissprot-00019.tar": { |
| "sha256": "2707ba8fb3b1de7f05034cf34af7f02011ec33f0f091c9866694ac7e3318f4b1", |
| "bytes": 545402880, |
| "structures": 11172 |
| }, |
| "swissprot/structures/swissprot-00020.tar": { |
| "sha256": "1762653ea10851c513042d1378e97aee5f646577db0a507c7e67c3fa139c4e7f", |
| "bytes": 545361920, |
| "structures": 11093 |
| }, |
| "swissprot/structures/swissprot-00021.tar": { |
| "sha256": "b4b0fc3c0f87dfbd11448683840d268e9992c307a544986049560b76d7e8918c", |
| "bytes": 545361920, |
| "structures": 11021 |
| }, |
| "swissprot/structures/swissprot-00022.tar": { |
| "sha256": "99b85693c1affe6ff3224ad66665a4b5c30608e2ddfdbec31007d979fd905cc3", |
| "bytes": 161423360, |
| "structures": 3241 |
| } |
| }, |
| "catalog_uploaded": true, |
| "updated_unix": 1791914985.2123396, |
| "swissprot_summary": { |
| "candidate_structures": 263278, |
| "unique_sequences": 219207, |
| "min_length": 16, |
| "max_length": 2551, |
| "total_residues": 83060590, |
| "structures_are_candidates": true, |
| "benchmark_exclusions_applied": false |
| } |
| }, |
| "embeddings": { |
| "stage": "pilot_complete", |
| "embedded_unique_sequences": 60, |
| "pilot_only": true, |
| "total_residues": 30505, |
| "gpu": "NVIDIA B200", |
| "torch": "2.11.0+cu130", |
| "source_unique_sequences_above_2046": 28, |
| "long_sequence_policy": "Retain structures; embeddings beyond 2046 residues need a separately validated policy. No silent cropping.", |
| "bytes": 156194104 |
| }, |
| "jobs": { |
| "inventory": "1320364", |
| "swissprot": "1320405", |
| "afesm_pilot": "1320523", |
| "afesm_collection": "1320554", |
| "pdb_collection": "1320625", |
| "encoder_stage": "1320495", |
| "embedding_pilot": "1320498", |
| "publish_sources": "1320537", |
| "afdb_bulk": "1321100", |
| "finalize_and_publish": "1321145", |
| "hourly_progress": "1337783" |
| }, |
| "scheduler": [ |
| "1320364|COMPLETED|00:01:27|0:0", |
| "1320364.batch|COMPLETED|00:01:27|0:0", |
| "1320364.extern|COMPLETED|00:01:27|0:0", |
| "1320405|COMPLETED|00:04:15|0:0", |
| "1320405.batch|COMPLETED|00:04:15|0:0", |
| "1320405.extern|COMPLETED|00:04:15|0:0", |
| "1320495|COMPLETED|00:01:05|0:0", |
| "1320495.batch|COMPLETED|00:01:05|0:0", |
| "1320495.extern|COMPLETED|00:01:05|0:0", |
| "1320498|COMPLETED|00:00:42|0:0", |
| "1320498.batch|COMPLETED|00:00:42|0:0", |
| "1320498.extern|COMPLETED|00:00:42|0:0", |
| "1320523|COMPLETED|00:00:43|0:0", |
| "1320523.batch|COMPLETED|00:00:43|0:0", |
| "1320523.extern|COMPLETED|00:00:43|0:0", |
| "1320537|COMPLETED|00:02:11|0:0", |
| "1320537.batch|COMPLETED|00:02:11|0:0", |
| "1320537.extern|COMPLETED|00:02:11|0:0", |
| "1320554|CANCELLED by 21014|00:31:03|0:0", |
| "1320554.batch|CANCELLED|00:31:03|0:15", |
| "1320554.extern|COMPLETED|00:31:03|0:0", |
| "1320625|COMPLETED|09:02:24|0:0", |
| "1320625.batch|COMPLETED|09:02:24|0:0", |
| "1320625.extern|COMPLETED|09:02:24|0:0", |
| "1321100|COMPLETED|00:41:25|0:0", |
| "1321100.batch|COMPLETED|00:41:25|0:0", |
| "1321100.extern|COMPLETED|00:41:25|0:0", |
| "1321145|COMPLETED|01:08:29|0:0", |
| "1321145.batch|COMPLETED|01:08:29|0:0", |
| "1321145.extern|COMPLETED|01:08:29|0:0", |
| "1337783|PENDING|00:00:00|0:0" |
| ], |
| "next_update": { |
| "scheduled": true, |
| "job_id": "1337783", |
| "hourly_updates_remaining": 149 |
| }, |
| "queue": [ |
| { |
| "id": "1337783", |
| "name": "simplefold-progress", |
| "state": "PENDING", |
| "start_cluster_time": "2026-10-14T10:03:54", |
| "reason": "(BeginTime)" |
| } |
| ], |
| "queue_timezone": "America/New_York", |
| "estimates": {}, |
| "automation": [ |
| { |
| "stage": "AFDB bulk and PDB collection", |
| "mode": "See job states", |
| "detail": "Pinned AFDB-1.6M coordinate shards replace the API collector. Completed shard validation is checkpointed. PDB collection continues." |
| }, |
| { |
| "stage": "Progress updates", |
| "mode": "Hourly schedule", |
| "detail": "Next job 1337783; 149 scheduled update cycles remain." |
| }, |
| { |
| "stage": "Final deduplication and selection", |
| "mode": "complete", |
| "detail": "Job 1321145 waits for successful AFDB and PDB jobs. Prefer PDB for exact duplicate sequences; select up to one million." |
| }, |
| { |
| "stage": "ESM-C 6B production embeddings", |
| "mode": "Not queued", |
| "detail": "60-sequence pilot complete; full cache production has not been launched." |
| }, |
| { |
| "stage": "Selected coordinates and final manifest upload", |
| "mode": "Included in finalizer", |
| "detail": "Automatically packs and publishes the selected AFDB/PDB coordinates after selection. SwissProt remains a separate preserved source." |
| } |
| ], |
| "eta_note": "Throughput projections for candidate collection only. Planning ranges are 0.75\u20131.5 times the projection, not confidence intervals. Excludes future queue delays, outages, final curation, production embeddings and uploads. End-to-end completion is not yet estimated." |
| } |
|
|
